Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008167.1 Hibiscus syriacus cultivar Beakdansim tig00110748_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: 1661898
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 3 of 5
Found at i:732908 original size:59 final size:59
Alignment explanation
Indices: 732785--732910 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 59
732775 AGTGCTATCT
* * **
732785 CGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTCC
1 CGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCC
* * ** *
732844 TGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTATTCC
1 CGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCC
732903 CGAATATG
1 CGAATATG
732911 CAGCCTGCTG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (59 bp):
CGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAGTCC
Found at i:737917 original size:18 final size:20
Alignment explanation
Indices: 737894--737945 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
737884 ATTTGGAGTG
737894 CAAAAAGAAAAGAA-AAG-A
1 CAAAAAGAAAAGAAGAAGTA
*
737912 CAAAAAGAAGAAAAAGAAGTA
1 CAAAAAGAA-AAGAAGAAGTA
737933 CAAAAAGAGAAAG
1 CAAAAAGA-AAAG
737946 CAAGCCAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.32
19 4 0.14
20 3 0.11
21 11 0.39
22 1 0.04
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (20 bp):
CAAAAAGAAAAGAAGAAGTA
Found at i:749771 original size:16 final size:16
Alignment explanation
Indices: 749722--749786 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
749712 GTAAGATAAA
*
749722 AAAGGATAAGGAAATG
1 AAAGAATAAGGAAATG
* *
749738 AAATAAGAA--AAGATG
1 AAAGAATAAGGAA-ATG
749753 AAAGAATAAGGAAATG
1 AAAGAATAAGGAAATG
* * *
749769 AAATAGTAAGAAAATG
1 AAAGAATAAGGAAATG
749785 AA
1 AA
749787 GATAACTTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 24 0.63
17 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAGAATAAGGAAATG
Found at i:750743 original size:19 final size:20
Alignment explanation
Indices: 750696--750746 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
750686 GAATCCCCTT
**
750696 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
750716 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
750735 TGAAGATACATG
1 TGAAAATACATG
750747 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:755285 original size:5 final size:5
Alignment explanation
Indices: 755270--755307 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
755260 TTTGGAGTGC
*
755270 AAAAG -AAAG AAAAG AAAAAG AAGAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAA
755308 TTCAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:755298 original size:16 final size:15
Alignment explanation
Indices: 755270--755322 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
755260 TTTGGAGTGC
755270 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
755285 AAAAGAAGAGAAAAG-
1 AAAAGAA-AGAAAAGA
**
755300 AAAAGAAATTCAAAGA
1 AAAAGAAA-GAAAAGA
755316 AAAAGAA
1 AAAAGAA
755323 GTGAAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 14 0.42
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:759070 original size:19 final size:18
Alignment explanation
Indices: 759048--759088 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
759038 GTGCTGCAAC
*
759048 AAAAATCAAAAGAAAGAAG
1 AAAAATAAAAAGAAA-AAG
*
759067 AAAAATAAAAAGTAAAAG
1 AAAAATAAAAAGAAAAAG
759085 AAAA
1 AAAA
759089 GACCCTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAAATAAAAAGAAAAAG
Found at i:763835 original size:24 final size:24
Alignment explanation
Indices: 763808--763867 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
763798 TCAAGAATCA
*
763808 TGGCTTTTGGAGGACTAAAAGATG
1 TGGCTTTTGAAGGACTAAAAGATG
763832 TGGCTTTTGAAGGACTAAAAGATG
1 TGGCTTTTGAAGGACTAAAAGATG
763856 TGGCTTTTGAAG
1 TGGCTTTTGAAG
763868 AATCATGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (24 bp):
TGGCTTTTGAAGGACTAAAAGATG
Found at i:767794 original size:24 final size:24
Alignment explanation
Indices: 767739--767794 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
767729 AAACATATCT
*
767739 CTTGATGTTTCAAAGATAATGTCA
1 CTTGAAGTTTCAAAGATAATGTCA
* *
767763 TTTTAAGTTTCAAGAGA-AATGTCA
1 CTTGAAGTTTCAA-AGATAATGTCA
767787 CTTGAAGT
1 CTTGAAGT
767795 GCCAAGAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (24 bp):
CTTGAAGTTTCAAAGATAATGTCA
Found at i:770726 original size:32 final size:32
Alignment explanation
Indices: 770685--770749 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
770675 AGAACATATC
*
770685 CTTGAGTGCAAACACGAGTGTTAGTAGAGTGA
1 CTTGAGTGCAAACACGAGTGTGAGTAGAGTGA
770717 CTTGAGTGCAAACACGAGTGTGAGTAGAGTGA
1 CTTGAGTGCAAACACGAGTGTGAGTAGAGTGA
770749 C
1 C
770750 ATTTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (32 bp):
CTTGAGTGCAAACACGAGTGTGAGTAGAGTGA
Found at i:775611 original size:24 final size:21
Alignment explanation
Indices: 775576--775618 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
775566 GGCACATTCT
*
775576 TTTGAATTTCAAGAGGTACATCA
1 TTTGAATGTCAA-AGG-ACATCA
775599 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
775619 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCA
Found at i:783233 original size:26 final size:22
Alignment explanation
Indices: 783203--783271 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
783193 ATTGGAGTGC
*
783203 AAAAAGAAAAGAAAAGGCAAAAAG
1 AAAAAAAAAAGAAAA-G-AAAAAG
783227 AAGAAAAACAAAGAAAAGAAAAAG
1 AA-AAAAA-AAAGAAAAGAAAAAG
* *
783251 AAAATAAAAAGAAAATAAAAA
1 AAAAAAAAAAGAAAAGAAAAA
783272 AAGGCAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.32
23 4 0.10
24 10 0.25
25 5 0.12
26 8 0.20
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (22 bp):
AAAAAAAAAAGAAAAGAAAAAG
Found at i:783252 original size:11 final size:10
Alignment explanation
Indices: 783203--783271 Score: 66
Period size: 11 Copynumber: 6.5 Consensus size: 10
783193 ATTGGAGTGC
783203 AAAAAGAAAA
1 AAAAAGAAAA
* *
783213 GAAAAGGCAAA
1 -AAAAAGAAAA
*
783224 AAGAAGAAAA
1 AAAAAGAAAA
*
783234 ACAAAGAAAA
1 AAAAAGAAAA
783244 GAAAAAGAAAA
1 -AAAAAGAAAA
783255 TAAAAAGAAAA
1 -AAAAAGAAAA
783266 TAAAAA
1 -AAAAA
783272 AAGGCAAGCC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
10 15 0.31
11 33 0.69
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:789503 original size:23 final size:23
Alignment explanation
Indices: 789477--789521 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
789467 AAATCCAGCA
789477 AAGAAAATCAAAGAACTCAAAAC
1 AAGAAAATCAAAGAACTCAAAAC
* * *
789500 AAGAAATTGAAAGCACTCAAAA
1 AAGAAAATCAAAGAACTCAAAA
789522 AGGAAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (23 bp):
AAGAAAATCAAAGAACTCAAAAC
Found at i:796517 original size:24 final size:24
Alignment explanation
Indices: 796490--796544 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
796480 AGAATCATGG
* *
796490 CTTTTGGAGGACTAAAAGATGTTA
1 CTTTTGGAGAACGAAAAGATGTTA
* * *
796514 CTTTTGAAGAACGAATAGTTGTTA
1 CTTTTGGAGAACGAAAAGATGTTA
796538 CTTTTGG
1 CTTTTGG
796545 TGATTAATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (24 bp):
CTTTTGGAGAACGAAAAGATGTTA
Found at i:796938 original size:24 final size:24
Alignment explanation
Indices: 796911--796963 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
796901 TGCATAAAGT
*
796911 CATGAATTTTCATGAT-CCAATGGA
1 CATGAATTTT-AGGATGCCAATGGA
* *
796935 CATGACTTTTGGGATGCCAATGGA
1 CATGAATTTTAGGATGCCAATGGA
796959 CATGA
1 CATGA
796964 TCATTCAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (24 bp):
CATGAATTTTAGGATGCCAATGGA
Found at i:799125 original size:25 final size:23
Alignment explanation
Indices: 799087--799132 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
799077 CAAGTGCTAC
799087 AACAAAAAGCAAAAGAAAGAAGAAA
1 AACAAAAAGCAAAA-AAA-AAGAAA
*
799112 AACAAAAAGTAAAAAAAAAGA
1 AACAAAAAGCAAAAAAAAAGA
799133 CTCCTATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 3 0.15
25 13 0.65
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.02
Consensus pattern (23 bp):
AACAAAAAGCAAAAAAAAAGAAA
Found at i:810876 original size:24 final size:21
Alignment explanation
Indices: 810841--810883 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
810831 GGCACATTCT
*
810841 TTTGAATTTCAAGAGGTACATCA
1 TTTGAATGTCAA-AGG-ACATCA
810864 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
810884 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCA
Found at i:813469 original size:24 final size:25
Alignment explanation
Indices: 813411--813471 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
813401 ACTTTTCTTT
813411 CTTTC-TTTTTCTTCTTTTCGAGTA
1 CTTTCATTTTTCTTCTTTTCGAGTA
* *
813435 CTTTCA-ATTTCTTCTTTT-GAGTG
1 CTTTCATTTTTCTTCTTTTCGAGTA
*
813458 CTTTGATTTTTCTT
1 CTTTCATTTTTCTT
813472 TGCTGGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.10, C:0.18, G:0.10, T:0.62
Consensus pattern (25 bp):
CTTTCATTTTTCTTCTTTTCGAGTA
Found at i:850672 original size:24 final size:25
Alignment explanation
Indices: 850642--850698 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
850632 AAAAATCAGC
850642 AAAGAAAAATAAAAGCACTC-AAAA
1 AAAGAAAAATAAAAGCACTCGAAAA
* * *
850666 GAAG-AAATTGAAAGCACTCGAAAA
1 AAAGAAAAATAAAAGCACTCGAAAA
850690 AAAGAAAAA
1 AAAGAAAAA
850699 AAGAAAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 13 0.50
24 10 0.38
25 3 0.12
ACGTcount: A:0.67, C:0.11, G:0.14, T:0.09
Consensus pattern (25 bp):
AAAGAAAAATAAAAGCACTCGAAAA
Found at i:851980 original size:24 final size:24
Alignment explanation
Indices: 851953--852004 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
851943 GACATGTCCT
* * *
851953 TTGACGTTCCAATAGCTATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
* *
851977 TTGATGTTCAAAAAGATGTGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
852001 TTGA
1 TTGA
852005 AGTGCCAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (24 bp):
TTGACGTTCAAAAAGATATGCCAC
Found at i:855176 original size:15 final size:15
Alignment explanation
Indices: 855165--855193 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
855155 ACTCAAAAAG
855165 AATAAAAGCAAAGAA
1 AATAAAAGCAAAGAA
855180 AATAAAAG-AAAGAA
1 AATAAAAGCAAAGAA
855194 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (15 bp):
AATAAAAGCAAAGAA
Found at i:856579 original size:24 final size:24
Alignment explanation
Indices: 856496--856570 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
856486 TTCAAAAAGA
*
856496 TGTGTCACTTGAAGTGCCACAAGT
1 TGTGTCACTTGAAGTGTCACAAGT
*
856520 TGTGTCACTTGAAGTTTCACAAGT
1 TGTGTCACTTGAAGTGTCACAAGT
856544 TGTGTCACTTGAAGTGTCACAAGT
1 TGTGTCACTTGAAGTGTCACAAGT
856568 TGT
1 TGT
856571 AATCATTGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (24 bp):
TGTGTCACTTGAAGTGTCACAAGT
Found at i:861406 original size:89 final size:90
Alignment explanation
Indices: 861228--861407 Score: 211
Period size: 89 Copynumber: 2.0 Consensus size: 90
861218 GGTAGTTAAT
* *
861228 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGTCTAAATAAACACATACAAGGCACATAG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTAGCGCCTAAATAAACACATACAAGGCACATAG
* *
861293 GGGCTGATCACATGCAAAATACATG
66 GGGCTGATCACATACAAAACACATG
* ** * * *
861318 GCTTGGCCGAATA-GG-GAGATCTCTTCATCTTAGCGCCTAAATGATCCACATCCAAGGCGCATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTAGCGCCTAAAT-AAACACATACAAGGCACATA
* * **
861381 GGGGCTGGTCATATACAAGGCACATG
65 GGGGCTGATCACATACAAAACACATG
861407 G
1 G
861408 TGTTTTAGGA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 24 0.32
89 38 0.51
90 13 0.17
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (90 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTAGCGCCTAAATAAACACATACAAGGCACATAG
GGGCTGATCACATACAAAACACATG
Found at i:865767 original size:91 final size:91
Alignment explanation
Indices: 865585--865758 Score: 276
Period size: 91 Copynumber: 1.9 Consensus size: 91
865575 GGTAGTTGAT
* *
865585 GCTTGGCCAAATAGGGAGAGAACTCTTCATCTTGGTGCCTAAATGAACCACATGCAAGGCACATG
1 GCTTGGCCAAATAGGGAGAGAACTCTTCATCCTGGCGCCTAAATGAACCACATGCAAGGCACATG
*
865650 GGGGCTGATCCCATGCAAAACACATG
66 GGGGCTGATCACATGCAAAACACATG
* * *
865676 GCTTGGCCGAATAGGGAGAGAACTCTTCATCCTGGCGCCTAAATGATCCACATGCAAGGCGCATG
1 GCTTGGCCAAATAGGGAGAGAACTCTTCATCCTGGCGCCTAAATGAACCACATGCAAGGCACATG
* *
865741 GGGGCTGGTCATATGCAA
66 GGGGCTGATCACATGCAA
865759 GGTACATGGG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (91 bp):
GCTTGGCCAAATAGGGAGAGAACTCTTCATCCTGGCGCCTAAATGAACCACATGCAAGGCACATG
GGGGCTGATCACATGCAAAACACATG
Found at i:867174 original size:155 final size:155
Alignment explanation
Indices: 866892--867192 Score: 584
Period size: 155 Copynumber: 1.9 Consensus size: 155
866882 AAGTTTCACA
866892 TGAGAAACAAATAACAGTGGAGGGAGATAAGAATGAAAATGAGAAAATTGATGTGAGAAACGTTG
1 TGAGAAACAAATAACAGTGGAGGGAGATAAGAATGAAAATGAGAAAATTGATGTGAGAAACGTTG
866957 GAGTCGAAAATGAGAAAGTTGAAAAGATTGAATTTGGGAGCAAAGGGGGAAGTACGTGTAGAAGA
66 GAGTCGAAAATGAGAAAGTTGAAAAGATTGAATTTGGGAGCAAAGGGGGAAGTACGTGTAGAAGA
867022 GAAAATGAAAGGATTCCAAGTGAGG
131 GAAAATGAAAGGATTCCAAGTGAGG
867047 TGAGAAACAAATAACAGTGGAGGGAGATAAGAATGAAAATGAGAAAATTGATGTGAGAAACGTTG
1 TGAGAAACAAATAACAGTGGAGGGAGATAAGAATGAAAATGAGAAAATTGATGTGAGAAACGTTG
*
867112 GAGTCGAAAATGAGAAAGTTGAAAAGATTGAATTTGGGAGCAAAGGGGGAAGTGCGTGTAGAAGA
66 GAGTCGAAAATGAGAAAGTTGAAAAGATTGAATTTGGGAGCAAAGGGGGAAGTACGTGTAGAAGA
*
867177 GATAATGAAAGGATTC
131 GAAAATGAAAGGATTC
867193 AATAATGGAG
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 144 1.00
ACGTcount: A:0.44, C:0.05, G:0.32, T:0.19
Consensus pattern (155 bp):
TGAGAAACAAATAACAGTGGAGGGAGATAAGAATGAAAATGAGAAAATTGATGTGAGAAACGTTG
GAGTCGAAAATGAGAAAGTTGAAAAGATTGAATTTGGGAGCAAAGGGGGAAGTACGTGTAGAAGA
GAAAATGAAAGGATTCCAAGTGAGG
Found at i:867563 original size:36 final size:36
Alignment explanation
Indices: 867490--867594 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
867480 ATTTATAAGT
* * *
867490 TGGTGATAATATAGGCGTGAT-ATGGTGAAGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
867525 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
867561 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
867595 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.30, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:872793 original size:12 final size:13
Alignment explanation
Indices: 872773--872812 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
872763 GTAGGAGTCT
872773 TTTTCTTTTC-TC
1 TTTTCTTTTCTTC
*
872785 TTTTGTTTTCTTC
1 TTTTCTTTTCTTC
872798 -TTTCTTTTCTT-
1 TTTTCTTTTCTTC
872809 TTTT
1 TTTT
872813 TTGTTGTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 22 0.92
13 2 0.08
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTCTTC
Found at i:872795 original size:17 final size:16
Alignment explanation
Indices: 872773--872814 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
872763 GTAGGAGTCT
*
872773 TTTTCTTTTCTCTTTTG
1 TTTTCTTTT-TCTTTTC
872790 TTTTCTTCTTTCTTTTC
1 TTTTCTT-TTTCTTTTC
872807 TTTT-TTTT
1 TTTTCTTTT
872815 GTTGTAGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 2 0.09
17 17 0.74
18 2 0.09
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTC
Found at i:873254 original size:36 final size:36
Alignment explanation
Indices: 873181--873285 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
873171 ATTTATAAGT
* * *
873181 TGGTGATAATATAGGCGTGAT-ATGGTGATAGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
873216 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
873252 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
873286 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:874823 original size:24 final size:24
Alignment explanation
Indices: 874796--874851 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
874786 TCCATTGAAG
874796 TTCCAAAGGTTCGAACATTTGGTA
1 TTCCAAAGGTTCGAACATTTGGTA
*
874820 TTCCAAAGGTTGGAACATTTGGTA
1 TTCCAAAGGTTCGAACATTTGGTA
874844 TTCCAAAG
1 TTCCAAAG
874852 AATGTGCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (24 bp):
TTCCAAAGGTTCGAACATTTGGTA
Found at i:877234 original size:24 final size:21
Alignment explanation
Indices: 877200--877242 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
877190 TGCACAAGAT
*
877200 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
877222 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
877243 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:884672 original size:5 final size:5
Alignment explanation
Indices: 884659--884696 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
884649 TTCCAGCAAT
* *
884659 AAAAA AAAAG AAAAG CAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
884697 GAAGTTGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:885956 original size:24 final size:21
Alignment explanation
Indices: 885922--885964 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
885912 TCCACAAGAC
*
885922 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
885944 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
885965 AGAATGTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:887471 original size:521 final size:521
Alignment explanation
Indices: 886494--887508 Score: 1524
Period size: 521 Copynumber: 1.9 Consensus size: 521
886484 GTGGCCGAAC
886494 CAACATGTACCTATTCGACCAAGTCCCTTCAAAAACTATAAATAAGCCATTATATTTCATTTGTA
1 CAACATGTACCTATTCGACCAAGTCCCTTCAAAAACTATAAATAAGCCATTATATTTCATTTGTA
** *
886559 ATAAGACCTTTTGTTTAATTAAATTGAGATTATTCTCTTCCTTAAGTCCTGGTGACTTTTTATCG
66 ATAAGAAATTTTGTTTAATTAAAGTGAGATTATTCTCTTCCTTAAGTCCTGGTGACTTTTTATCG
*
886624 ACTTATCAAGTATAATTTATACTCGTGGCGTCAACCCTCTTCTTTCATCTTGATACTTTTGGTTC
131 ACTTATCAAGTATAATTTATACTCGTGGCGTCAACCCTCTTCTTTCACCTTGATACTTTTGGTTC
* * *
886689 CTAGTTCATATAACTAGTGGGTCAAAGTACTTAACACCACCCCTTGAAGAAACAATGTAAAGATT
196 CTAATTCATATAACTAGTGGGTCAAAGTACTTAACACCACCCCTTAAAGAAACAATATAAAGATT
* *
886754 GGGTCTTTGCTCTCTATAGCATTGGTTCTTCTTTGAGCGTTCTTCAAGATACTATCCTCACAACC
261 GGGTCTTTGCTCTATATAGCATTGGTTCTTCTTTGAGCGTTCTTCAAGATACTAACCTCACAACC
* ** * *
886819 ATCCTTTTGTTTCATCTCCATAACCATAACCATTTCAATCATCTTCGGCTTCCATCTCTCATTTA
326 ATCCCTTTGTTTCATAACCATAACCATAACCATTTCAACCATCTTCCGCTTCCATCTCTCATTTA
* * * ** * *
886884 TTAATAGCCTACCTATTAAACCATACGTTTACCACCCTTATCCATTTTGTTTTGAGCCATTCACT
391 TAAACAGCCCACCTATTAAACCATACGCCTACCACCCTTAACCATTCTGTTTTGAGCCATTCACT
* *
886949 TGTGCAGGTTATTTTGCTTCATTCCTAGATCCACAATCAAATGAGAAGGTAGGATTACCTTACAT
456 TGTGCAGGTT-GTTTGCTTCATTCCTAAATCCACAATCAAATGAGAAGGTAGGATTACCTTACAT
887014 CA
520 CA
*
887016 CAACATGTACCTATTCGACCAAGTCCCTTCAAAAACTATAAATAGGCCATTATATTTCATTTGTA
1 CAACATGTACCTATTCGACCAAGTCCCTTCAAAAACTATAAATAAGCCATTATATTTCATTTGTA
* *
887081 ATCAGAAATTTTGTTTAATTAAAGTGATATTATTCTCTTCCTTAAGTCCTGGTGAC-TTTTATCG
66 ATAAGAAATTTTGTTTAATTAAAGTGAGATTATTCTCTTCCTTAAGTCCTGGTGACTTTTTATCG
* *
887145 ACTTATCAAGTAT-TTTTATACTTGTGGCGTCAACCC-CTTCTTTTCACCTTGATACTTTTGGTT
131 ACTTATCAAGTATAATTTATACTCGTGGCGTCAACCCTCTTC-TTTCACCTTGATACTTTTGGTT
* * * **
887208 CCTAATTCTTTATAACTAGTGGGTCAAAGTACTTCATACCACCCCTTAAAGAAGTAATATAAAG-
195 CCTAATTC-ATATAACTAGTGGGTCAAAGTACTTAACACCACCCCTTAAAGAAACAATATAAAGA
*
887272 TCTGGGTCTTTGCTCTATATAGCATTGGTTCTTCTTTGAGTC-TTCTTTAAGATACTAACCTCAC
259 T-TGGGTCTTTGCTCTATATAGCATTGGTTCTTCTTTGAG-CGTTCTTCAAGATACTAACCTCAC
*
887336 AACCATCCCTTTGTTTCATAAACCATAACCATAGCC-TTATCAACCATCTTCCGCTTCCATCTCT
322 AACCATCCCTTTGTTTCAT-AACCATAACCATAACCATT-TCAACCATCTTCCGCTTCCATCTCT
** * * *
887400 CATTT-TAAACAGCCCACCTATTTCACCATATGCCTACCACCCTTAACCCTCTCT-TTTTGGGCC
385 CATTTATAAACAGCCCACCTATTAAACCATACGCCTACCACCCTTAACCAT-TCTGTTTTGAGCC
* *
887463 ATTCACTTGTGCAGGTTGTTTGCTTCCTTCCTAAATCCATAATCAA
449 ATTCACTTGTGCAGGTTGTTTGCTTCATTCCTAAATCCACAATCAA
887509 TTGTTAAGGC
Statistics
Matches: 444, Mismatches: 42, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
519 4 0.01
520 75 0.17
521 206 0.46
522 159 0.36
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (521 bp):
CAACATGTACCTATTCGACCAAGTCCCTTCAAAAACTATAAATAAGCCATTATATTTCATTTGTA
ATAAGAAATTTTGTTTAATTAAAGTGAGATTATTCTCTTCCTTAAGTCCTGGTGACTTTTTATCG
ACTTATCAAGTATAATTTATACTCGTGGCGTCAACCCTCTTCTTTCACCTTGATACTTTTGGTTC
CTAATTCATATAACTAGTGGGTCAAAGTACTTAACACCACCCCTTAAAGAAACAATATAAAGATT
GGGTCTTTGCTCTATATAGCATTGGTTCTTCTTTGAGCGTTCTTCAAGATACTAACCTCACAACC
ATCCCTTTGTTTCATAACCATAACCATAACCATTTCAACCATCTTCCGCTTCCATCTCTCATTTA
TAAACAGCCCACCTATTAAACCATACGCCTACCACCCTTAACCATTCTGTTTTGAGCCATTCACT
TGTGCAGGTTGTTTGCTTCATTCCTAAATCCACAATCAAATGAGAAGGTAGGATTACCTTACATC
A
Found at i:891888 original size:19 final size:22
Alignment explanation
Indices: 891844--891886 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
891834 TTTCTTCCTT
891844 TTTGAGTGCTTTCAATTTCTTC
1 TTTGAGTGCTTTCAATTTCTTC
* *
891866 TTTGAGTGCTTTGATTTTCTT
1 TTTGAGTGCTTTCAATTTCTT
891887 TGCTGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (22 bp):
TTTGAGTGCTTTCAATTTCTTC
Found at i:902882 original size:13 final size:13
Alignment explanation
Indices: 902860--902889 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
902850 ACTAAACACC
902860 TTTC-ACATACCT
1 TTTCAACATACCT
902872 TTTCAACATACCT
1 TTTCAACATACCT
902885 TTTCA
1 TTTCA
902890 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:907511 original size:210 final size:209
Alignment explanation
Indices: 907103--907524 Score: 712
Period size: 211 Copynumber: 2.0 Consensus size: 209
907093 TCATAATGAT
907103 AAATGGAAACATGTAATAATAGTATCCTAGAAATGATATGTAATCATAGCATATATTTGAATAAT
1 AAATGGAAACATGTAATAATAGTATCCTAGAAATGATATGTAATCATAGCATATATTTGAATAAT
907168 ATGAAAAACATGATCAAATAAGCATAGGATGGAATAATAATATGATAATTTATATAACATATGAA
66 ATGAAAAACATGATCAAATAAGCATAGGATGGAATAATAATATG--AATTTATATAACATATGAA
907233 TGTATATGATAGAATAGAATGTATAAATGATATAGTATAAGATAGGGTAATGAAGAACATCCTTA
129 TGTATATGATAGAATAGAATGTATAAATGATATAGTATAAGATAGGGTAATGAAGAACATCCTTA
*
907298 GAAACCTA-TTGAAGA
194 GAAACATATTTGAAGA
907313 AAATGGAAACATGTAATAATAGTATCCTAAGAAATGATATGTAATCATAGCATATATTTGAATAA
1 AAATGGAAACATGTAATAATAGTATCCT-AGAAATGATATGTAATCATAGCATATATTTGAATAA
907378 TATG-AAAACATGATC-AATAAGCATAGGATGGAAATAATAAT-TG-ATTTATACTAACATATGA
65 TATGAAAAACATGATCAAATAAGCATAGGATGG-AATAATAATATGAATTTATA-TAACATATGA
907439 ATGTATGCTTATGATAGAATAGAATGTATAAATGATATAGTATAAGATAGGGTAATGAAGAAC-T
128 ATGTA----TATGATAGAATAGAATGTATAAATGATATAGTATAAGATAGGGTAATGAAGAACAT
907503 CCTTAGAAACATATTTGAAGA
189 CCTTAGAAACATATTTGAAGA
907524 A
1 A
907525 CATCTATGGT
Statistics
Matches: 203, Mismatches: 1, Indels: 15
0.93 0.00 0.07
Matches are distributed among these distances:
206 7 0.03
207 15 0.07
209 18 0.09
210 61 0.30
211 102 0.50
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (209 bp):
AAATGGAAACATGTAATAATAGTATCCTAGAAATGATATGTAATCATAGCATATATTTGAATAAT
ATGAAAAACATGATCAAATAAGCATAGGATGGAATAATAATATGAATTTATATAACATATGAATG
TATATGATAGAATAGAATGTATAAATGATATAGTATAAGATAGGGTAATGAAGAACATCCTTAGA
AACATATTTGAAGA
Found at i:909658 original size:12 final size:12
Alignment explanation
Indices: 909626--909652 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
909616 TTATTTTTCT
909626 TTCACTTTGCAC
1 TTCACTTTGCAC
909638 TTCACTTTGCAC
1 TTCACTTTGCAC
909650 TTC
1 TTC
909653 TTTTTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.44
Consensus pattern (12 bp):
TTCACTTTGCAC
Found at i:912320 original size:24 final size:21
Alignment explanation
Indices: 912285--912327 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
912275 GTCTCATTCT
*
912285 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATATCAA-AGG-ACATCC
912308 TTTGAAATATCAAAGGACAT
1 TTTG-AATATCAAAGGACAT
912328 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (21 bp):
TTTGAATATCAAAGGACATCC
Found at i:913670 original size:12 final size:12
Alignment explanation
Indices: 913638--913664 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
913628 TTATTTTTCT
913638 TTCACTTTGCAC
1 TTCACTTTGCAC
913650 TTCACTTTGCAC
1 TTCACTTTGCAC
913662 TTC
1 TTC
913665 TTTTTGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.44
Consensus pattern (12 bp):
TTCACTTTGCAC
Found at i:917570 original size:30 final size:30
Alignment explanation
Indices: 917531--917603 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
917521 CTTTTCTTTT
*
917531 ATTTGCTTTTCTTTTT-TTTTAAAGTGCTGGA
1 ATTT-CTTTT-TTTTTCTTTTAAAGTGCTGCA
* *
917562 ATTTCTTTTTTTTTCTTTTGAAGTGCTTCA
1 ATTTCTTTTTTTTTCTTTTAAAGTGCTGCA
917592 ATTTCTTTTTTT
1 ATTTCTTTTTTT
917604 CTGATTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.13
30 29 0.76
31 4 0.11
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.64
Consensus pattern (30 bp):
ATTTCTTTTTTTTTCTTTTAAAGTGCTGCA
Found at i:921018 original size:24 final size:21
Alignment explanation
Indices: 920984--921026 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
920974 TCCACAAGAT
*
920984 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
921006 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
921027 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:931005 original size:24 final size:24
Alignment explanation
Indices: 930955--931006 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
930945 TTGCTTTTTC
* *
930955 TTCTTTTGAGTGCTGGATTTTTCT
1 TTCTTTTGAGTGCTGCATTTGTCT
*
930979 TTCTTTTGAGTGCTTCACTTTGT-T
1 TTCTTTTGAGTGCTGCA-TTTGTCT
931003 TTCT
1 TTCT
931007 GATTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.08, C:0.15, G:0.17, T:0.60
Consensus pattern (24 bp):
TTCTTTTGAGTGCTGCATTTGTCT
Found at i:933997 original size:19 final size:20
Alignment explanation
Indices: 933973--934015 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
933963 AGCATTTATC
*
933973 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
933992 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
934012 TTCA
1 TTCA
934016 AAGGGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:934785 original size:19 final size:20
Alignment explanation
Indices: 934757--934796 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
934747 GAATAATAAT
934757 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
934777 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
934796 A
1 A
934797 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:935260 original size:18 final size:18
Alignment explanation
Indices: 935226--935260 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
935216 CATGATTTTT
*
935226 TTTAATGAAAATGCATGA
1 TTTAATGAAAATACATGA
*
935244 TTTAATGAAGATACATG
1 TTTAATGAAAATACATG
935261 CTCTTGGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (18 bp):
TTTAATGAAAATACATGA
Found at i:935577 original size:24 final size:24
Alignment explanation
Indices: 935550--935637 Score: 86
Period size: 24 Copynumber: 3.4 Consensus size: 24
935540 TCAAGGTAAG
935550 CTAGGTGAGTGTCTTGGTAGCTAA
1 CTAGGTGAGTGTCTTGGTAGCTAA
* * *
935574 CTAGGTGAGTTATAGCTTGATGAACTCAA
1 CTAGGTGAG-TGT--CTTGGT-AGCT-AA
*
935603 GATAGGTGAGTGTCTTGGTAGCTAA
1 -CTAGGTGAGTGTCTTGGTAGCTAA
935628 CTAGGTGAGT
1 CTAGGTGAGT
935638 TATAGCTTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
24 18 0.36
25 4 0.08
26 3 0.06
27 10 0.20
28 3 0.06
29 4 0.08
30 8 0.16
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.32
Consensus pattern (24 bp):
CTAGGTGAGTGTCTTGGTAGCTAA
Found at i:935609 original size:30 final size:29
Alignment explanation
Indices: 935575--935656 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 29
935565 GGTAGCTAAC
935575 TAGGTGAGTTATAGCTTGATGAACTCAAGA
1 TAGGTGAGTTATAGCTTGATGAACTCAA-A
* * * *
935605 TAGGTGAG-TGT--CTTGGT-AGCT-AAC
1 TAGGTGAGTTATAGCTTGATGAACTCAAA
935629 TAGGTGAGTTATAGCTTGATGAACTCAA
1 TAGGTGAGTTATAGCTTGATGAACTCAA
935657 TCTAGTTAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
24 8 0.20
25 4 0.10
26 3 0.08
27 10 0.25
28 3 0.08
29 4 0.10
30 8 0.20
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (29 bp):
TAGGTGAGTTATAGCTTGATGAACTCAAA
Found at i:935611 original size:54 final size:54
Alignment explanation
Indices: 935551--935656 Score: 212
Period size: 54 Copynumber: 2.0 Consensus size: 54
935541 CAAGGTAAGC
935551 TAGGTGAGTGTCTTGGTAGCTAACTAGGTGAGTTATAGCTTGATGAACTCAAGA
1 TAGGTGAGTGTCTTGGTAGCTAACTAGGTGAGTTATAGCTTGATGAACTCAAGA
935605 TAGGTGAGTGTCTTGGTAGCTAACTAGGTGAGTTATAGCTTGATGAACTCAA
1 TAGGTGAGTGTCTTGGTAGCTAACTAGGTGAGTTATAGCTTGATGAACTCAA
935657 TCTAGTTAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.32
Consensus pattern (54 bp):
TAGGTGAGTGTCTTGGTAGCTAACTAGGTGAGTTATAGCTTGATGAACTCAAGA
Found at i:938950 original size:22 final size:21
Alignment explanation
Indices: 938925--938965 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
938915 ACTGCGGAAA
*
938925 TGATGGTCTTGATGTATGAAGT
1 TGATAGTCTTGATGT-TGAAGT
*
938947 TGATAGTGTTGATGTTGAA
1 TGATAGTCTTGATGTTGAA
938966 ATGGAGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.02, G:0.32, T:0.41
Consensus pattern (21 bp):
TGATAGTCTTGATGTTGAAGT
Found at i:939341 original size:18 final size:18
Alignment explanation
Indices: 939307--939341 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
939297 TGTTTCGGCT
*
939307 AGATACATGACTTTAGGA
1 AGATACATGACTATAGGA
*
939325 AGATACATGTCTATAGG
1 AGATACATGACTATAGG
939342 CTTGATGTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (18 bp):
AGATACATGACTATAGGA
Found at i:952586 original size:24 final size:23
Alignment explanation
Indices: 952543--952588 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
952533 AAAGTGCTAC
*
952543 AACAAAAAAAAGCAACAAGAAAG
1 AACAAAAAAAAGCAAAAAGAAAG
952566 AACAAAATAAAAG-AGAAAAGAAA
1 AACAAAA-AAAAGCA-AAAAGAAA
952589 AAGTCTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.76, C:0.09, G:0.13, T:0.02
Consensus pattern (23 bp):
AACAAAAAAAAGCAAAAAGAAAG
Found at i:952639 original size:14 final size:15
Alignment explanation
Indices: 952615--952659 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
952605 ATTTGGAGTG
952615 CAAAAGAAAGAAAAT
1 CAAAAGAAAGAAAAT
*
952630 -AAAAGGAAGAAAAT
1 CAAAAGAAAGAAAAT
952644 CAAAAGCAAAAGAAAA
1 CAAAAG--AAAGAAAA
952660 GTGAAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.52
15 5 0.20
17 7 0.28
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (15 bp):
CAAAAGAAAGAAAAT
Found at i:952814 original size:16 final size:16
Alignment explanation
Indices: 952793--952834 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
952783 GTAAGTTATC
952793 TTCATTTTTTTA-TCAT
1 TTCATTTTTTTATTC-T
*
952809 TTCATTTCTTTATTCT
1 TTCATTTTTTTATTCT
952825 TTCATCTTTT
1 TTCAT-TTTT
952835 CTTTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCATTTTTTTATTCT
Found at i:955739 original size:19 final size:20
Alignment explanation
Indices: 955715--955760 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
955705 CGGCCAAGAG
**
955715 CATGTATCTTCAT-TTAAAT
1 CATGTATCTTCATCAAAAAT
*
955734 CATGTATTTTCATCAAAAAT
1 CATGTATCTTCATCAAAAAT
955754 CATGTAT
1 CATGTAT
955761 TTCCAAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (20 bp):
CATGTATCTTCATCAAAAAT
Found at i:959693 original size:13 final size:13
Alignment explanation
Indices: 959671--959700 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
959661 ACTAAACACC
959671 TTTC-ACATACCT
1 TTTCAACATACCT
959683 TTTCAACATACCT
1 TTTCAACATACCT
959696 TTTCA
1 TTTCA
959701 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:962453 original size:5 final size:5
Alignment explanation
Indices: 962439--962468 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
962429 GTGCTTCAAC
962439 TTTC- TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
962469 CTTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:967928 original size:23 final size:25
Alignment explanation
Indices: 967887--967940 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
967877 TTCTTTTCTC
*
967887 TTTCTTCCTTTTTGGGTGCTTTCAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
* *
967912 TTTCTT-C-TTTTGAGTGCTTTGAT
1 TTTCTTCCTTTTTGAGTGCTTTCAA
967935 TTTCTT
1 TTTCTT
967941 TGCTGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 19 0.73
24 1 0.04
25 6 0.23
ACGTcount: A:0.07, C:0.17, G:0.15, T:0.61
Consensus pattern (25 bp):
TTTCTTCCTTTTTGAGTGCTTTCAA
Found at i:971939 original size:20 final size:20
Alignment explanation
Indices: 971914--971962 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
971904 CATTCAATGT
971914 TATTAGTTCATAGGCATT-CA
1 TATTAGTTC-TAGGCATTACA
* *
971934 TATTAGCTTCTAGGCTTTATA
1 TATTAG-TTCTAGGCATTACA
971955 TATTAGTT
1 TATTAGTT
971963 TACACATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (20 bp):
TATTAGTTCTAGGCATTACA
Found at i:972652 original size:15 final size:15
Alignment explanation
Indices: 972641--972670 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
972631 ACTCAAAAAG
972641 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
972656 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
972670 A
1 A
972671 GTTTAAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:980210 original size:22 final size:23
Alignment explanation
Indices: 980185--980227 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
980175 TCCACAAGAT
980185 ATGT-CCT-TTGACATTTCAAAGG
1 ATGTACCTCTTGACA-TTCAAAGG
*
980207 ATGTACCTCTTGATATTCAAA
1 ATGTACCTCTTGACATTCAAA
980228 ATAATGAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 9 0.50
24 5 0.28
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (23 bp):
ATGTACCTCTTGACATTCAAAGG
Found at i:986214 original size:13 final size:11
Alignment explanation
Indices: 986173--986257 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
986163 ACAATCTGTC
986173 CATCACCATTAT
1 CATCACCA-TAT
*
986185 CA-CGCCTATAT
1 CATCACC-ATAT
986196 CATCACCATAGT
1 CATCACCATA-T
986208 CCATCACCATTAT
1 -CATCACCA-TAT
*
986221 CA-CGCCTATAT
1 CATCACC-ATAT
986232 CATCACCATATT
1 CATCACCATA-T
986244 CCATCACCATAT
1 -CATCACCATAT
986256 CA
1 CA
986258 CGCCAATAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:986217 original size:36 final size:36
Alignment explanation
Indices: 986170--986271 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
986160 GATACAATCT
986170 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
986206 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
986242 TTCCATCACCA-TATCACGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
986272 TCCTTCCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 17 0.27
36 46 0.73
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.26
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:986286 original size:33 final size:34
Alignment explanation
Indices: 986171--986287 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 34
986161 ATACAATCTG
* *
986171 TCCATCACCATTATCACGCCTATATCATCACCAT
1 TCCATCACCATTATCACGCCAATAACATCACCAT
* *
986205 AGTCCATCACCATTATCACGCCTATATCATCACCATAT
1 --TCCATCACCATTATCACGCCAATAACATCACC--AT
986243 TCCATCACCA-TATCACGCCAATAACATCATCC-T
1 TCCATCACCATTATCACGCCAATAACATCA-CCAT
*
986276 TCCATTACCATT
1 TCCATCACCATT
986288 TCATCTCCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
33 10 0.14
34 1 0.01
35 17 0.23
36 44 0.59
38 2 0.03
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (34 bp):
TCCATCACCATTATCACGCCAATAACATCACCAT
Found at i:986305 original size:33 final size:33
Alignment explanation
Indices: 986171--986310 Score: 106
Period size: 36 Copynumber: 4.1 Consensus size: 33
986161 ATACAATCTG
* *
986171 TCCATCACCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC-T
* *
986205 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACGCCAATAACATCATCC---T
986243 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
986276 TCCATTACCATTTCATCTCCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
986309 TC
1 TC
986311 ATTCATCAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.07
35 17 0.18
36 44 0.47
38 2 0.02
ACGTcount: A:0.30, C:0.36, G:0.03, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:990567 original size:13 final size:11
Alignment explanation
Indices: 990526--990609 Score: 64
Period size: 11 Copynumber: 7.1 Consensus size: 11
990516 ACAATATGTC
990526 CATCACCATTAT
1 CATCACCA-TAT
*
990538 CA-CGCCTATAT
1 CATCACC-ATAT
990549 CATCACCATAGT
1 CATCACCATA-T
990561 CCATCACCATTAT
1 -CATCACCA-TAT
*
990574 CA-CGCCTATAT
1 CATCACC-ATAT
990585 CATCACCATATT
1 CATCACCATA-T
990597 CCATCACCATAT
1 -CATCACCATAT
990609 C
1 C
990610 TCGCCAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 23 0.39
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:990570 original size:36 final size:36
Alignment explanation
Indices: 990523--990624 Score: 161
Period size: 36 Copynumber: 2.9 Consensus size: 36
990513 GATACAATAT
990523 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
990559 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * * *
990595 TTCCATCACCA-TATCTCGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
990625 TCCTTCCATT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 16 0.26
36 46 0.74
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.27
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:990660 original size:33 final size:33
Alignment explanation
Indices: 990524--990639 Score: 83
Period size: 36 Copynumber: 3.3 Consensus size: 33
990514 ATACAATATG
* * *
990524 TCCATCACCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCTCGCCAATAACATCATCC-T
* * *
990558 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCTCGCCAATAACATCATCC---T
990596 TCCATCACCATATCTCGCCAATAACATCATCCT
1 TCCATCACCATATCTCGCCAATAACATCATCCT
*
990629 TCCATTACCAT
1 TCCATCACCAT
990640 TTCATCTCCA
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
33 11 0.15
35 16 0.22
36 44 0.60
38 2 0.03
ACGTcount: A:0.30, C:0.37, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCTCGCCAATAACATCATCCT
Found at i:991802 original size:18 final size:18
Alignment explanation
Indices: 991772--991813 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
991762 AGTGCTTCAA
991772 CTTTCTTTCTTTTCTTTT
1 CTTTCTTTCTTTTCTTTT
991790 CTTTGCTTT-TTTTCTTTT
1 CTTT-CTTTCTTTTCTTTT
991808 -TTTCTT
1 CTTTCTT
991814 AAGTGCTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 3 0.13
18 13 0.57
19 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (18 bp):
CTTTCTTTCTTTTCTTTT
Found at i:991808 original size:8 final size:8
Alignment explanation
Indices: 991773--991813 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 8
991763 GTGCTTCAAC
991773 TTTCTTTCT
1 TTTCTTT-T
991782 TTTCTTTT
1 TTTCTTTT
991790 CTTTGCTTTT
1 -TTT-CTTTT
991800 TTTCTTTT
1 TTTCTTTT
991808 TTTCTT
1 TTTCTT
991814 AAGTGCTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.40
9 13 0.43
10 5 0.17
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTCTTTT
Found at i:993753 original size:36 final size:35
Alignment explanation
Indices: 993674--993753 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
993664 AAATGGAATT
**
993674 TGGTGATGATATAGGCGTGATATGATGATGGACTA
1 TGGTGATGATATAGGCGTGATATGATGATGGAAGA
* *
993709 TGGGGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGAT-ATGATGATGGAAGA
993745 TGGTGATGA
1 TGGTGATGA
993754 ACATATTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 20 0.51
36 19 0.49
ACGTcount: A:0.29, C:0.04, G:0.39, T:0.29
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGATGATGGAAGA
Found at i:996583 original size:9 final size:9
Alignment explanation
Indices: 996569--996599 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
996559 AGGCATCTCA
996569 TGGACTATT
1 TGGACTATT
996578 TGGACTATT
1 TGGACTATT
*
996587 TGGAATATT
1 TGGACTATT
996596 TGGA
1 TGGA
996600 GCTGAGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (9 bp):
TGGACTATT
Found at i:998968 original size:24 final size:21
Alignment explanation
Indices: 998934--998976 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
998924 CCCACAAGAC
*
998934 ATGTCCTTTGACATTTCAAATG
1 ATGTCCTTTGA-AATTCAAATG
998956 ATGTACCTATTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
998977 AGAATGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAATG
Found at i:998983 original size:24 final size:23
Alignment explanation
Indices: 998948--998993 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
998938 CCTTTGACAT
* *
998948 TTCAAATGATGTACCTATTGAAA
1 TTCAAAAGATGTACCAATTGAAA
*
998971 TTCAAAAGAATGTGCCAATTGAA
1 TTCAAAAG-ATGTACCAATTGAA
998994 GTCCCAAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (23 bp):
TTCAAAAGATGTACCAATTGAAA
Found at i:1000089 original size:274 final size:274
Alignment explanation
Indices: 999600--1000139 Score: 893
Period size: 274 Copynumber: 2.0 Consensus size: 274
999590 AAGGGGAGGA
* * *
999600 TGATACGATCCAAACTAGCTCCAACTTTCTCCATGACTTGAACACACGATGGACGTTCTTCATTG
1 TGATACGATCCAAACAAGCTCCAACTTTCTCCATGACTTGAACACACCATGGACGTTCTTCATAG
* * * *
999665 TTGCTTCTAAGGGAGTTCTTTCTTACCCTATCTTATATTATATCATTTATAAATTCTATTCTATC
66 CTGCTTCTAAGGGAGTTCTTTATTACCCTATCTTATACTATATCATTTATAAATTATATTCTATC
* * *
999730 ATAACCATGAATTCACATGTTAGTATAAATTATCATATTATTATTTCCATCCTATGCTAATTTGA
131 ATAACCAAGAATTCACATGTTAGTATAAATTATCATATTATTATTTCCATCATAAGCTAATTTGA
999795 TCATGTTTTCCATATTATTCAAATATATGCTATGATTACATATCATTTCTTAGGATATTATTATT
196 TCATGTTTTCCATATTATTCAAATATATGCTATGATTACATATCATTTCTTAGGATATTATTATT
999860 ACATGTGATGTGAT
261 ACATGTGATGTGAT
* * * *
999874 TGATACGATCCAAACAAGTTCCAACTTTTTCCATGACTTGAACACGCCATGGATGTTCTTCATAG
1 TGATACGATCCAAACAAGCTCCAACTTTCTCCATGACTTGAACACACCATGGACGTTCTTCATAG
* *
999939 CTGTTTCTAAGGGAGTTCTTTATTACCCTATCTTATACTATATCATTTATACATTATATTCTATC
66 CTGCTTCTAAGGGAGTTCTTTATTACCCTATCTTATACTATATCATTTATAAATTATATTCTATC
* * *
1000004 ATAAGCAAGCATTCACATGTTAGTATAAATTATCATATTATTATTTCCATCATAAGCTTATTTGA
131 ATAACCAAGAATTCACATGTTAGTATAAATTATCATATTATTATTTCCATCATAAGCTAATTTGA
1000069 TCATGTGTTT-CATATTATTCAAATATATGCTATGATTACATATCATTTCTTAGGATATTATTAT
196 TCATGT-TTTCCATATTATTCAAATATATGCTATGATTACATATCATTTCTTAGGATATTATTAT
1000133 TACATGT
260 TACATGT
1000140 TTTCATTCAT
Statistics
Matches: 246, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
274 243 0.99
275 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (274 bp):
TGATACGATCCAAACAAGCTCCAACTTTCTCCATGACTTGAACACACCATGGACGTTCTTCATAG
CTGCTTCTAAGGGAGTTCTTTATTACCCTATCTTATACTATATCATTTATAAATTATATTCTATC
ATAACCAAGAATTCACATGTTAGTATAAATTATCATATTATTATTTCCATCATAAGCTAATTTGA
TCATGTTTTCCATATTATTCAAATATATGCTATGATTACATATCATTTCTTAGGATATTATTATT
ACATGTGATGTGAT
Found at i:1007943 original size:22 final size:21
Alignment explanation
Indices: 1007907--1007947 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1007897 CATCTCCATT
1007907 TCATCATCAACACCATCAACA
1 TCATCATCAACACCATCAACA
*
1007928 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
1007948 TTCCGCATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:1011456 original size:16 final size:16
Alignment explanation
Indices: 1011437--1011469 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1011427 TAGTTAACTC
*
1011437 ATTTGTATTCTAACAT
1 ATTTGCATTCTAACAT
1011453 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
1011469 A
1 A
1011470 GGTGGCAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:1014856 original size:16 final size:16
Alignment explanation
Indices: 1014832--1014864 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1014822 TAGTTAGCTC
*
1014832 ATTTTCATTCTAACAT
1 ATTTGCATTCTAACAT
1014848 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
1014864 A
1 A
1014865 GGTGGCAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:1015264 original size:458 final size:460
Alignment explanation
Indices: 1014581--1015493 Score: 1300
Period size: 458 Copynumber: 2.0 Consensus size: 460
1014571 GAAGGGGGGA
* * *
1014581 TGATGTGATCCTACAGACCATCACGTTCAACAAAAACATGCTCACAACTTTGAAGTTCTTCCAAT
1 TGATGTGATCCTACAGACCACCAAGTTCAACAAAAACATGCTCACAACTTTGAAGTTCTTCCAAG
* * * **
1014646 ATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTACTTATTTATGCATTATATGTCATG
66 ATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCACA
* *
1014711 TGAATATGTTTATATTATTCTTAATTATGCTTGAATGTTATATGCTTTCATTTATATGTATGACT
131 TGAATATGTTTATATTATTCTTAATTATGCTTGAATATTATATGCTTTCATTTATATGTATGAAT
* * * * * * * * *
1014776 TATTAATTCACATCTTTATATAACTCATTCA-ATGC-ATATGCATTCATAGTTAGCT-CATTTTC
196 TATGAATT-ACATCATGATATAACTCATTCACAT-CTATAT-AACTCAT--TCA-ATGCATATGC
*
1014838 ATTC-TA-A-CAT-ATTTGCATTC-TAACATAGGTGGCAGAATGCACTCATATTTATAATAGCTC
255 ATTCATATAGC-TCATTTGCATTCATAACATAGGTGGCAGAATGCACTCATAATTATAATAGCTC
1014898 AATTCCTATCAAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGACTAAAG
319 AATTCCTATCAAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGACTAAAG
*
1014963 GCAATTGAAGAGTTTGATGGACAGTTCACGTCAGTCAGATTGATCGTCA-TTTTTGAACATGTTC
384 GCAATTGAAGAGTTGGATGGACAGTTCACGTCAGTCAGATTGATCGTCATTTTTTGAACATGTTC
1015027 CAAGAATCTTTG
449 CAAGAATCTTTG
1015039 TGATGTGATCCTACCA-ACCACCAAGTTCAA-ACAAAACATGCTCACAACTTTGAAGTTCTTCCA
1 TGATGTGATCCTA-CAGACCACCAAGTTCAACA-AAAACATGCTCACAACTTTGAAGTTCTTCCA
1015102 AGATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCA
64 AGATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCA
* * *
1015167 CATGAATATGTTTATCTTATTCTTAATTTTTTCTTGAATATTATATG-TTGTCATTTATATGTAT
129 CATGAATATGTTTATATTATTCTTAA-TTATGCTTGAATATTATATGCTT-TCATTTATATGTAT
*
1015231 -AATATATGATATT-CATGCATGACT-T-ATTCATTCACATCTTTATATAACTCATTCAATGCAT
192 GAAT-TATGA-ATTACAT-CATGA-TATAACTCATTCACATC--TATATAACTCATTCAATGCAT
*
1015292 ATGCATTCATAGTTAGCTCATTTGCATTCATAACATAGGTGGCAGAATGCATTCATAATTATAAT
251 ATGCATTCATA--TAGCTCATTTGCATTCATAACATAGGTGGCAGAATGCACTCATAATTATAAT
*
1015357 AGCTCAATTCCTATCTAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGAC
314 AGCTCAATTCCTATCAAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGAC
1015422 TAAAGGCAATTGAAGAGTTGGATGGACAGTTCACGTCAGTCAGATTGATCGTCATTTTTTGAACA
379 TAAAGGCAATTGAAGAGTTGGATGGACAGTTCACGTCAGTCAGATTGATCGTCATTTTTTGAACA
1015487 TGTTCCA
444 TGTTCCA
1015494 TGCATATTTG
Statistics
Matches: 407, Mismatches: 27, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
457 2 0.00
458 167 0.41
459 45 0.11
460 9 0.02
461 4 0.01
462 2 0.00
463 11 0.03
464 150 0.37
465 17 0.04
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (460 bp):
TGATGTGATCCTACAGACCACCAAGTTCAACAAAAACATGCTCACAACTTTGAAGTTCTTCCAAG
ATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCACA
TGAATATGTTTATATTATTCTTAATTATGCTTGAATATTATATGCTTTCATTTATATGTATGAAT
TATGAATTACATCATGATATAACTCATTCACATCTATATAACTCATTCAATGCATATGCATTCAT
ATAGCTCATTTGCATTCATAACATAGGTGGCAGAATGCACTCATAATTATAATAGCTCAATTCCT
ATCAAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGACTAAAGGCAATTG
AAGAGTTGGATGGACAGTTCACGTCAGTCAGATTGATCGTCATTTTTTGAACATGTTCCAAGAAT
CTTTG
Found at i:1024335 original size:19 final size:20
Alignment explanation
Indices: 1024311--1024350 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1024301 TATCCTTTCT
1024311 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
1024330 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
1024350 T
1 T
1024351 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:1025886 original size:14 final size:15
Alignment explanation
Indices: 1025855--1025887 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1025845 TATTCTTAAT
1025855 TATGCTTGAATGTTA
1 TATGCTTGAATGTTA
*
1025870 TATGCTTTAAT-TTA
1 TATGCTTGAATGTTA
1025884 TATG
1 TATG
1025888 TATGACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (15 bp):
TATGCTTGAATGTTA
Found at i:1025972 original size:16 final size:16
Alignment explanation
Indices: 1025951--1025983 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1025941 TAGTTAGCTC
1025951 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
1025967 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
1025983 A
1 A
1025984 GGTGGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:1026589 original size:464 final size:448
Alignment explanation
Indices: 1025700--1026621 Score: 1345
Period size: 464 Copynumber: 2.0 Consensus size: 448
1025690 GAAGGGGGGA
* * *
1025700 TGATGTGATCCTACAGACCATCACGTTCAACAAAAACATGCTCACAACTTTGAAGTTCTTCCAAT
1 TGATGTGATCCTACAGACCACCAAGTTCAACAAAAACATGCTCACAACTTTGAAGTTCTTCCAAG
* * * *
1025765 ATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTACTTATTTATGCATTATATGTCATG
66 ATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCACG
*
1025830 TGAATATGTTTATATTATTCTTAATTATGCTTGAATGTTATATGCTTTAATTTATATGTATGACT
131 TGAATATGTTTATATTATTCTTAATTATGCTTGAATATTATATGCTTTAATTTATATGTATGACT
1025895 TATTAATTCACATCTTTATATAACTCATTCAATGCATATGCATTCATAGTTAGCTCATTTGCATT
196 TATTAATTCACATCTTTATATAACTCATTCAATGCATATGCATTCATAGTTAGCTCATTTG----
*
1025960 CTAACATATTTGCATTCTAACATAGGTGGCAGAATGCACTCATATTTATAATAGCTCAATTCCTA
257 ---ACA-ATTTGCA-T-TAACATAGGTGGCAGAATGCACTCATAATTATAATAGCTCAATTCCTA
1026025 TCTAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGACCAAAGGCAATTGA
316 TCTAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGACCAAAGGCAATTGA
* *
1026090 AGAGTTTGATGGACAGTTCACGTCAGTCAGATTGATCGTCATTTTTGAACATGTTCCAAGAATAT
381 AGAGTTGGATGGACAGTTCACATCAGTCAGATTGATCGTCATTTTTGAACATGTTCCAAGAATAT
1026155 TTG
446 TTG
1026158 TGATGTGATCCTACCA-ACCACCAAGTTCAA-ACAAAACATGCTCACAACTTTGAAGTTCTTCCA
1 TGATGTGATCCTA-CAGACCACCAAGTTCAACA-AAAACATGCTCACAACTTTGAAGTTCTTCCA
1026221 AGATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCA
64 AGATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCA
* *
1026286 CGTGAATATGTTTATCTTATTCTTAATTTTTGCTTGAATATTATATGTTGTCATTTATATGTATA
129 CGTGAATATGTTTATATTATTCTTAA-TTATGCTTGAATATTATA---TG-C-TTTA-A--T-T-
*
1026351 ATATATGATATTCATGCACGACTTATTCATTCACATCTTTATATAACTCATTCAATGCATATGCA
183 -TATATG----T-AT----GACTTATTAATTCACATCTTTATATAACTCATTCAATGCATATGCA
*
1026416 TTCATAGTTAGCTCATTTG-C-A-TT-CA-TAACATAGGTGGCAGAATGCATTCATAATTATAAT
238 TTCATAGTTAGCTCATTTGACAATTTGCATTAACATAGGTGGCAGAATGCACTCATAATTATAAT
1026476 AGCTCAATTCCTATCTAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGAC
303 AGCTCAATTCCTATCTAATTATTTGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGAC
*
1026541 TAAAGGCAATTGAAGAGTTGGATGGACAGTTCACATCAGTCAGATTGATCGTCATTTTTGAACAT
368 CAAAGGCAATTGAAGAGTTGGATGGACAGTTCACATCAGTCAGATTGATCGTCATTTTTGAACAT
*
1026606 GTTCCAAGCATATTTG
433 GTTCCAAGAATATTTG
1026622 GGTGCTAAAG
Statistics
Matches: 424, Mismatches: 17, Indels: 40
0.88 0.04 0.08
Matches are distributed among these distances:
457 1 0.00
458 141 0.33
459 18 0.04
462 2 0.00
463 1 0.00
464 179 0.42
465 1 0.00
467 3 0.01
468 3 0.01
469 1 0.00
470 6 0.01
471 1 0.00
474 1 0.00
475 2 0.00
479 64 0.15
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (448 bp):
TGATGTGATCCTACAGACCACCAAGTTCAACAAAAACATGCTCACAACTTTGAAGTTCTTCCAAG
ATGATTCTAAGGGAGTCTTGCCTTATTTTATTATTTATTTAATCATTTATGCATTACATGTCACG
TGAATATGTTTATATTATTCTTAATTATGCTTGAATATTATATGCTTTAATTTATATGTATGACT
TATTAATTCACATCTTTATATAACTCATTCAATGCATATGCATTCATAGTTAGCTCATTTGACAA
TTTGCATTAACATAGGTGGCAGAATGCACTCATAATTATAATAGCTCAATTCCTATCTAATTATT
TGTTTACATACTTTGTCTAGGTACATTGGATGCTAAGTAGACCAAAGGCAATTGAAGAGTTGGAT
GGACAGTTCACATCAGTCAGATTGATCGTCATTTTTGAACATGTTCCAAGAATATTTG
Found at i:1034648 original size:24 final size:21
Alignment explanation
Indices: 1034614--1034656 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1034604 TCCACAAGAT
*
1034614 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
1034636 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1034657 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:1036187 original size:40 final size:40
Alignment explanation
Indices: 1036132--1036218 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
1036122 TTAGCTAGTT
*
1036132 GAGCTGAGTTGCCAAAAGTGATGTCAAAGGTAGGTGAATG
1 GAGCTGAGTTGCCAAAAGTGATGTCAAAGGTAGCTGAATG
1036172 GAGCTGAGTTGCCAAAAGTGATGTCAAAGGTAGCTGAATG
1 GAGCTGAGTTGCCAAAAGTGATGTCAAAGGTAGCTGAATG
*
1036212 TAGCTGA
1 GAGCTGA
1036219 ATATGCTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.32, C:0.11, G:0.33, T:0.23
Consensus pattern (40 bp):
GAGCTGAGTTGCCAAAAGTGATGTCAAAGGTAGCTGAATG
Found at i:1038420 original size:24 final size:23
Alignment explanation
Indices: 1038364--1038414 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1038354 TCCAGGAAAT
1038364 AAAATCAAAGCACTCAAAAGAAG
1 AAAATCAAAGCACTCAAAAGAAG
* *
1038387 AAATTGAAAGCACTCGAAAAGAAG
1 AAAATCAAAGCACTC-AAAAGAAG
1038411 AAAA
1 AAAA
1038415 ATAAAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.61, C:0.14, G:0.16, T:0.10
Consensus pattern (23 bp):
AAAATCAAAGCACTCAAAAGAAG
Found at i:1042987 original size:502 final size:501
Alignment explanation
Indices: 1042004--1042996 Score: 1722
Period size: 502 Copynumber: 2.0 Consensus size: 501
1041994 CTATGCCCCT
* * * *
1042004 CCATTTCCTATAAATAGGAAAGCATTCATCATTTGTAATCAACCTTTTATTTTAATTGCAGTGAG
1 CCATTTCCTATAAATAGGAAAGCAATCATCATTTGTAACCAACCTTTTATTTTAATAGAAGTGAG
* *
1042069 ATTTTTCTCATTCTTAAGTCCTGGTGACTTTTTATTGACATATCAAGTATTTTATACTTGTGGCG
66 ATTATTCTCATTCTTAAGTCCTGGTGACTTTTTATCGACATATCAAGTATTTTATACTTGTGGCG
1042134 TCAACCCTCTTCTTTCATCTTGATACTTCAAGTTCCTAGTTCATATAACTAGTGGGCCAAAGTAC
131 TCAACCCTCTTCTTTCATCTTGATACTTCAAGTTCCTAGTTCATATAACTAGTGGGCCAAAGTAC
*
1042199 TTATCACCACCCCTTGAAGAAACAATATAAAGATTGGGTCTTTGCTCTCTATAGCATTGGTTCTT
196 TTAACACCACCCCTTGAAGAAACAATATAAAGATTGGGTCTTTGCTCTCTATAGCATTGGTTCTT
*
1042264 CTTTGAGCGTTCTTCAAGATACTATCCTCACAACCATCCTTTTGTTTCATTGCCATAACCATAAC
261 CTTTGAGCGTTCTTCAAGATACTATCCTCACAACCATCCTTTTGTTTCATCGCCATAACCATAAC
* * * *
1042329 CATTTCAATCATCTTCCGCTTCCATCTCTCATTTATTAAATATCCTACCTATTAAACCATACGTT
326 AATTTCAATCATCTTCCACTTCCATCTCTCATTTATTAAATAGCCTACCTATTAAACCATACATT
* *
1042394 TACCACCCTTATCCATTATGTTTTGAGCCATTCACTTGTGCAGGTTTTTTTGCTTCCTTCCTAGA
391 TACCACCCTTATCCATTATGTTTTGAGCCATTAACTTGTGCAGGTTGTTTTGCTTCCTTCCTAGA
1042459 TCCACAATCAAACGAGAAGGTAGAATTACCTTACATAAATGTCTCC
456 TCCACAATCAAACGAGAAGGTAGAATTACCTTACATAAATGTCTCC
1042505 CCATTTCCTATAAATAGGAAAGCAATCATCATTTGTAACCAGACCTTTTATTTTAATAGAAGTGA
1 CCATTTCCTATAAATAGGAAAGCAATCATCATTTGTAACCA-ACCTTTTATTTTAATAGAAGTGA
* * * *
1042570 GATTATTCTCTTTCTTAAGTCGTGGTGACTTTTTATCGACTTATCAAGTATTTTATACTTGTGGT
65 GATTATTCTCATTCTTAAGTCCTGGTGACTTTTTATCGACATATCAAGTATTTTATACTTGTGGC
** *
1042635 GTCAACCCTCTTCTTTCATCTTGATACTTCTGGTTCCTAGTTCATATAACTAGTGGGTCAAAGTA
130 GTCAACCCTCTTCTTTCATCTTGATACTTCAAGTTCCTAGTTCATATAACTAGTGGGCCAAAGTA
*
1042700 CTTAACACCACCCCTTGAAGAAACAATATAAAGATTGGGTCTTTTCTCTCTATAGCATTGGTTCT
195 CTTAACACCACCCCTTGAAGAAACAATATAAAGATTGGGTCTTTGCTCTCTATAGCATTGGTTCT
1042765 TCTTTGAGCGTTCTTCAAGATACTATCCTCACAACCATCCTTTTTGTTTCATCGCCATAACCATA
260 TCTTTGAGCGTTCTTCAAGATACTATCCTCACAACCATCC-TTTTGTTTCATCGCCATAACCATA
1042830 ACAATTTCAATCATCTTCCACTTCCATCTCTCATTTATTAAATAGCCTACCTATTAAACCATACA
324 ACAATTTCAATCATCTTCCACTTCCATCTCTCATTTATTAAATAGCCTACCTATTAAACCATACA
*
1042895 TTTACCACCCTTA-CCAATTCA-G-TTTGAGCCATTAACTTGTGCGGGTTGTTTTGCTTCCTTCC
389 TTTACCACCCTTATCC-ATT-ATGTTTTGAGCCATTAACTTGTGCAGGTTGTTTTGCTTCCTTCC
1042957 TAGATCCACAATCAAACGAGAAGGTAGAATTACCTTACAT
452 TAGATCCACAATCAAACGAGAAGGTAGAATTACCTTACAT
1042997 CAAGTTCCCT
Statistics
Matches: 465, Mismatches: 23, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
501 39 0.08
502 324 0.70
503 101 0.22
504 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (501 bp):
CCATTTCCTATAAATAGGAAAGCAATCATCATTTGTAACCAACCTTTTATTTTAATAGAAGTGAG
ATTATTCTCATTCTTAAGTCCTGGTGACTTTTTATCGACATATCAAGTATTTTATACTTGTGGCG
TCAACCCTCTTCTTTCATCTTGATACTTCAAGTTCCTAGTTCATATAACTAGTGGGCCAAAGTAC
TTAACACCACCCCTTGAAGAAACAATATAAAGATTGGGTCTTTGCTCTCTATAGCATTGGTTCTT
CTTTGAGCGTTCTTCAAGATACTATCCTCACAACCATCCTTTTGTTTCATCGCCATAACCATAAC
AATTTCAATCATCTTCCACTTCCATCTCTCATTTATTAAATAGCCTACCTATTAAACCATACATT
TACCACCCTTATCCATTATGTTTTGAGCCATTAACTTGTGCAGGTTGTTTTGCTTCCTTCCTAGA
TCCACAATCAAACGAGAAGGTAGAATTACCTTACATAAATGTCTCC
Found at i:1046135 original size:13 final size:12
Alignment explanation
Indices: 1046119--1046166 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
1046109 CTTTTTGAAC
1046119 TTCTCTTTTTCTT
1 TTCT-TTTTTCTT
1046132 TTCTTTTATTCTT
1 TTCTTTT-TTCTT
*
1046145 TTCTGATTTTTCTC
1 TTCT--TTTTTCTT
1046159 TTCTTTTT
1 TTCTTTTT
1046167 GCACTCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 7 0.23
13 13 0.42
14 8 0.26
15 3 0.10
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:1046467 original size:19 final size:19
Alignment explanation
Indices: 1046445--1046484 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1046435 TATAAGTAAG
*
1046445 GAAAAGAAATAATAAGAAT
1 GAAAAGAAATAATAAAAAT
*
1046464 GAAATGAAATAATAAAAAT
1 GAAAAGAAATAATAAAAAT
1046483 GA
1 GA
1046485 TTGACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (19 bp):
GAAAAGAAATAATAAAAAT
Found at i:1047070 original size:24 final size:24
Alignment explanation
Indices: 1047042--1047099 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 24
1047032 TTGAACTTCT
*
1047042 TTTTTTTTTACTTTTTTTCTTTTCA
1 TTTTTTTTGA-TTTTTTTCTTTTCA
*
1047067 TTTTTTTTGATTTTTTTCTTTTCT
1 TTTTTTTTGATTTTTTTCTTTTCA
1047091 TTTATTTTT
1 TTT-TTTTT
1047100 TTGCTTTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.83
Consensus pattern (24 bp):
TTTTTTTTGATTTTTTTCTTTTCA
Found at i:1047082 original size:18 final size:18
Alignment explanation
Indices: 1047041--1047106 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
1047031 TTTGAACTTC
*
1047041 TTTTTTT-TTTACTTTT-
1 TTTTTTTCTTTTCTTTTA
1047057 TTTCTTTTCATTTT-TTTTGA
1 TTT-TTTTC-TTTTCTTTT-A
1047077 TTTTTTTCTTTTCTTTTA
1 TTTTTTTCTTTTCTTTTA
1047095 TTTTTTTGCTTT
1 TTTTTTT-CTTT
1047107 GCACGCCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
16 3 0.07
17 4 0.10
18 16 0.38
19 16 0.38
20 3 0.07
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTTCTTTTCTTTTA
Found at i:1047106 original size:19 final size:18
Alignment explanation
Indices: 1047061--1047106 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
1047051 ACTTTTTTTC
1047061 TTTTCATTTTTTTTGATTT
1 TTTTC-TTTTTTTTGATTT
1047080 TTTTCTTTTCTTTT-ATTT
1 TTTTCTTTT-TTTTGATTT
1047098 TTTTGCTTT
1 TTTT-CTTT
1047107 GCACGCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.07, C:0.09, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTTTTTGATTT
Found at i:1047359 original size:20 final size:21
Alignment explanation
Indices: 1047312--1047360 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
1047302 TAAAGTGAAT
*
1047312 AATATATAAGTAATGAAAACA
1 AATAAATAAGTAATGAAAACA
**
1047333 AAT-AATAAG-AATGAAATGA
1 AATAAATAAGTAATGAAAACA
1047352 AATAAATAA
1 AATAAATAA
1047361 AGGATAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.46
20 10 0.42
21 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.22
Consensus pattern (21 bp):
AATAAATAAGTAATGAAAACA
Found at i:1052596 original size:1 final size:1
Alignment explanation
Indices: 1052592--1052665 Score: 67
Period size: 1 Copynumber: 74.0 Consensus size: 1
1052582 TTTGAACTTC
* * * * * * * *
1052592 TTTTTTTCTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTCTTTTGTCTTTTGTCTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1052657 TCTTTTTTT
1 TTTTTTTTT
1052666 CTTTGCACGC
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (1 bp):
T
Found at i:1052602 original size:8 final size:8
Alignment explanation
Indices: 1052589--1052669 Score: 85
Period size: 8 Copynumber: 9.8 Consensus size: 8
1052579 CTTTTTGAAC
1052589 TTCTTTTT
1 TTCTTTTT
1052597 TTCTTTTT
1 TTCTTTTT
*
1052605 TTTTTTTT
1 TTCTTTTT
1052613 TTCTTTTT
1 TTCTTTTT
1052621 TT-TTTTT
1 TTCTTTTT
*
1052628 TTTTTCTTT
1 TTCTT-TTT
1052637 TGTCTTTTGT
1 T-TCTTTT-T
1052647 CTT-TTTCTT
1 -TTCTTT-TT
1052656 TTCTTTTT
1 TTCTTTTT
1052664 TTCTTT
1 TTCTTT
1052670 GCACGCCAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
7 7 0.11
8 36 0.57
9 13 0.21
10 6 0.10
11 1 0.02
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.86
Consensus pattern (8 bp):
TTCTTTTT
Found at i:1052608 original size:13 final size:13
Alignment explanation
Indices: 1052592--1052669 Score: 88
Period size: 13 Copynumber: 6.2 Consensus size: 13
1052582 TTTGAACTTC
*
1052592 TTTTTTTCTTT-T
1 TTTTTTTTTTTCT
1052604 TTTTTTTTTTTCT
1 TTTTTTTTTTTCT
1052617 TTTTTTTTTTT-T
1 TTTTTTTTTTTCT
* *
1052629 TTTTCTTTTGTCT
1 TTTTTTTTTTTCT
* *
1052642 TTTGTCTTTTTCT
1 TTTTTTTTTTTCT
*
1052655 TTTCTTTTTTTCT
1 TTTTTTTTTTTCT
1052668 TT
1 TT
1052670 GCACGCCAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
12 20 0.36
13 35 0.64
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:1052620 original size:25 final size:24
Alignment explanation
Indices: 1052589--1052669 Score: 99
Period size: 24 Copynumber: 3.2 Consensus size: 24
1052579 CTTTTTGAAC
*
1052589 TTCTTTTTTTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTTTTTTTTTT
1052613 TTCTTTTTTTTTTTTTTTTTCTTTT
1 TTCTTTTTTTTTTTTTTTTT-TTTT
* * *
1052638 GTCTTTTGTCTTTTTCTTTTCTTTTT
1 TTCTTTT-T-TTTTTTTTTTTTTTTT
1052664 TTCTTT
1 TTCTTT
1052670 GCACGCCAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 19 0.39
25 10 0.20
26 10 0.20
27 10 0.20
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.86
Consensus pattern (24 bp):
TTCTTTTTTTTTTTTTTTTTTTTT
Found at i:1058532 original size:19 final size:20
Alignment explanation
Indices: 1058508--1058547 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1058498 TATCCTTTTT
1058508 TTATTTCATTTCATTA-TTA
1 TTATTTCATTTCATTACTTA
*
1058527 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
1058547 T
1 T
1058548 ATTATTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:1058540 original size:24 final size:26
Alignment explanation
Indices: 1058511--1058578 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 26
1058501 CCTTTTTTTA
*
1058511 TTTCATTTCATTATTATTAT-TTC-T
1 TTTCATTTCATTATTATTATCTCCTT
* *
1058535 TTTCATTACTTATATTATTATCTCCTT
1 TTTCATTTCAT-TATTATTATCTCCTT
*
1058562 TATTAATTTCATTATTA
1 T-TTCATTTCATTATTA
1058579 ATCATTCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 9 0.26
25 9 0.26
26 2 0.06
27 7 0.21
28 7 0.21
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTCATTTCATTATTATTATCTCCTT
Found at i:1060841 original size:11 final size:13
Alignment explanation
Indices: 1060809--1060838 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1060799 TGGCTAAAGA
1060809 TGAAAAGGTATGT
1 TGAAAAGGTATGT
1060822 TGAAAAGGTATG-
1 TGAAAAGGTATGT
1060834 TGAAA
1 TGAAA
1060839 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:1064124 original size:26 final size:26
Alignment explanation
Indices: 1064109--1064158 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
1064099 AAATAAATTG
*
1064109 AAGCACTCCAAAAGGAGAAGAAAAATC
1 AAGCACTCAAAAAGGA-AAGAAAAATC
1064136 AAGCACTCAAAAAGG-AAGAAAAA
1 AAGCACTCAAAAAGGAAAGAAAAA
1064159 GAAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
27 14 0.64
ACGTcount: A:0.60, C:0.16, G:0.18, T:0.06
Consensus pattern (26 bp):
AAGCACTCAAAAAGGAAAGAAAAATC
Found at i:1064139 original size:27 final size:25
Alignment explanation
Indices: 1064109--1064158 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
1064099 AAATAAATTG
*
1064109 AAGCACTCCAAAAGGAGAAGAAAAATC
1 AAGCACT-CAAAAAG-GAAGAAAAATC
1064136 AAGCACTCAAAAAGGAAGAAAAA
1 AAGCACTCAAAAAGGAAGAAAAA
1064159 GAAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 6 0.27
27 7 0.32
ACGTcount: A:0.60, C:0.16, G:0.18, T:0.06
Consensus pattern (25 bp):
AAGCACTCAAAAAGGAAGAAAAATC
Found at i:1064167 original size:11 final size:10
Alignment explanation
Indices: 1064144--1064177 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1064134 TCAAGCACTC
*
1064144 AAAAAGGAAG
1 AAAAAGAAAG
1064154 AAAAAGAAATG
1 AAAAAGAAA-G
1064165 AAAAAGAAAG
1 AAAAAGAAAG
1064175 AAA
1 AAA
1064178 GTTGAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:1071252 original size:24 final size:21
Alignment explanation
Indices: 1071218--1071260 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1071208 TCCACAAGAC
*
1071218 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
1071240 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1071261 AGAATGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:1073041 original size:19 final size:20
Alignment explanation
Indices: 1073014--1073069 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
1073004 CCATTCGGCC
*
1073014 AAAAGCATGTATTTTCATT-
1 AAAATCATGTATTTTCATTA
*
1073033 AAAATCATGTATTTACATTA
1 AAAATCATGTATTTTCATTA
1073053 AAAATCATGTATTTTCA
1 AAAATCATGTATTTTCA
1073070 AAGAGATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (20 bp):
AAAATCATGTATTTTCATTA
Found at i:1074697 original size:25 final size:25
Alignment explanation
Indices: 1074665--1074746 Score: 146
Period size: 25 Copynumber: 3.3 Consensus size: 25
1074655 TTTTCACCAT
1074665 GAAATTCCTCCTGTAGAATTTTCAA
1 GAAATTCCTCCTGTAGAATTTTCAA
*
1074690 GAAATTCCTCGTGTAGAATTTTCAA
1 GAAATTCCTCCTGTAGAATTTTCAA
*
1074715 GAAATTCCTCCTGTAGAATTCTCAA
1 GAAATTCCTCCTGTAGAATTTTCAA
1074740 GAAATTC
1 GAAATTC
1074747 GACAAGATTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (25 bp):
GAAATTCCTCCTGTAGAATTTTCAA
Found at i:1075302 original size:11 final size:11
Alignment explanation
Indices: 1075278--1075311 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1075268 ACAAGGTAAG
*
1075278 AAAAAAGATTA
1 AAAAAAGATAA
*
1075289 AAACAAGATAA
1 AAAAAAGATAA
1075300 AAAAAAGATAA
1 AAAAAAGATAA
1075311 A
1 A
1075312 GGAATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (11 bp):
AAAAAAGATAA
Found at i:1076686 original size:11 final size:11
Alignment explanation
Indices: 1076670--1076703 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1076660 TATGCGCTGG
*
1076670 AAACAAGGTAA
1 AAACAAGATAA
*
1076681 AAACAAGATTA
1 AAACAAGATAA
1076692 AAACAAGATAA
1 AAACAAGATAA
1076703 A
1 A
1076704 CGAAAGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.09, G:0.12, T:0.12
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:1080393 original size:19 final size:20
Alignment explanation
Indices: 1080365--1080404 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1080355 GGATAATAAT
*
1080365 ATAAGTAATGAAAATAAATA
1 ATAAGTAATGAAAAGAAATA
1080385 ATAAG-AATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
1080404 A
1 A
1080405 AGAAAGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:1081799 original size:30 final size:31
Alignment explanation
Indices: 1081760--1081819 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
1081750 ACATGCTGCC
**
1081760 ATGATATCTAAATGATATGAAAACATAATAA
1 ATGATATCTAAAACATATGAAAACATAATAA
*
1081791 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGAAAACATAATA
1081820 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGAAAACATAATAA
Found at i:1081875 original size:19 final size:19
Alignment explanation
Indices: 1081838--1081875 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1081828 AGTAAAGATG
*
1081838 TGAAAACATATATTATGCA
1 TGAAAACATATAGTATGCA
1081857 TGAAAATCATATAGT-TGCA
1 TGAAAA-CATATAGTATGCA
1081876 AGTGAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (19 bp):
TGAAAACATATAGTATGCA
Found at i:1087346 original size:21 final size:21
Alignment explanation
Indices: 1087310--1087361 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1087300 TTCTTTGTAA
*
1087310 TTTTTTTTTAAATTTTGGCCT
1 TTTTTTTTTAAATTTTGACCT
** *
1087331 TTTTTTTTTACCTTTTTACCT
1 TTTTTTTTTAAATTTTGACCT
1087352 TTTTTGTTTT
1 TTTTT-TTTT
1087362 TGTTTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.10, C:0.12, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTTTTTTAAATTTTGACCT
Found at i:1094581 original size:24 final size:24
Alignment explanation
Indices: 1094554--1094605 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1094544 GACATGTCCT
* * *
1094554 TTGACGTTCCAACAGTTATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
* *
1094578 TTGATGTTCAAAAAGATGTGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
1094602 TTGA
1 TTGA
1094606 AGTGATGTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (24 bp):
TTGACGTTCAAAAAGATATGCCAC
Found at i:1095993 original size:35 final size:37
Alignment explanation
Indices: 1095900--1096003 Score: 178
Period size: 36 Copynumber: 2.9 Consensus size: 37
1095890 ATACAATCTG
1095900 TCCATCACCATTATCACGCCTATATTATCACCATAGT
1 TCCATCACCATTATCACGCCTATATTATCACCATAGT
*
1095937 T-CATCACCATTATCACGCCTATATCATCACCATA-T
1 TCCATCACCATTATCACGCCTATATTATCACCATAGT
1095972 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATTATCACCA
1096004 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
35 23 0.36
36 40 0.62
37 1 0.02
ACGTcount: A:0.31, C:0.35, G:0.04, T:0.31
Consensus pattern (37 bp):
TCCATCACCATTATCACGCCTATATTATCACCATAGT
Found at i:1096435 original size:14 final size:15
Alignment explanation
Indices: 1096401--1096447 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1096391 AATTTGGAGT
1096401 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
1096416 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
1096430 TCAAAAGCCAAAGAAAA
1 GCAAAAG--AAAGAAAA
1096447 G
1 G
1096448 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.70, C:0.09, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:1100289 original size:36 final size:36
Alignment explanation
Indices: 1100240--1100343 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
1100230 ATACAATCTA
1100240 TCCATCACCATTATCACGCCTATATCATCACCATAGT
1 TCCATCACCATTATCACGCCTATATCATCACCATA-T
1100277 T-CATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
* *
1100312 TCCATCACCA-TATCACACCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
1100344 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
35 22 0.34
36 41 0.64
37 1 0.02
ACGTcount: A:0.32, C:0.36, G:0.03, T:0.30
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAT
Found at i:1104505 original size:24 final size:24
Alignment explanation
Indices: 1104478--1104529 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1104468 GACATGTCCT
* * *
1104478 TTGACGTTCCAATAGTTATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
* *
1104502 TTGATGTTCAAAAAGATGTGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
1104526 TTGA
1 TTGA
1104530 AGTGCCAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (24 bp):
TTGACGTTCAAAAAGATATGCCAC
Found at i:1114270 original size:48 final size:49
Alignment explanation
Indices: 1114145--1114276 Score: 137
Period size: 48 Copynumber: 2.7 Consensus size: 49
1114135 ATATAAATTT
* *
1114145 CTTACCTTTTATCCCATAAGCTCATAAGCTTA---TTTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
* ** *
1114191 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTTTTCAATATA
1 CTTACCATTT---ATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
* *
1114243 CTTGCCA-TTATTCCATAAGCTCATAAGCATATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
1114277 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
46 9 0.13
48 23 0.32
49 20 0.28
51 2 0.03
52 17 0.24
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (49 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
Found at i:1118713 original size:24 final size:23
Alignment explanation
Indices: 1118655--1118714 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1118645 AAATCCAGCA
*
1118655 AAGAAAATCAAAGCACTCAAAAG
1 AAGAAAATGAAAGCACTCAAAAG
*
1118678 AAGAAATTGAAAGCACTCGAAAAG
1 AAGAAAATGAAAGCACTC-AAAAG
*
1118702 AAGAAAAAGAAAG
1 AAGAAAATGAAAG
1118715 AAAGAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.62, C:0.12, G:0.18, T:0.08
Consensus pattern (23 bp):
AAGAAAATGAAAGCACTCAAAAG
Done.