Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_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: 2808856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:845932 original size:5 final size:5
Alignment explanation
Indices: 845919--845967 Score: 89
Period size: 5 Copynumber: 9.6 Consensus size: 5
845909 ATAAAATAGA
845919 AAATAG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAA
1 AAAT-G AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAA
845968 AAAATAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 39 0.91
6 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:845982 original size:11 final size:11
Alignment explanation
Indices: 845966--845990 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
845956 AATGAAATGA
845966 AAAAAATAAAT
1 AAAAAATAAAT
845977 AAAAAATAAAT
1 AAAAAATAAAT
845988 AAA
1 AAA
845991 GAAGTGGGAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:848033 original size:106 final size:106
Alignment explanation
Indices: 847841--848726 Score: 1228
Period size: 106 Copynumber: 8.5 Consensus size: 106
847831 GCATTGTTCC
* * ** * *
847841 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGGTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * *
847905 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
847947 GAGTCCAATATGCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
848012 CCAGCGGTCCCTTTGTCGTGAAGTTGAATTTGCGTTGGCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
848053 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
848118 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGCTGTGTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
848159 GAGTTCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * *
848224 CCAACGGTCCCTTCGTCGTGAAGTTAAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
848265 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
848330 CTAGCAGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
848371 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
848436 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
848477 GAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATTGGAAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTATTGACA
848541 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
848583 GAGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
848636 ACAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
848677 GAGTCCAATATCATTCGCTATGAAGTTGAAATTGGCTCT-AGAATTGGGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAA
848727 GCCCCTTCGT
Statistics
Matches: 700, Mismatches: 63, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
94 78 0.11
95 3 0.00
96 1 0.00
99 3 0.00
100 4 0.01
101 3 0.00
104 2 0.00
105 5 0.01
106 600 0.86
107 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:848679 original size:94 final size:94
Alignment explanation
Indices: 848518--848711 Score: 325
Period size: 94 Copynumber: 2.1 Consensus size: 94
848508 TTGACTCTAG
* *
848518 AATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAAAATTGTTTATTGACAAACAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
848583 GAGTCCAATATCCTTCGTTGTGAAGTTGA
66 GAGTCCAATATCATTCGCTATGAAGTTGA
* *
848612 AATTGGGAAATTGTTTATTGACAAACAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTG
1 AATTGGAAAATTGTTTATTGACAAACAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTG
848677 GAGTCCAATATCATTCGCTATGAAGTTGA
66 GAGTCCAATATCATTCGCTATGAAGTTGA
848706 AATTGG
1 AATTGG
848712 CTCTAGAATT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (94 bp):
AATTGGAAAATTGTTTATTGACAAACAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTG
GAGTCCAATATCATTCGCTATGAAGTTGA
Found at i:852857 original size:3 final size:3
Alignment explanation
Indices: 852849--852894 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
852839 AAATTAGTTA
852849 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
852894 A
1 A
852895 GAAAATAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:852901 original size:22 final size:22
Alignment explanation
Indices: 852849--852933 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 22
852839 AAATTAGTTA
*
852849 AATAATAAT-AATAATAATAAT
1 AATAAAAATAAATAATAATAAT
*
852870 AATAATAATAAATAATAATAA-
1 AATAAAAATAAATAATAATAAT
* *
852891 AATAGAAAATAGAAATGAAAAAAAAT
1 AATA-AAAAT--AAAT-AATAATAAT
852917 AAATAAAAAATAAATAA
1 -AAT-AAAAATAAATAA
852934 AGAAGTGGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
21 13 0.25
22 15 0.28
24 6 0.11
25 10 0.19
27 8 0.15
28 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (22 bp):
AATAAAAATAAATAATAATAAT
Found at i:854227 original size:2 final size:2
Alignment explanation
Indices: 854216--854264 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
854206 AGAATTAATA
854216 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
854255 AT AT A- AT AT A
1 AT AT AT AT AT A
854265 CTAATAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:866176 original size:22 final size:19
Alignment explanation
Indices: 866147--866186 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
866137 TACAAGAGAG
866147 TTTACACTCACTGTTTTTTTA
1 TTTACACT--CTGTTTTTTTA
866168 TTTATCACTCTGTTTTTTT
1 TTTA-CACTCTGTTTTTTT
866187 CCAGGTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.15, C:0.17, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTACACTCTGTTTTTTTA
Found at i:866663 original size:3 final size:3
Alignment explanation
Indices: 866657--866691 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
866647 TTATTAGTAT
866657 TAA TAA TAA TAA TAA TAA TAA TAA TCAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
866692 TATATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:867359 original size:11 final size:11
Alignment explanation
Indices: 867339--867368 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
867329 GGTTAGATAA
867339 AAAT-AATATT
1 AAATAAATATT
867349 AAATAAATATT
1 AAATAAATATT
867360 AAATAAATA
1 AAATAAATA
867369 ACAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAAATATT
Found at i:867453 original size:14 final size:15
Alignment explanation
Indices: 867434--867473 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
867424 AAATAAGTAA
867434 AATAAA-AAAAAATG
1 AATAAATAAAAAATG
867448 AATAAATAAAAAAT-
1 AATAAATAAAAAATG
*
867462 ATTAAATAAAAA
1 AATAAATAAAAA
867474 CGAAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AATAAATAAAAAATG
Found at i:867469 original size:18 final size:18
Alignment explanation
Indices: 867419--867471 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
867409 AAAGGAGAGG
* *
867419 AAAATAAATAAGTAAAATA
1 AAAAAAAATAAAT-AAATA
*
867438 AAAAAAAATGAATAAATA
1 AAAAAAAATAAATAAATA
* *
867456 AAAAATATTAAATAAA
1 AAAAAAAATAAATAAA
867472 AACGAAAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAAAAAATAAATAAATA
Found at i:867539 original size:4 final size:4
Alignment explanation
Indices: 867530--867560 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
867520 ATAAAAAAGG
*
867530 TAAA TAAA TAAA TAAA TAAA TACA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
867561 TAATGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:867540 original size:17 final size:17
Alignment explanation
Indices: 867497--867541 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
867487 GAAAATAATA
*
867497 AAAT-AATAATAAAGGG
1 AAATAAATAAAAAAGGG
*
867513 AAATAAAATAAAAAAGGT
1 AAAT-AAATAAAAAAGGG
867531 AAATAAATAAA
1 AAATAAATAAA
867542 TAAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 7 0.28
18 14 0.56
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (17 bp):
AAATAAATAAAAAAGGG
Found at i:867740 original size:20 final size:22
Alignment explanation
Indices: 867709--867754 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
867699 CTAAAATAAC
867709 AAAACAAGAACTTAAAAGG-CT
1 AAAACAAGAACTTAAAAGGCCT
*
867730 AAAAC-AGAACTTTAAAGGCCT
1 AAAACAAGAACTTAAAAGGCCT
867751 AAAA
1 AAAA
867755 ACAATATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAACAAGAACTTAAAAGGCCT
Found at i:872871 original size:202 final size:200
Alignment explanation
Indices: 872443--872899 Score: 455
Period size: 202 Copynumber: 2.3 Consensus size: 200
872433 AACCATTCTG
* ** * * * *
872443 AACACTATTTTTACACTGCTTAGAATGTCTCGTATGCCA---ATACTAGCCTCAATTGAAACATA
1 AACACGATTTTTACACCACTTAGAATGTCTCATATG-TATTGATACTAGCCTAAATTAAAACATA
* * ** *
872505 AGTACTAATACTAAACCTATAATCTTATAAATTACAAAAAAAAATTAGGTTAACTACCTGAAAAT
65 AGTACAAATACTAAACCTATAATCTTATAAATTAC-AAAAAAAATTAGATTAACTACCAAAAAAA
** * * * **
872570 ACCCAGCCTGAGCATGTATATCAAGCCATTTTAGCTTCTTCATGCAGAAAACTAAGCTTTGGAAC
129 AAACACCCCGAGCATCTATATCAAGCCATTTTAGCTTCTTCATGCAGAAAACTAAGCGGTGGAAC
* *
872635 CATTTTG
194 AATTTTC
* *
872642 AACACTATTTTTACACCACTTAGAATGTCTCATATGTTTTGATACTAGCCTAAATTAAAACATAA
1 AACACGATTTTTACACCACTTAGAATGTCTCATATGTATTGATACTAGCCTAAATTAAAACATAA
* ** *
872707 GTACAAATATTATGCCTCTAATCTTATAAATTAC-AAAAAAATTAGATTAACTACCAAAAAAAAA
66 GTACAAATACTAAACCTATAATCTTATAAATTACAAAAAAAATTAGATTAACTACC-AAAAAAAA
872771 AACATCCCCCGAGCAATCCTAT-T-AAGCCATTTTAGCTTCTTCATGCAGAAAAAC-AAGCGGTG
130 AACA--CCCCGAGC-AT-CTATATCAAGCCATTTTAGCTTCTTCATGCAG-AAAACTAAGCGGTG
* *
872833 TATCAATTTTC
190 GAACAATTTTC
** * *
872844 AATGCGATTTTTA-A-CACGTTTAGAATGTCTCGTATGTATTGATATTAGCCTCAAAT
1 AACACGATTTTTACACCAC--TTAGAATGTCTCATATGTATTGATACTAGCCT-AAAT
872900 GAAAGATGAA
Statistics
Matches: 213, Mismatches: 33, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
199 53 0.25
200 10 0.05
201 52 0.24
202 83 0.39
203 12 0.06
204 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (200 bp):
AACACGATTTTTACACCACTTAGAATGTCTCATATGTATTGATACTAGCCTAAATTAAAACATAA
GTACAAATACTAAACCTATAATCTTATAAATTACAAAAAAAATTAGATTAACTACCAAAAAAAAA
ACACCCCGAGCATCTATATCAAGCCATTTTAGCTTCTTCATGCAGAAAACTAAGCGGTGGAACAA
TTTTC
Found at i:877831 original size:16 final size:17
Alignment explanation
Indices: 877791--877841 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 17
877781 GTTATTTTTG
877791 TTTATTTAATTTATTT-
1 TTTATTTAATTTATTTA
*
877807 TCTATTTAATTTATTTA
1 TTTATTTAATTTATTTA
*
877824 TTTA-TTAATAT-TTTA
1 TTTATTTAATTTATTTA
877839 TTT
1 TTT
877842 TTAGGAACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.23
16 21 0.68
17 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTTAATTTATTTA
Found at i:888169 original size:40 final size:40
Alignment explanation
Indices: 888114--888202 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
888104 TTGTCTTTTG
* *
888114 ATATCGATATTGAACCCCGAGTATTGATACCCAATGAAAA
1 ATATCGATATCGAACCCAGAGTATTGATACCCAATGAAAA
888154 ATATCGATATCGAACCCAGAGTATTGATACCCAATGAAAA
1 ATATCGATATCGAACCCAGAGTATTGATACCCAATGAAAA
888194 ATATCGATA
1 ATATCGATA
888203 CCCCAAGAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (40 bp):
ATATCGATATCGAACCCAGAGTATTGATACCCAATGAAAA
Found at i:888204 original size:20 final size:20
Alignment explanation
Indices: 888139--888205 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
888129 CCCGAGTATT
888139 GATACCCAATGAAAAATATC
1 GATACCCAATGAAAAATATC
* * *** * * *
888159 GATATCGAACCCAGAGTATT
1 GATACCCAATGAAAAATATC
888179 GATACCCAATGAAAAATATC
1 GATACCCAATGAAAAATATC
888199 GATACCC
1 GATACCC
888206 CAAGAACAAG
Statistics
Matches: 31, Mismatches: 16, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.21
Consensus pattern (20 bp):
GATACCCAATGAAAAATATC
Found at i:895799 original size:30 final size:31
Alignment explanation
Indices: 895752--895855 Score: 165
Period size: 31 Copynumber: 3.4 Consensus size: 31
895742 TTCAACGTCC
895752 AAGTGACCAAAACTTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAATGATAACGT
*
895783 AAGTGA-CAAAATTTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAATGATAACGT
* * *
895813 AAGTGACAAAAACTTAATAAAACGATAATGT
1 AAGTGACCAAAACTTAATAAAATGATAACGT
895844 AAGTGACCAAAA
1 AAGTGACCAAAA
895856 GTGTACAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 29 0.44
31 37 0.56
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAATGATAACGT
Found at i:895878 original size:61 final size:61
Alignment explanation
Indices: 895752--895892 Score: 160
Period size: 61 Copynumber: 2.3 Consensus size: 61
895742 TTCAACGTCC
* * * * *
895752 AAGTGACCAAAACTTAATAAAATGATAACGTAAGTGACAAAATTTAATAAAATGATAACGT
1 AAGTGACAAAAACTTAATAAAACGATAACGTAAGTGACAAAATGTAACAAAATGATAACGA
* * * *
895813 AAGTGACAAAAACTTAATAAAACGATAATGTAAGTGACCAAAAGTGT-ACAATATTA-AATGA
1 AAGTGACAAAAACTTAATAAAACGATAACGTAAGTGA-CAAAA-TGTAACAAAATGATAACGA
895874 AAGTGACTAAAAACTTAAT
1 AAGTGAC-AAAAACTTAAT
895893 TCACGTGTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
61 44 0.65
62 22 0.32
63 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.24
Consensus pattern (61 bp):
AAGTGACAAAAACTTAATAAAACGATAACGTAAGTGACAAAATGTAACAAAATGATAACGA
Found at i:896030 original size:29 final size:30
Alignment explanation
Indices: 895961--896035 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
895951 GTTAACTTTC
895961 AGTGACAATATCTTAATTAAACCGAAACGAA
1 AGTGACAA-ATCTTAATTAAACCGAAACGAA
*
895992 AGTGACCAAATCTTAA-TAAACC-AAATGAA
1 AGTGA-CAAATCTTAATTAAACCGAAACGAA
896021 AGTGATCAAATCTTA
1 AGTGA-CAAATCTTA
896036 TGATTTTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 20 0.49
30 6 0.15
31 12 0.29
32 3 0.07
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (30 bp):
AGTGACAAATCTTAATTAAACCGAAACGAA
Found at i:896132 original size:2 final size:2
Alignment explanation
Indices: 896127--896210 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
896117 CAAGTGTGTG
896127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
896169 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
896211 CACGTGCCTA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:896471 original size:5 final size:5
Alignment explanation
Indices: 896440--896482 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
896430 TGATAAACTA
*
896440 TTTAT TTAAT TATTAT TTTAGT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT T-TTAT TTTA-T TTTAT TTTAT TTTAT TTTAT T
896483 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:896476 original size:10 final size:10
Alignment explanation
Indices: 896440--896482 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
896430 TGATAAACTA
*
896440 TTTATTTAAT
1 TTTATTTTAT
896450 TATTATTTTAGT
1 T-TTATTTTA-T
896462 TTTATTTTAT
1 TTTATTTTAT
896472 TTTATTTTAT
1 TTTATTTTAT
896482 T
1 T
896483 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 13 0.43
11 15 0.50
12 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:900353 original size:2 final size:2
Alignment explanation
Indices: 900346--900387 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
900336 AGTAACATTG
900346 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
900388 GATAGAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:904165 original size:23 final size:23
Alignment explanation
Indices: 904100--904209 Score: 140
Period size: 23 Copynumber: 4.9 Consensus size: 23
904090 CAGCTCATAA
*
904100 TTTGCACCGAAGTGCCACATA-A
1 TTTGCACCGAAGTGCCACATAGG
*
904122 TTAT-C-CCTAAG-GACCACATAGG
1 TT-TGCACCGAAGTG-CCACATAGG
904144 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
904167 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
*
904190 -TTGCATCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATA
904210 TTTTTCCCGA
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.01
21 13 0.17
22 25 0.32
23 38 0.49
24 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:904273 original size:21 final size:21
Alignment explanation
Indices: 904203--904273 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
904193 CATCGAAGTG
* *
904203 CCACAT-ATTTTTCCCGAAGAA
1 CCACATAATTATT-CCGAAGGA
**
904224 CCACATAATTACCCCGAAGGA
1 CCACATAATTATTCCGAAGGA
*
904245 CCACATAATTGTTCCGAAGGA
1 CCACATAATTATTCCGAAGGA
904266 CCACATAA
1 CCACATAA
904274 AACCCTCGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 39 0.93
22 3 0.07
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.21
Consensus pattern (21 bp):
CCACATAATTATTCCGAAGGA
Found at i:905633 original size:14 final size:14
Alignment explanation
Indices: 905595--905645 Score: 68
Period size: 13 Copynumber: 3.5 Consensus size: 14
905585 GTTTTTTCGA
905595 TTCGGTTCGGGTTTT
1 TTCGGTTCGGG-TTT
905610 TTAACGGTTCGGGTTT
1 TT--CGGTTCGGGTTT
905626 TTCGGTTC-GGTTT
1 TTCGGTTCGGGTTT
905639 TTCGGTT
1 TTCGGTT
905646 TTTCAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.35
14 6 0.18
15 2 0.06
16 5 0.15
17 9 0.26
ACGTcount: A:0.04, C:0.14, G:0.31, T:0.51
Consensus pattern (14 bp):
TTCGGTTCGGGTTT
Found at i:906763 original size:5 final size:5
Alignment explanation
Indices: 906755--906779 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
906745 TTTAAAGCCA
906755 AACCG AACCG AACCG AACCG AACCG
1 AACCG AACCG AACCG AACCG AACCG
906780 TTTTACTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.20, T:0.00
Consensus pattern (5 bp):
AACCG
Found at i:911888 original size:22 final size:22
Alignment explanation
Indices: 911863--911904 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
911853 AACTTGTAAT
911863 TTGCACCGAAGTGCCACATAGG
1 TTGCACCGAAGTGCCACATAGG
911885 TTGCACCGAAGTGCCACATA
1 TTGCACCGAAGTGCCACATA
911905 TTTGTCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (22 bp):
TTGCACCGAAGTGCCACATAGG
Found at i:912598 original size:20 final size:20
Alignment explanation
Indices: 912575--912627 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
912565 ATATTAAAAA
912575 TGGTATCGATACCATACCC-C
1 TGGTATCGATACC-TACCCTC
912595 TGGTATCGATA-CTACCCTC
1 TGGTATCGATACCTACCCTC
*
912614 TCAGTATCGATACC
1 T-GGTATCGATACC
912628 CTCTTCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.17
19 3 0.10
20 20 0.69
21 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (20 bp):
TGGTATCGATACCTACCCTC
Found at i:913016 original size:25 final size:25
Alignment explanation
Indices: 912988--913035 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
912978 AAAAGCTACT
*
912988 CCATATCAAAATTTCATTTCTAAAC
1 CCATATCAAAATTTCATCTCTAAAC
* * *
913013 CCATTTTACAATTTCATCTCTAA
1 CCATATCAAAATTTCATCTCTAA
913036 TTTACTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATATCAAAATTTCATCTCTAAAC
Found at i:913777 original size:18 final size:19
Alignment explanation
Indices: 913743--913778 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
913733 TATGAAATCC
913743 AATTTGATTAGAAGTAGAA
1 AATTTGATTAGAAGTAGAA
*
913762 AATTTTATTA-AAGTAGA
1 AATTTGATTAGAAGTAGA
913779 TTTCTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
AATTTGATTAGAAGTAGAA
Found at i:915670 original size:6 final size:6
Alignment explanation
Indices: 915661--915686 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
915651 ATCTTCTTCT
915661 TCGTCA TCGTCA TCGTCA TCGTCA TC
1 TCGTCA TCGTCA TCGTCA TCGTCA TC
915687 AAAGCCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (6 bp):
TCGTCA
Found at i:922476 original size:2 final size:2
Alignment explanation
Indices: 922469--922507 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
922459 CATATAAATT
922469 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
922508 GGATAAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:923988 original size:35 final size:35
Alignment explanation
Indices: 923921--924022 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
923911 TATGCAAGCT
* * *
923921 TTAAATGAACCGT-CATACTTAAATAAACTAGCATGC
1 TTAAATGAA-C-TACATGCTTAAATGAAGTAGCATGC
*
923957 TTAAATGAATTACATGCTTAAATGAAGTAGCATGC
1 TTAAATGAACTACATGCTTAAATGAAGTAGCATGC
*
923992 TTAAATGAACTACATGCTTTAGATGAAGTAG
1 TTAAATGAACTACATGC-TTAAATGAAGTAG
924023 TAATCTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.02
35 36 0.62
36 21 0.36
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (35 bp):
TTAAATGAACTACATGCTTAAATGAAGTAGCATGC
Found at i:924018 original size:18 final size:18
Alignment explanation
Indices: 923938--924010 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
923928 AACCGTCATA
*
923938 CTTAAATAAACTAGCATG
1 CTTAAATGAACTAGCATG
*
923956 CTTAAATGAATTA-CATG
1 CTTAAATGAACTAGCATG
*
923973 CTTAAATGAAGTAGCATG
1 CTTAAATGAACTAGCATG
923991 CTTAAATGAACTA-CATG
1 CTTAAATGAACTAGCATG
924008 CTT
1 CTT
924011 TAGATGAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
17 23 0.46
18 27 0.54
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (18 bp):
CTTAAATGAACTAGCATG
Found at i:924903 original size:112 final size:112
Alignment explanation
Indices: 924669--924874 Score: 286
Period size: 112 Copynumber: 1.8 Consensus size: 112
924659 ATACATAAAT
* * * **
924669 AAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAGCTCTTTTCT
1 AAGATATTTATTTATTCAAAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAGCTCTTTAAT
* ** * *
924734 TTGATATTTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGT
66 TCGATATTAAAAAAATAAATATCAAAAACATATTATTTTAATATAGA
* *
924781 AAGATATTTATTTATTCAAAAATATCAGAAAATGGCTTCTAGGTGCCTTAAGACAGCTCTTTAAT
1 AAGATATTTATTTATTCAAAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAGCTCTTTAAT
924846 TCGATATTAAAAATAAATAAATATCAAAA
66 TCGATATT-AAAA-AAATAAATATCAAAA
924875 TATGATTATT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
112 65 0.79
113 2 0.02
114 15 0.18
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (112 bp):
AAGATATTTATTTATTCAAAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAGCTCTTTAAT
TCGATATTAAAAAAATAAATATCAAAAACATATTATTTTAATATAGA
Found at i:926437 original size:3 final size:3
Alignment explanation
Indices: 926419--926472 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
926409 TTGTAATGTT
* * *
926419 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
926466 TAA TAA T
1 TAA TAA T
926473 TTAAAATGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:926725 original size:76 final size:76
Alignment explanation
Indices: 926629--926958 Score: 570
Period size: 76 Copynumber: 4.3 Consensus size: 76
926619 GGTCTTATGA
* * * *
926629 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
926694 AGGACTTACAG
66 AGGACTTACAG
*
926705 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
926770 AGGACTTACAG
66 AGGACTTACAG
*
926781 ATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
926846 AGGACTTACAG
66 AGGACTTACAG
926857 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
926922 AGGGCTTACAG
66 AGGACTTACAG
** *
926933 ATGACCCGCAGGTTTTGAAAACATCA
1 ATGACCCTAAGGCTTTGAAAACATCA
926959 TGCACTGAAG
Statistics
Matches: 242, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 242 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:926964 original size:45 final size:45
Alignment explanation
Indices: 926890--927003 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
926880 TCAAAAAGCT
* *
926890 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
*
926937 CCCGCAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
*
926982 CCCGAAGGCTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
927004 AAAAGCTCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 55 0.89
47 7 0.11
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
Found at i:926975 original size:121 final size:121
Alignment explanation
Indices: 926814--927079 Score: 469
Period size: 121 Copynumber: 2.2 Consensus size: 121
926804 TCAAAAAGAT
* * *
926814 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAAC
926879 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
64 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
* *
926937 CCCGCAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACAT
927002 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
66 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
927058 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
927080 AAAAGCTCCC
Statistics
Matches: 137, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
121 130 0.95
123 7 0.05
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (121 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:926984 original size:197 final size:197
Alignment explanation
Indices: 926748--927155 Score: 699
Period size: 197 Copynumber: 2.1 Consensus size: 197
926738 CCCAAAGGCT
* * *
926748 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGA
1 TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGA
*
926813 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAA
66 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
* *
926878 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGCA
131 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
926943 GG
196 GG
* *
926945 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGA
* *
927010 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
66 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
* *
927075 CATCAAAAAGCTCCCGAAGGTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
131 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
927140 GG
196 GG
*
927142 CTTTGAAAACATCA
1 TTTTGAAAACATCA
927156 AAAAGATCCC
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (197 bp):
TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGA
TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
GG
Found at i:927025 original size:76 final size:76
Alignment explanation
Indices: 926945--927360 Score: 706
Period size: 76 Copynumber: 5.5 Consensus size: 76
926935 GACCCGCAGG
* * * *
926945 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
927010 TCCCGAAGGCT
66 TCCCGAAGGCT
* * *
927021 TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
927086 TCCCGAAGGTT
66 TCCCGAAGGCT
*
927097 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGA
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
927162 TCCCGAAGGCT
66 TCCCGAAGGCT
*
927173 TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
927238 TCTCGAAGGCT
66 TCCCGAAGGCT
* *
927249 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTAAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
927314 TCCCGAAGGCT
66 TCCCGAAGGCT
*
927325 TTTTGGAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATG
927361 TGGGAAATAG
Statistics
Matches: 322, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 322 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCT
Found at i:927168 original size:273 final size:273
Alignment explanation
Indices: 926673--927231 Score: 967
Period size: 273 Copynumber: 2.1 Consensus size: 273
926663 CCGAAGGCTT
* * *
926673 TTTTG-AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGC
*
926737 TCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAA
66 TCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
926802 CATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
131 CATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
* * *
926867 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACA
196 GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACA
*
926932 GATGACCCGCAGG
261 GATGACCCGAAGG
*
926945 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGC
* * *
927010 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
66 TCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
* *
927075 CATCAAAAAGCTCCCGAAGGTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
131 CATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
927140 GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACA
196 GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACA
*
927205 GATGACCCTAAGG
261 GATGACCCGAAGG
*
927218 CTTTGAAAACATCA
1 TTTTGAAAACATCA
927232 AAAAGCTCTC
Statistics
Matches: 270, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
272 5 0.02
273 265 0.98
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (273 bp):
TTTTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAACATCAAAAAGC
TCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
CATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACA
GATGACCCGAAGG
Found at i:927267 original size:349 final size:349
Alignment explanation
Indices: 926628--927307 Score: 1200
Period size: 349 Copynumber: 1.9 Consensus size: 349
926618 AGGTCTTATG
* *
926628 AATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGAAACATCATGCACTG
1 AATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* *
926693 CAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAAC
66 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAAC
926758 ATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGC
131 ATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGC
*
926823 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAG
196 TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAG
* * * *
926888 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGCAGGTTTTGAAA
261 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAA
926953 ACATCATGCACTGAAGGGCTTACA
326 ACATCATGCACTGAAGGGCTTACA
926977 AATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACT
1 AATGACCCTG-AGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACT
* * * *
927041 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGTTTTTTGGAAA
65 GAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAA
927106 CATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGG
130 CATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGG
927171 CTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAA
195 CTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAA
* * *
927236 GCTCTCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTAAA
260 GCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAA
927301 AACATCA
325 AACATCA
927308 AAAAGCTCCC
Statistics
Matches: 314, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
348 1 0.00
349 313 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (349 bp):
AATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAAC
ATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGC
TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAG
CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAA
ACATCATGCACTGAAGGGCTTACA
Found at i:928064 original size:22 final size:22
Alignment explanation
Indices: 928036--928091 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
928026 CATAAAGCTT
928036 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
928058 TCATCTTTTAAAAAGATAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
928081 TCATCTTTGAA
1 TCATCTTTGAA
928092 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:930622 original size:114 final size:114
Alignment explanation
Indices: 930422--930641 Score: 332
Period size: 114 Copynumber: 1.9 Consensus size: 114
930412 GATCATGCAG
* * * * *
930422 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATACAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
930487 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGTAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCCACTATGAGTAAA
* * *
930536 TTCATCTTTCAAATACAATGGTTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATACAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
930601 ACACTTCTAGAAGATGCTATTGAGTCTTCTTATTTCCACTA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCCACTA
930642 CGAGAACGTG
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATACAATGATCGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCCACTATGAGTAAA
Found at i:935514 original size:34 final size:35
Alignment explanation
Indices: 935446--935520 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
935436 GCATAAATGG
* ** *
935446 AAAAATAAAAATGCAAAATGTGCAATTCAAAGATA
1 AAAAATAAAAATACAAAATGTAAAATGCAAAGATA
*
935481 AAAAATAAAAATACAAAATG-AAAATGCACAGATA
1 AAAAATAAAAATACAAAATGTAAAATGCAAAGATA
*
935515 CAAAAT
1 AAAAAT
935521 GTACATGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 15 0.44
35 19 0.56
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.17
Consensus pattern (35 bp):
AAAAATAAAAATACAAAATGTAAAATGCAAAGATA
Found at i:938320 original size:112 final size:112
Alignment explanation
Indices: 938086--938291 Score: 277
Period size: 112 Copynumber: 1.8 Consensus size: 112
938076 ATACATAAAT
* * * * **
938086 AAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTTAAGACAGCTCTTTTCT
1 AAGATATTTATTTATTCAAAAATATCAGAAAAGGACTTCTAGGTACCTTAAGACAGCTCTTTAAT
* ** * *
938151 TTGATATTTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGT
66 TCGATATTAAAAAAATAAATATCAAAAACATATTATTTTAATATAGA
* *
938198 AAGATATTTATTTATTCAAAAATATCAGAAAATGACTTCTAGGTTCCTTAAGACAGCTCTTTAAT
1 AAGATATTTATTTATTCAAAAATATCAGAAAAGGACTTCTAGGTACCTTAAGACAGCTCTTTAAT
938263 TCGATATTAAAAATAAATAAATATCAAAA
66 TCGATATT-AAAA-AAATAAATATCAAAA
938292 TATGATTATT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 64 0.79
113 2 0.02
114 15 0.19
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (112 bp):
AAGATATTTATTTATTCAAAAATATCAGAAAAGGACTTCTAGGTACCTTAAGACAGCTCTTTAAT
TCGATATTAAAAAAATAAATATCAAAAACATATTATTTTAATATAGA
Found at i:939825 original size:3 final size:3
Alignment explanation
Indices: 939807--939872 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
939797 TTGTAATATT
* * *
939807 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
939854 TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
939873 TTAAAATGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:951084 original size:47 final size:47
Alignment explanation
Indices: 951033--951130 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
951023 TTAATATGCT
951033 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
1 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
951080 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
1 TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
951127 TTAC
1 TTAC
951131 TATTTCTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (47 bp):
TTACCTTAAAATTTATTTTCAGATTCAAATCCTCTATTTCATTTATA
Found at i:951532 original size:23 final size:24
Alignment explanation
Indices: 951499--951555 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
951489 TTAACTAGCA
* *
951499 AATATTGAAAGCTTT-AAATAATTT
1 AATATTTAAAGATTTGAAAT-ATTT
*
951523 AAT-TTTAAAGATTTGAAGTATTT
1 AATATTTAAAGATTTGAAATATTT
951546 AATATTTAAA
1 AATATTTAAA
951556 CTAACAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.44
Consensus pattern (24 bp):
AATATTTAAAGATTTGAAATATTT
Found at i:957597 original size:13 final size:14
Alignment explanation
Indices: 957579--957614 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
957569 TTTATTATTA
957579 ATTTTTAATAAATT
1 ATTTTTAATAAATT
957593 A-TTTTAA-AAATT
1 ATTTTTAATAAATT
957605 ATTTTTAATA
1 ATTTTTAATA
957615 TGAAATTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.30
13 12 0.60
14 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTAATAAATT
Found at i:958456 original size:7 final size:7
Alignment explanation
Indices: 958444--958533 Score: 180
Period size: 7 Copynumber: 12.9 Consensus size: 7
958434 AAATCCATCT
958444 CTTCTTC
1 CTTCTTC
958451 CTTCTTC
1 CTTCTTC
958458 CTTCTTC
1 CTTCTTC
958465 CTTCTTC
1 CTTCTTC
958472 CTTCTTC
1 CTTCTTC
958479 CTTCTTC
1 CTTCTTC
958486 CTTCTTC
1 CTTCTTC
958493 CTTCTTC
1 CTTCTTC
958500 CTTCTTC
1 CTTCTTC
958507 CTTCTTC
1 CTTCTTC
958514 CTTCTTC
1 CTTCTTC
958521 CTTCTTC
1 CTTCTTC
958528 CTTCTT
1 CTTCTT
958534 TCGATTTTTG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 83 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTTC
Found at i:968474 original size:3 final size:3
Alignment explanation
Indices: 968468--968538 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
968458 TCATTTAAAT
** ** *
968468 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
968514 TTA TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
968539 TACAAACAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:968495 original size:24 final size:23
Alignment explanation
Indices: 968462--968533 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 23
968452 TTTTTTTCAT
*
968462 TTAAATTTATTATTATTATTAAAA
1 TTAAAATTATTATTATTATT-AAA
968486 TTAAAATTATTATTATTATT--A
1 TTAAAATTATTATTATTATTAAA
968507 TTAAATATTATTATTA-TATTATAA
1 TTAAA-ATTATTATTATTATTA-AA
968531 TTA
1 TTA
968534 TTATTTACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.23
22 10 0.23
24 23 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAAATTATTATTATTATTAAA
Found at i:968506 original size:27 final size:28
Alignment explanation
Indices: 968468--968536 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
968458 TCATTTAAAT
968468 TTATTATTATTATTAAA-ATTAAAATTA
1 TTATTATTATTATTAAATATTAAAATTA
**
968495 TTATTATTATTATTAAATATTATTATTA
1 TTATTATTATTATTAAATATTAAAATTA
*
968523 -TATTATAATTATTA
1 TTATTATTATTATTA
968537 TTTACAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATTATTATTATTAAATATTAAAATTA
Found at i:969821 original size:16 final size:16
Alignment explanation
Indices: 969800--969845 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
969790 TTGTTTAAAT
969800 ATATTTTAATTTTATA
1 ATATTTTAATTTTATA
*
969816 ATATTTTAATTAGTATA
1 ATATTTTAATT-TTATA
*
969833 TTATTTT-ATTTTA
1 ATATTTTAATTTTA
969846 ATATATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 2 0.08
16 14 0.54
17 10 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATATTTTAATTTTATA
Found at i:969852 original size:18 final size:17
Alignment explanation
Indices: 969793--969856 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
969783 TTAATTATTG
969793 TTTAA-ATATATTTTAAT
1 TTTAATATATATTTT-AT
969810 TTT-ATA-ATATTTTA-
1 TTTAATATATATTTTAT
* *
969824 ATTAGTATATTATTTTAT
1 TTTAATATA-TATTTTAT
969842 TTTAATATATTATTT
1 TTTAATATA-TATTT
969857 GATTAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 9 0.24
17 11 0.29
18 13 0.34
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTAATATATATTTTAT
Found at i:970569 original size:20 final size:21
Alignment explanation
Indices: 970546--970597 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
970536 AGAAATTAAA
970546 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
970566 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
970588 -ATT-ATTTATT
1 AATTCATTTATT
970598 ATTTTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:970612 original size:15 final size:16
Alignment explanation
Indices: 970582--970622 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
970572 TTTCTTTCAA
*
970582 ATTTTTATTATTTATT
1 ATTTTTATTATATATT
970598 ATTTTTATTA-ATATT
1 ATTTTTATTATATATT
*
970613 GTTTTT-TTAT
1 ATTTTTATTAT
970623 TCAGGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 9 0.41
16 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTTTATTATATATT
Found at i:975172 original size:13 final size:13
Alignment explanation
Indices: 975154--975183 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
975144 TCCAGCAAAG
975154 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
975167 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
975180 AAAG
1 AAAG
975184 GAAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:975180 original size:16 final size:17
Alignment explanation
Indices: 975150--975182 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
975140 CTCATCCAGC
*
975150 AAAGAAAGAAGAAAAAA
1 AAAGAAAGAAAAAAAAA
975167 AAAG-AAGAAAAAAAAA
1 AAAGAAAGAAAAAAAAA
975183 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAAAAA
Found at i:980765 original size:76 final size:76
Alignment explanation
Indices: 980683--981325 Score: 1126
Period size: 76 Copynumber: 8.5 Consensus size: 76
980673 CTATTTCCCA
980683 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
980748 AGCCTTCGGGT
66 AGCCTTCGGGT
980759 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
980824 AGCCTTCGGGT
66 AGCCTTCGGGT
** *
980835 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTTTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
**
980900 AGCCTTATGGT
66 AGCCTTCGGGT
980911 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
980976 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
980987 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGTCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
**
981052 AGCCTTATGGT
66 AGCCTTCGGGT
* *
981063 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTAATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
981127 AGCCTTCGGGT
66 AGCCTTCGGGT
*
981138 CATTTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
981203 AGCCTTAGGGT
66 AGCCTTCGGGT
981214 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
981279 AAACCTTCGGGT
65 AAGCCTTCGGGT
* *
981291 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
981326 CATTTCCATC
Statistics
Matches: 536, Mismatches: 29, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
75 70 0.13
76 422 0.79
77 44 0.08
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:981458 original size:3 final size:3
Alignment explanation
Indices: 981452--981522 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
981442 TCATTTAAAT
** ** *
981452 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
981498 TTA TTA TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
981523 TACAAACAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:981479 original size:24 final size:23
Alignment explanation
Indices: 981446--981517 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 23
981436 TTTTTTTCAT
*
981446 TTAAATTTATTATTATTATTAAAA
1 TTAAAATTATTATTATTATT-AAA
981470 TTAAAATTATTATTATTATT--A
1 TTAAAATTATTATTATTATTAAA
981491 TTAAATATTATTATTA-TATTATAA
1 TTAAA-ATTATTATTATTATTA-AA
981515 TTA
1 TTA
981518 TTATTTACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.23
22 10 0.23
24 23 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAAATTATTATTATTATTAAA
Found at i:981490 original size:27 final size:28
Alignment explanation
Indices: 981452--981520 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
981442 TCATTTAAAT
981452 TTATTATTATTATTAAA-ATTAAAATTA
1 TTATTATTATTATTAAATATTAAAATTA
**
981479 TTATTATTATTATTAAATATTATTATTA
1 TTATTATTATTATTAAATATTAAAATTA
*
981507 -TATTATAATTATTA
1 TTATTATTATTATTA
981521 TTTACAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATTATTATTATTAAATATTAAAATTA
Found at i:981565 original size:26 final size:26
Alignment explanation
Indices: 981529--981582 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
981519 TATTTACAAA
* *
981529 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
*
981555 CAGTTACAAACAAACCAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
981581 CA
1 CA
981583 AACCAACCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.33, G:0.17, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:982823 original size:18 final size:18
Alignment explanation
Indices: 982800--982858 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
982790 TTGTTTAAAT
982800 ATATTTTAATTTTATATA
1 ATATTTTAATTTTATATA
*
982818 ATATTTTAATTAGTAT-TA
1 ATATTTTAATT-TTATATA
* *
982836 TTATTTTATTTTTA-ATA
1 ATATTTTAATTTTATATA
982853 TATATT
1 -ATATT
982859 ATTTGATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 4 0.12
18 26 0.79
19 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATATTTTAATTTTATATA
Found at i:982872 original size:24 final size:24
Alignment explanation
Indices: 982811--982873 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
982801 TATTTTAATT
*
982811 TTATATAATATTTTAATTAGTATTA
1 TTATATTA-ATTTTAATTAGTATTA
* *
982836 TTATTTTATTTTTAATATA-TATTA
1 TTATATTAATTTTAAT-TAGTATTA
982860 TT-TGATTAATTTTA
1 TTAT-ATTAATTTTA
982874 TAAATTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 22 0.71
25 8 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATATTAATTTTAATTAGTATTA
Found at i:991749 original size:14 final size:14
Alignment explanation
Indices: 991730--991761 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
991720 TCAATGCACC
991730 CATTGCCCTCCACA
1 CATTGCCCTCCACA
*
991744 CATTGCCCTGCACA
1 CATTGCCCTCCACA
991758 CATT
1 CATT
991762 AGGAAGTCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.44, G:0.09, T:0.25
Consensus pattern (14 bp):
CATTGCCCTCCACA
Found at i:993582 original size:83 final size:83
Alignment explanation
Indices: 993443--993689 Score: 354
Period size: 83 Copynumber: 3.0 Consensus size: 83
993433 AGAATTTCGA
* ** *
993443 GAGAGTTTTACTCCGGCTAAAACTCTTTTAATATATAAATTTAAACATATAATAATATCTTTTAA
1 GAGAGTTTTAATCCAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
*
993508 ATTTAAAATATTAAATTT
66 ATTTAAAATATTAAATAT
*
993526 GAGAGTTTTAATCTAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
1 GAGAGTTTTAATCCAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
** *
993591 ATTTAAAACGTTAAACAT
66 ATTTAAAATATTAAATAT
* * * *
993609 GAGAGTTTTACTCCAACCAGAACTCTTTTGATGA-CTAAATTTAAACATATAATAATATCTTTTA
1 GAGAGTTTTAATCCAACTAAAACTCTTTTAAT-ATCTAAATTTAAACATATAATAATATCTTTTA
993673 AATTT-AAATATTAAATA
65 AATTTAAAATATTAAATA
993690 AATATTTCTT
Statistics
Matches: 146, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
82 9 0.06
83 136 0.93
84 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (83 bp):
GAGAGTTTTAATCCAACTAAAACTCTTTTAATATCTAAATTTAAACATATAATAATATCTTTTAA
ATTTAAAATATTAAATAT
Found at i:993704 original size:34 final size:34
Alignment explanation
Indices: 993666--993733 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
993656 TATAATAATA
993666 TCTTTTAA-ATTTAAATATTAAATAAATATT-TCTT
1 TCTTTTAATA-TTAAA-ATTAAATAAATATTATCTT
* *
993700 TCTTTTATTATTCAAATTAAATAAATATTATCTT
1 TCTTTTAATATTAAAATTAAATAAATATTATCTT
993734 AATTTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 14 0.47
34 15 0.50
35 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (34 bp):
TCTTTTAATATTAAAATTAAATAAATATTATCTT
Found at i:1000952 original size:23 final size:21
Alignment explanation
Indices: 1000898--1000959 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
1000888 TTTTGGTGCA
1000898 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAATCGATTCCCCCCTT
* *
1000918 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCTT
1000939 GAAGGGGAATCGATTCCCCCC
1 G-A-GGGAATCGATTCCCCCC
1000960 CATAGGGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 1 0.03
23 15 0.43
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCTT
Found at i:1000985 original size:20 final size:22
Alignment explanation
Indices: 1000941--1000986 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1000931 CCCCCTTTGA
*
1000941 AGGGGAATCGATTCCCCCCCAT
1 AGGGGAATCGATTACCCCCCAT
*
1000963 AGGGGAATTGA-TACCCCCC-T
1 AGGGGAATCGATTACCCCCCAT
1000983 AGGG
1 AGGG
1000987 TTCTGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 7 0.32
22 10 0.45
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.17
Consensus pattern (22 bp):
AGGGGAATCGATTACCCCCCAT
Found at i:1010135 original size:19 final size:20
Alignment explanation
Indices: 1010092--1010137 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1010082 GTACTATCTG
* *
1010092 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
1010112 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
1010131 GAAATTG
1 GAAATTG
1010138 GATCATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:1012394 original size:6 final size:6
Alignment explanation
Indices: 1012385--1012409 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1012375 GATATATAGT
1012385 TATAAA TATAAA TATAAA TATAAA T
1 TATAAA TATAAA TATAAA TATAAA T
1012410 CTAAGAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:1015640 original size:8 final size:7
Alignment explanation
Indices: 1015623--1015675 Score: 52
Period size: 8 Copynumber: 7.0 Consensus size: 7
1015613 TCATCAACCA
1015623 CAAATAAT
1 CAAAT-AT
1015631 CAAATCAT
1 CAAAT-AT
*
1015639 CAACTAT
1 CAAATAT
1015646 CAAATAAT
1 CAAAT-AT
1015654 CAAATCAT
1 CAAAT-AT
*
1015662 CAACTAT
1 CAAATAT
1015669 CAAATAT
1 CAAATAT
1015676 TAGAATCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 14 0.37
8 24 0.63
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (7 bp):
CAAATAT
Found at i:1015684 original size:23 final size:23
Alignment explanation
Indices: 1015613--1015674 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1015603 AAGAATGGAT
*
1015613 TCATCAACCA-CAAATAATCAAA
1 TCATCAACTATCAAATAATCAAA
1015635 TCATCAACTATCAAATAATCAAA
1 TCATCAACTATCAAATAATCAAA
1015658 TCATCAACTATCAAATA
1 TCATCAACTATCAAATA
1015675 TTAGAATCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 9 0.24
23 29 0.76
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (23 bp):
TCATCAACTATCAAATAATCAAA
Found at i:1021282 original size:29 final size:30
Alignment explanation
Indices: 1021249--1021322 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
1021239 TATGGTCAAT
* * * *
1021249 AATCAATCTGACCATCGAACTTTTT-TTTG
1 AATCAATCAGACCACCAAACTTTTTAATTG
1021278 AATCAATCAGACCACCAAACTTTTTAATTG
1 AATCAATCAGACCACCAAACTTTTTAATTG
*
1021308 ATTCAATCAGACCAC
1 AATCAATCAGACCAC
1021323 TCTCCGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 22 0.56
30 17 0.44
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (30 bp):
AATCAATCAGACCACCAAACTTTTTAATTG
Found at i:1021980 original size:26 final size:26
Alignment explanation
Indices: 1021951--1022032 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
1021941 GATAATAGAT
1021951 TTGTGTTAGAAATGAAGATGCAAGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
1021977 TTGTGTTAGAAATGAAGATGCAAGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
1022003 TTGTGTTAGAAATGAAGATGCAAGAC
1 TTGTGTTAGAAATGAAGATGCAAGAC
1022029 TTGT
1 TTGT
1022033 AACATGTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (26 bp):
TTGTGTTAGAAATGAAGATGCAAGAC
Found at i:1022583 original size:16 final size:15
Alignment explanation
Indices: 1022559--1022672 Score: 79
Period size: 16 Copynumber: 7.1 Consensus size: 15
1022549 AACTGTAATA
1022559 AAAAACAAATACAATC
1 AAAAACAAAT-CAATC
*
1022575 AATAACAAATTCAAT-
1 AAAAACAAA-TCAATC
*
1022590 ATAAAACAAATGCAAGC
1 A-AAAACAAAT-CAATC
*
1022607 TAAAACAAAGTCAATC
1 AAAAACAAA-TCAATC
* *
1022623 CAAAACAAATACGAT-
1 AAAAACAAAT-CAATC
*
1022638 AAAAACAAACTCAATAA
1 AAAAACAAA-TCAAT-C
1022655 AAAAACAAATGCAATC
1 AAAAACAAAT-CAATC
1022671 AA
1 AA
1022673 TAAGAAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
15 14 0.18
16 49 0.63
17 15 0.19
ACGTcount: A:0.63, C:0.18, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAACAAATCAATC
Found at i:1022599 original size:32 final size:32
Alignment explanation
Indices: 1022555--1022684 Score: 129
Period size: 32 Copynumber: 4.1 Consensus size: 32
1022545 TCTAAACTGT
1022555 AATAAAAAACAAATACAATCAATAACAAATTC
1 AATAAAAAACAAATACAATCAATAACAAATTC
* * * *
1022587 AATATAAAACAAATGCAAGCTAA-AACAAAGTC
1 AATAAAAAACAAATACAATC-AATAACAAATTC
** * * *
1022619 AATCCAAAACAAATACGAT-AAAAACAAACTC
1 AATAAAAAACAAATACAATCAATAACAAATTC
* *
1022650 AATAAAAAAACAAATGCAATCAATAAGAAATTC
1 AAT-AAAAAACAAATACAATCAATAACAAATTC
1022683 AA
1 AA
1022685 CTACAACACA
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
30 2 0.03
31 11 0.14
32 51 0.66
33 13 0.17
ACGTcount: A:0.63, C:0.16, G:0.05, T:0.16
Consensus pattern (32 bp):
AATAAAAAACAAATACAATCAATAACAAATTC
Found at i:1023367 original size:15 final size:13
Alignment explanation
Indices: 1023338--1023487 Score: 135
Period size: 13 Copynumber: 11.2 Consensus size: 13
1023328 AACATTAACA
1023338 CAATAACAATATG
1 CAATAACAATATG
1023351 CAATAACAAGTTATG
1 CAATAACAA--TATG
*
1023366 CAATAACAATATT
1 CAATAACAATATG
*
1023379 CAATTATTCCAATATG
1 CAA-TA--ACAATATG
1023395 CAATAACAATATG
1 CAATAACAATATG
*
1023408 C-ATGAGCAATATG
1 CAAT-AACAATATG
* * *
1023421 TAATAACAGTATA
1 CAATAACAATATG
1023434 C-ATGAACAATATG
1 CAAT-AACAATATG
*
1023447 CAATAACATTATG
1 CAATAACAATATG
1023460 CAATAACAATATG
1 CAATAACAATATG
*
1023473 TAATAA-AACTATG
1 CAATAACAA-TATG
1023486 CA
1 CA
1023488 TGAAGAATAT
Statistics
Matches: 111, Mismatches: 16, Indels: 20
0.76 0.11 0.14
Matches are distributed among these distances:
12 6 0.05
13 75 0.68
14 6 0.05
15 15 0.14
16 9 0.08
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (13 bp):
CAATAACAATATG
Found at i:1023404 original size:22 final size:21
Alignment explanation
Indices: 1023344--1023404 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
1023334 AACACAATAA
*
1023344 CAATATGCAATAACAAGTTATG
1 CAATATGCAATAACAA-TTATC
* *
1023366 CAATA-ACAATATTCAATTATTC
1 CAATATGCAATA-ACAATTA-TC
1023388 CAATATGCAATAACAAT
1 CAATATGCAATAACAAT
1023405 ATGCATGAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.30
Consensus pattern (21 bp):
CAATATGCAATAACAATTATC
Found at i:1023454 original size:52 final size:52
Alignment explanation
Indices: 1023338--1023498 Score: 155
Period size: 52 Copynumber: 3.0 Consensus size: 52
1023328 AACATTAACA
* * * *
1023338 CAATAACAATATGCAATAACAAGTTATGCAATAACAA-TATTCAATTATTCCAATATG
1 CAATAACAATATGCAATAACAA--TATGTAATAA-AACTATAC-ATGA--ACAATATG
* * *
1023395 CAATAACAATATGC-ATGAGCAATATGTAATAACAGTATACATGAACAATATG
1 CAATAACAATATGCAAT-AACAATATGTAATAAAACTATACATGAACAATATG
* * *
1023447 CAATAACATTATGCAATAACAATATGTAATAAAACTATGCATGAAGAATATG
1 CAATAACAATATGCAATAACAATATGTAATAAAACTATACATGAACAATATG
1023499 TATTAGCAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
52 50 0.56
53 2 0.02
54 4 0.04
55 13 0.15
56 2 0.02
57 18 0.20
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (52 bp):
CAATAACAATATGCAATAACAATATGTAATAAAACTATACATGAACAATATG
Found at i:1024293 original size:46 final size:46
Alignment explanation
Indices: 1024226--1024317 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
1024216 ATACACAAAC
*
1024226 CAAACTAAAAGATTAGAAATCAAATTTAACATTATTTAAAATAAAT
1 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
1024272 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
1 CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
1024318 ATAATTTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (46 bp):
CAAACTAAAAGATTAGAAATCAAATTTAACATGATTTAAAATAAAT
Found at i:1025470 original size:30 final size:30
Alignment explanation
Indices: 1025434--1025506 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
1025424 ATCAATTTCA
*
1025434 GGTTCATTAATTTCTAGCTCAGCTGGTTCT
1 GGTTCATTAATTTCTAGCTCAGCTGGTTCC
*
1025464 GGTTCATTAATTTCTGGCTCAGCTGGTTCC
1 GGTTCATTAATTTCTAGCTCAGCTGGTTCC
1025494 GGTTCATTAATTT
1 GGTTCATTAATTT
1025507 TGGGTTCACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (30 bp):
GGTTCATTAATTTCTAGCTCAGCTGGTTCC
Found at i:1025478 original size:15 final size:15
Alignment explanation
Indices: 1025460--1025562 Score: 61
Period size: 15 Copynumber: 6.9 Consensus size: 15
1025450 GCTCAGCTGG
1025460 TTCTGGTTCATTAAT
1 TTCTGGTTCATTAAT
* * **
1025475 TTCTGGCTCAGCT-GG
1 TTCTGGTTCA-TTAAT
*
1025490 TTCCGGTTCATTAAT
1 TTCTGGTTCATTAAT
*
1025505 TT-TGGGTTCACTAAT
1 TTCT-GGTTCATTAAT
*
1025520 TTCTGGTTCA--ACT
1 TTCTGGTTCATTAAT
*
1025533 GGTTCTGGTTCATCAAT
1 --TTCTGGTTCATTAAT
*
1025550 TTCAGGTTCATTA
1 TTCTGGTTCATTA
1025563 TGTTTAGACC
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
13 2 0.03
14 1 0.02
15 58 0.89
16 2 0.03
17 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.19, T:0.45
Consensus pattern (15 bp):
TTCTGGTTCATTAAT
Found at i:1025513 original size:45 final size:45
Alignment explanation
Indices: 1025464--1025562 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
1025454 AGCTGGTTCT
* * **
1025464 GGTTCATTAATTTCTGGCTCAGCTGGTTCCGGTTCATTAATTTTG
1 GGTTCATTAATTTCTGGCTCAACTGGTTCCGGTTCATCAATTTCA
* * *
1025509 GGTTCACTAATTTCTGGTTCAACTGGTTCTGGTTCATCAATTTCA
1 GGTTCATTAATTTCTGGCTCAACTGGTTCCGGTTCATCAATTTCA
1025554 GGTTCATTA
1 GGTTCATTA
1025563 TGTTTAGACC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (45 bp):
GGTTCATTAATTTCTGGCTCAACTGGTTCCGGTTCATCAATTTCA
Found at i:1026266 original size:17 final size:17
Alignment explanation
Indices: 1026246--1026289 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
1026236 TTCACTAAAC
1026246 ACATATATTCATGCAGA
1 ACATATATTCATGCAGA
*
1026263 ACATATA--CATGCAGT
1 ACATATATTCATGCAGA
1026278 ACATATATTCAT
1 ACATATATTCAT
1026290 TGATTTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.58
17 10 0.42
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
ACATATATTCATGCAGA
Found at i:1026430 original size:17 final size:17
Alignment explanation
Indices: 1026381--1026434 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
1026371 AAAAAAAACA
1026381 TATCAGAACATATATTC
1 TATCAGAACATATATTC
* *
1026398 TAT-AAAACAAATTATTC
1 TATCAGAACATA-TATTC
1026415 TATCAGAACATATATTC
1 TATCAGAACATATATTC
1026432 TAT
1 TAT
1026435 TAATAAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.19
17 19 0.61
18 6 0.19
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (17 bp):
TATCAGAACATATATTC
Found at i:1026445 original size:19 final size:18
Alignment explanation
Indices: 1026421--1026463 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 18
1026411 ATTCTATCAG
1026421 AACATATATTCTATTAATA
1 AACATATATTC-ATTAATA
1026440 AAC--ATA-TCATTAATA
1 AACATATATTCATTAATA
1026455 AACATATAT
1 AACATATAT
1026464 ATTAATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 6 0.29
19 3 0.14
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (18 bp):
AACATATATTCATTAATA
Found at i:1026453 original size:15 final size:15
Alignment explanation
Indices: 1026433--1026461 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1026423 CATATATTCT
1026433 ATTAATAAACATATC
1 ATTAATAAACATATC
1026448 ATTAATAAACATAT
1 ATTAATAAACATAT
1026462 ATATTAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTAATAAACATATC
Found at i:1027131 original size:49 final size:49
Alignment explanation
Indices: 1027054--1027150 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
1027044 ATTTTCAGAA
*
1027054 GAGGGAAATGAAAATGGTTTGAAGCCGAATGGGTTTTGTGCGAAAAAAT
1 GAGGGAAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGCGAAAAAAT
* * *
1027103 GAGGGTAATGAAAATGGTTTGAAACCGAATTGGTTTTGTGTGAAAAAA
1 GAGGGAAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGCGAAAAAA
1027151 CTCATGTGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.05, G:0.31, T:0.27
Consensus pattern (49 bp):
GAGGGAAATGAAAATGGTTTGAAACCGAATGGGTTTTGTGCGAAAAAAT
Found at i:1027309 original size:28 final size:29
Alignment explanation
Indices: 1027249--1027320 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
1027239 TTAACGGGGA
* * * *
1027249 GTGGCCTGATTGAATCAACTAAAAGGTTTG
1 GTGGTCTGATTGATTCAAC-AAAAAGTTCG
1027279 GTGGTCTGATTGATTCAA-AAAAAGTTCG
1 GTGGTCTGATTGATTCAACAAAAAGTTCG
*
1027307 GTGGTCAGATTGAT
1 GTGGTCTGATTGAT
1027321 AATTGACCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 21 0.57
30 16 0.43
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (29 bp):
GTGGTCTGATTGATTCAACAAAAAGTTCG
Found at i:1029975 original size:23 final size:23
Alignment explanation
Indices: 1029949--1029994 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1029939 TGATCGCTTG
* *
1029949 TATTCTTTAGTTTTTCTATTTTT
1 TATTCTTTAGTGTTTCCATTTTT
* *
1029972 TATTTTTTTGTGTTTCCATTTTT
1 TATTCTTTAGTGTTTCCATTTTT
1029995 CAATAAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.09, G:0.07, T:0.74
Consensus pattern (23 bp):
TATTCTTTAGTGTTTCCATTTTT
Found at i:1030950 original size:71 final size:72
Alignment explanation
Indices: 1030775--1031181 Score: 328
Period size: 71 Copynumber: 5.7 Consensus size: 72
1030765 ACAATTTTTT
* * * *
1030775 AAGAGAAAACTATCTCAAGCGAGATAAAGTTTT-TGTTGGAGAAAAACTGTCTCGAATGAAATGA
1 AAGAGAAAACTATCTCAAGCGAGATAAAGTTTTGT-TTCGAGAGAAACTGTCTCGAGTGAGATGA
*
1030839 AAAATTTG
65 AAAATTTC
* **** * *
1030847 AAGAG--AACTATCTCAAGAGAGATTTTTTTTTTGTTTCGAGAAAAACTGTCTCGAGTGATATGA
1 AAGAGAAAACTATCTCAAGCGAGA-TAAAGTTTTGTTTCGAGAGAAACTGTCTCGAGTGAGATGA
* *
1030910 ACATTTTC
65 AAAATTTC
* * * * **
1030918 AAGAGAAAACTATCTCAAGCGAGATAAA-TTTTGTTTTGAGAGAAACTATCTTGAGTAAGAAAAA
1 AAGAGAAAACTATCTCAAGCGAGATAAAGTTTTGTTTCGAGAGAAACTGTCTCGAGTGAGATGAA
1030982 AAATTTC
66 AAATTTC
* ** * * * * *
1030989 AAAAGAAAGTTATCTCAAGTGAGAAAAAGTTTTTGTTAT-AAGAGAAATTGTCTCGAGTG-GA-A
1 AAGAGAAAACTATCTCAAGCGAGATAAAG-TTTTGTT-TCGAGAGAAACTGTCTCGAGTGAGATG
*
1031051 AAAAAATTC
64 AAAAATTTC
* * * *
1031060 AAAAG-AAACTATCTCAAGCGAGATAAAGCTTTTGTTTTGAGAGAAACTGTCTCAAGTGAGACGA
1 AAGAGAAAACTATCTCAAGCGAGATAAAG-TTTTGTTTCGAGAGAAACTGTCTCGAGTGAGATGA
* *
1031124 AACTTATTTT
65 AA--AATTTC
* * * *
1031134 AAG-GAAAACAATCTCAAGTGAGATAAAAATTTTGTTTCAAGAGAAACT
1 AAGAGAAAACTATCTCAAGCGAGAT-AAAGTTTTGTTTCGAGAGAAACT
1031182 ATATCAAGGG
Statistics
Matches: 267, Mismatches: 54, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
69 1 0.00
70 59 0.22
71 113 0.42
72 12 0.04
73 39 0.15
74 40 0.15
75 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (72 bp):
AAGAGAAAACTATCTCAAGCGAGATAAAGTTTTGTTTCGAGAGAAACTGTCTCGAGTGAGATGAA
AAATTTC
Found at i:1031198 original size:38 final size:39
Alignment explanation
Indices: 1031147--1031221 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
1031137 GAAAACAATC
*
1031147 TCAAGTGAGATAAAAATTTTGTTTC-AAGAGAAACTATA
1 TCAAGGGAGATAAAAATTTTGTTTCGAAGAGAAACTATA
* *
1031185 TCAAGGGATATAAAATTTTTGTTTCTGAAGAGAAACT
1 TCAAGGGAGATAAAAATTTTGTTTC-GAAGAGAAACT
1031222 CTTAAAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 22 0.69
40 10 0.31
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.33
Consensus pattern (39 bp):
TCAAGGGAGATAAAAATTTTGTTTCGAAGAGAAACTATA
Found at i:1031452 original size:32 final size:32
Alignment explanation
Indices: 1031392--1031452 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
1031382 AGAAAGATAA
**
1031392 ATTTGAAAATATTTTCATAAGAGAAAAATGAT
1 ATTTGAAAATATTCCCATAAGAGAAAAATGAT
* *
1031424 ATTTGAAAATATTCCCATGAGAGGAAAAT
1 ATTTGAAAATATTCCCATAAGAGAAAAAT
1031453 AATGAATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.31
Consensus pattern (32 bp):
ATTTGAAAATATTCCCATAAGAGAAAAATGAT
Found at i:1033125 original size:18 final size:18
Alignment explanation
Indices: 1033102--1033150 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
1033092 TTGCGCTTAT
**
1033102 TTTCAAAATCAAAACCGC
1 TTTCAAAATCAAAACAAC
1033120 TTTCAAAATCAAAACAAC
1 TTTCAAAATCAAAACAAC
1033138 TTTCAAAAT-AAAA
1 TTTCAAAATCAAAA
1033151 GATTGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.24
Consensus pattern (18 bp):
TTTCAAAATCAAAACAAC
Found at i:1035552 original size:23 final size:23
Alignment explanation
Indices: 1035525--1035579 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
1035515 TTAGTACCAA
1035525 TGAAAAATAGTAAGAATTATTAT
1 TGAAAAATAGTAAGAATTATTAT
1035548 TGAAAAATAGTAAGAATTATTAT
1 TGAAAAATAGTAAGAATTATTAT
1035571 TGAAAAATA
1 TGAAAAATA
1035580 AATCATACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.33
Consensus pattern (23 bp):
TGAAAAATAGTAAGAATTATTAT
Found at i:1037018 original size:24 final size:23
Alignment explanation
Indices: 1036964--1037019 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
1036954 TCGAAATTGA
*
1036964 CACATAGAATTGCACCGAAGTGC
1 CACATAGAATTGCACCAAAGTGC
* *
1036987 CGCGTAGAATATGCACCAAAGTGC
1 CACATAGAAT-TGCACCAAAGTGC
1037011 CACATAGAA
1 CACATAGAA
1037020 ATGTCCCGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (23 bp):
CACATAGAATTGCACCAAAGTGC
Found at i:1037067 original size:46 final size:46
Alignment explanation
Indices: 1037015--1037111 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
1037005 AAGTGCCACA
*
1037015 TAGAAATGTCCCGAAGGACCACATAGGTATGTCCCGAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCACATAGATATGTCCCGAAGGACCGCG
** * *
1037061 TAGAAATGTCTTGAAGGACCACGTAGATTTGTCCCGAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCACATAGATATGTCCCGAAGGACCGCG
1037107 TAGAA
1 TAGAA
1037112 CCCTCGACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.19
Consensus pattern (46 bp):
TAGAAATGTCCCGAAGGACCACATAGATATGTCCCGAAGGACCGCG
Found at i:1037108 original size:23 final size:23
Alignment explanation
Indices: 1037010--1037110 Score: 112
Period size: 23 Copynumber: 4.4 Consensus size: 23
1037000 CACCAAAGTG
* *
1037010 CCACATAGAAATGTCCCGAAGGA
1 CCACGTAGATATGTCCCGAAGGA
* *
1037033 CCACATAGGTATGTCCCGAAGGA
1 CCACGTAGATATGTCCCGAAGGA
* * **
1037056 CCGCGTAGAAATGTCTTGAAGGA
1 CCACGTAGATATGTCCCGAAGGA
*
1037079 CCACGTAGATTTGTCCCGAAGGA
1 CCACGTAGATATGTCCCGAAGGA
*
1037102 CCGCGTAGA
1 CCACGTAGA
1037111 ACCCTCGACT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
CCACGTAGATATGTCCCGAAGGA
Found at i:1037623 original size:2 final size:2
Alignment explanation
Indices: 1037616--1037649 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1037606 TATAATATTT
1037616 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1037650 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1037654 original size:2 final size:2
Alignment explanation
Indices: 1037649--1037685 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1037639 ACACACACAC
1037649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1037686 ACAATGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1051774 original size:108 final size:108
Alignment explanation
Indices: 1051565--1051803 Score: 255
Period size: 108 Copynumber: 2.2 Consensus size: 108
1051555 ATTTATGGCC
* * * *
1051565 TGAGGACTTTGT-TCATTTTCATTCCAGCTTATAGGTTGAGCTTTTTGTGCATCTTCATTATGAT
1 TGAGGACTTTGTGT-ATCTTCATTCCAGCTTATAGCTTGAGCTTTGTGTGCATCTTCAATATGAT
* * **** *
1051629 TTATATGTTGAGGACTGCTCATGTTTGTATCACGGCTTATCTGT
65 TCATATGTTGAGGACTACTCATGTCCACATCACGGCTTACCTGT
* ** * *
1051673 TGAGGACTTTGTGTATCTTCATTCCAGTTTATCTCTTGAGGTTTGTGTGCATCTTCAATATGGTT
1 TGAGGACTTTGTGTATCTTCATTCCAGCTTATAGCTTGAGCTTTGTGTGCATCTTCAATATGATT
* *** * *
1051738 CATATGTTGAGGACTACTGATGTCCACATTGTGGCTTCCCTTT
66 CATATGTTGAGGACTACTCATGTCCACATCACGGCTTACCTGT
*
1051781 TGAGGACTTTGTGTGTCTTCATT
1 TGAGGACTTTGTGTATCTTCATT
1051804 GTGGCTTACC
Statistics
Matches: 107, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
108 106 0.99
109 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (108 bp):
TGAGGACTTTGTGTATCTTCATTCCAGCTTATAGCTTGAGCTTTGTGTGCATCTTCAATATGATT
CATATGTTGAGGACTACTCATGTCCACATCACGGCTTACCTGT
Found at i:1051820 original size:36 final size:36
Alignment explanation
Indices: 1051764--1051832 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
1051754 CTGATGTCCA
* ** *
1051764 CATTGTGGCTTCCCTTTTGAGGACTTTGTGTGTCTT
1 CATTGTGGCTTACCAGTTGAGGACTTTCTGTGTCTT
*
1051800 CATTGTGGCTTACCAGTTGAGGAGTTTCTGTGT
1 CATTGTGGCTTACCAGTTGAGGACTTTCTGTGT
1051833 TTCCATTCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (36 bp):
CATTGTGGCTTACCAGTTGAGGACTTTCTGTGTCTT
Found at i:1052881 original size:33 final size:33
Alignment explanation
Indices: 1052839--1052906 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
1052829 TTGAACAAAG
1052839 ATGTCTACAATTTTTATGCCATGATTTAGTTAA
1 ATGTCTACAATTTTTATGCCATGATTTAGTTAA
1052872 ATGTCTACAATTTTTATGCCATGATTTAGTTAA
1 ATGTCTACAATTTTTATGCCATGATTTAGTTAA
1052905 AT
1 AT
1052907 ATCTGAGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (33 bp):
ATGTCTACAATTTTTATGCCATGATTTAGTTAA
Found at i:1053636 original size:6 final size:6
Alignment explanation
Indices: 1053627--1053733 Score: 187
Period size: 6 Copynumber: 17.8 Consensus size: 6
1053617 TCCACGCCCA
1053627 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT
*
1053675 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CTTCTT CCTCTT CCTCTT
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT
* *
1053723 TCTCTT TCTCT
1 CCTCTT CCTCT
1053734 GGGTTTAGCC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 98 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CCTCTT
Found at i:1054106 original size:22 final size:22
Alignment explanation
Indices: 1054081--1054167 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 22
1054071 GTGGAGGTAA
1054081 TTATCTTTTAAAATTTTTAAAT
1 TTATCTTTTAAAATTTTTAAAT
* *
1054103 TTATTTTAATTAAAATATATT---T
1 TTATCTT--TTAAAAT-TTTTAAAT
* * *
1054125 TCATCTTCTAAAATTTATAAAT
1 TTATCTTTTAAAATTTTTAAAT
1054147 TTATC-TTTAAAATTTTATAAA
1 TTATCTTTTAAAATTTT-TAAA
1054168 AATTATTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
19 2 0.04
20 6 0.12
21 9 0.19
22 21 0.44
24 7 0.15
25 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATCTTTTAAAATTTTTAAAT
Found at i:1057791 original size:90 final size:89
Alignment explanation
Indices: 1057638--1057812 Score: 269
Period size: 90 Copynumber: 2.0 Consensus size: 89
1057628 CCTAACACAC
* * *
1057638 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTAGTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTAGTTCAAATTAATTAAATCTAT
*
1057703 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
* * * *
1057728 CCTTTTATATCCGAGTTATCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTAGTTCAAATTAATTAAATCTAT
1057793 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
1057813 ATATTCGAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 7 0.09
90 70 0.91
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTAGTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:1061437 original size:22 final size:22
Alignment explanation
Indices: 1061368--1061439 Score: 108
Period size: 23 Copynumber: 3.2 Consensus size: 22
1061358 ACAATTTTAC
*
1061368 GTGGTCCTTCGGGACATTTCTAT
1 GTGGTCCTTTGGGACA-TTCTAT
*
1061391 GTAGTCCTTTGGGACATATCTAT
1 GTGGTCCTTTGGGACAT-TCTAT
1061414 GTGGTCCTTTGGGACATTCTAT
1 GTGGTCCTTTGGGACATTCTAT
1061436 GTGG
1 GTGG
1061440 CACTTCGGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.22
23 35 0.78
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (22 bp):
GTGGTCCTTTGGGACATTCTAT
Found at i:1073533 original size:19 final size:19
Alignment explanation
Indices: 1073509--1073547 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1073499 TGTTCCCATG
1073509 AAGTCGAATTGCTTTCTAT
1 AAGTCGAATTGCTTTCTAT
1073528 AAGTCGAATTGCTTTCTAT
1 AAGTCGAATTGCTTTCTAT
1073547 A
1 A
1073548 TGCCGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (19 bp):
AAGTCGAATTGCTTTCTAT
Found at i:1073554 original size:19 final size:19
Alignment explanation
Indices: 1073513--1073555 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1073503 CCCATGAAGT
*
1073513 CGAATTGCTTTCTATAAGT
1 CGAATTGCTTTCTATAAGC
*
1073532 CGAATTGCTTTCTATATGC
1 CGAATTGCTTTCTATAAGC
1073551 CGAAT
1 CGAAT
1073556 CTTCCTCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (19 bp):
CGAATTGCTTTCTATAAGC
Found at i:1081866 original size:46 final size:45
Alignment explanation
Indices: 1081800--1081892 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 45
1081790 GGTTCTACGC
* ** *
1081800 GGTCCTTCGGGACAATTCTATGTGGTCTTTTGGGACATTTCTATGT
1 GGTCCTTCGGAACAATTCTATGTGGTCCATTGGGACA-TTCTAAGT
1081846 GGTCCTTCGGAAC-ATATCTATGTGGTCCATTGGGACATTCTAAGT
1 GGTCCTTCGGAACAAT-TCTATGTGGTCCATTGGGACATTCTAAGT
1081891 GG
1 GG
1081893 CACTTCGATG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (45 bp):
GGTCCTTCGGAACAATTCTATGTGGTCCATTGGGACATTCTAAGT
Found at i:1081892 original size:22 final size:22
Alignment explanation
Indices: 1081800--1081892 Score: 107
Period size: 23 Copynumber: 4.1 Consensus size: 22
1081790 GGTTCTACGC
1081800 GGTCCTTCGGGACAATTCTATGT
1 GGTCCTTCGGGAC-ATTCTATGT
* *
1081823 GGTCTTTTGGGACATTTCTATGT
1 GGTCCTTCGGGACA-TTCTATGT
*
1081846 GGTCCTTCGGAACATATCTATGT
1 GGTCCTTCGGGACAT-TCTATGT
*
1081869 GGTCCATT-GGGACATTCTAAGT
1 GGTCC-TTCGGGACATTCTATGT
1081891 GG
1 GG
1081893 CACTTCGATG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.17
23 48 0.80
24 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTATGT
Done.