Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008374.1 Hibiscus syriacus cultivar Beakdansim tig00111131_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: 1731758
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:775891 original size:3 final size:3
Alignment explanation
Indices: 775883--775979 Score: 176
Period size: 3 Copynumber: 32.3 Consensus size: 3
775873 AATTGGGCCT
* *
775883 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTT ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
775931 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
775979 A
1 A
775980 AGAGACAACA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:776403 original size:16 final size:17
Alignment explanation
Indices: 776382--776415 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
776372 GATAAAGGAA
776382 AATAAAA-AATAAATAG
1 AATAAAATAATAAATAG
*
776398 AATAAAATAATAATTAG
1 AATAAAATAATAAATAG
776415 A
1 A
776416 GTTTGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAAAATAATAAATAG
Found at i:777117 original size:20 final size:21
Alignment explanation
Indices: 777092--777130 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
777082 AACAAGGAAA
*
777092 AGATAATTCCTAAA-ATAAAG
1 AGATAAATCCTAAAGATAAAG
777112 AGATAAATCCTAAAGATAA
1 AGATAAATCCTAAAGATAA
777131 TTCTTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AGATAAATCCTAAAGATAAAG
Found at i:781223 original size:2 final size:2
Alignment explanation
Indices: 781216--781240 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
781206 TATCATTGCT
781216 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 T
781241 GCAAACATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:784515 original size:16 final size:17
Alignment explanation
Indices: 784470--784524 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 17
784460 TTTTTATTTA
784470 ATTTTTAAAATTATATT
1 ATTTTTAAAATTATATT
*
784487 ATTTATTAGAAATAATATT
1 ATTT-TTA-AAATTATATT
784506 ATTTTT-AAATTATA-T
1 ATTTTTAAAATTATATT
784521 ATTT
1 ATTT
784525 AGTTTCATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 4 0.12
18 5 0.15
19 13 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTTAAAATTATATT
Found at i:784583 original size:16 final size:16
Alignment explanation
Indices: 784472--784584 Score: 52
Period size: 18 Copynumber: 6.5 Consensus size: 16
784462 TTTATTTAAT
784472 TTTTAAAATT-ATATTA
1 TTTT-AAATTAATATTA
*
784488 TTTATTAGAAATAATATTA
1 -TT-TTA-AATTAATATTA
784507 TTTTTAAATTATATATTTA
1 -TTTTAAATTA-ATA-TTA
* * *
784526 GTTT-CATACAATATTA
1 TTTTAAAT-TAATATTA
*
784542 -TTTAAATTTAAAAATTA
1 TTTTAAA-TT-AATATTA
784559 TAATTTAAATTAATATTA
1 T--TTTAAATTAATATTA
784577 TTTTAAAT
1 TTTTAAAT
784585 AATTAATTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
15 3 0.04
16 11 0.15
17 19 0.25
18 22 0.29
19 14 0.19
20 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTAAATTAATATTA
Found at i:784596 original size:23 final size:23
Alignment explanation
Indices: 784566--784610 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
784556 TTATAATTTA
*
784566 AATTAATATTATTTTAAATAATT
1 AATTAATATTATTTAAAATAATT
784589 AATTAATATTATTTAAAATAAT
1 AATTAATATTATTTAAAATAAT
784611 ATGATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTAATATTATTTAAAATAATT
Found at i:784635 original size:38 final size:38
Alignment explanation
Indices: 784561--784636 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
784551 AAAAATTATA
* * **
784561 ATTTAAATTAATATTATTTTAAATAATTAATTAATATT
1 ATTTAAAATAATATGATTTTAAATAATTAACAAATATT
784599 ATTTAAAATAATATGATTTTAAA-AATTAAGCAAATATT
1 ATTTAAAATAATATGATTTTAAATAATTAA-CAAATATT
784637 TTGAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 6 0.18
38 27 0.82
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (38 bp):
ATTTAAAATAATATGATTTTAAATAATTAACAAATATT
Found at i:784987 original size:24 final size:26
Alignment explanation
Indices: 784960--785018 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
784950 TAGCTCAATG
*
784960 ATACAATTAATAATTATATTC-T-AA
1 ATACAATTAATAATTACATTCTTAAA
*
784984 ATACAATT-ACAATTACATTCTTAAA
1 ATACAATTAATAATTACATTCTTAAA
785009 ATA-AATTAAT
1 ATACAATTAAT
785019 CATAAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 10 0.34
24 13 0.45
25 6 0.21
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (26 bp):
ATACAATTAATAATTACATTCTTAAA
Found at i:785497 original size:21 final size:21
Alignment explanation
Indices: 785473--785512 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
785463 TTTTCAAAGG
785473 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
785494 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
785513 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:785562 original size:19 final size:19
Alignment explanation
Indices: 785538--785576 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
785528 TCGAATGCAT
785538 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
785557 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
785576 T
1 T
785577 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:785609 original size:64 final size:65
Alignment explanation
Indices: 785473--785702 Score: 195
Period size: 64 Copynumber: 3.5 Consensus size: 65
785463 TTTTCAAAGG
*
785473 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGC
785536 ATTC
62 ATTC
* * * *
785540 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAATATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
* * ** ** ** *
785604 GATGCATCGATGCACAATCCATGCATCGATGCAC-CA-GGCTATTTTTCAAACATCGAATGCACT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATA-AATTAAAACATCGAATGCA-T
785667 T-
64 TC
* * *
785668 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
785703 AGGATTCCAA
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
63 4 0.03
64 95 0.70
65 17 0.13
66 3 0.02
67 14 0.10
68 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
Found at i:785682 original size:17 final size:19
Alignment explanation
Indices: 785654--785702 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
785644 ATTTTTCAAA
785654 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
785672 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
785691 CACCGATGCACT
1 CATCGATGCACT
785703 AGGATTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:791531 original size:24 final size:22
Alignment explanation
Indices: 791503--791582 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
791493 CACTTAACAA
791503 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
791527 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
791547 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
791571 TGCATCGATGCA
1 TGCATCGATGCA
791583 CAAGATCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:794101 original size:21 final size:21
Alignment explanation
Indices: 794077--794116 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
794067 TTTTCAAAGG
794077 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
794098 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
794117 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:794166 original size:19 final size:19
Alignment explanation
Indices: 794142--794180 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
794132 TCGAATGCAT
794142 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
794161 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
794180 T
1 T
794181 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:794205 original size:64 final size:65
Alignment explanation
Indices: 794077--794241 Score: 201
Period size: 64 Copynumber: 2.5 Consensus size: 65
794067 TTTTCAAAGG
*
794077 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGC
794140 ATTC
62 ATTC
* * *
794144 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
* * **
794208 GATGCACCAATGCACAATCCATGCATCGATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCAC
794242 CAGGCTATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 54 0.61
65 15 0.17
66 3 0.03
67 14 0.16
68 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
Found at i:794259 original size:64 final size:63
Alignment explanation
Indices: 794077--794277 Score: 181
Period size: 64 Copynumber: 3.1 Consensus size: 63
794067 TTTTCAAAGG
* ** ** *
794077 CATGCACCGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCAT
1 CATGCACCAATGCA-CAAT-CCATGCATCGATGCA-CGCTG-ATTTATTAAAACATCGAATGCAT
*
794142 TC
62 TT
* ** *
794144 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTT
1 CATGCACCAATGCACAATCCATGCATCGATGCACGCTGATTT-ATTAAAACATCGAATGCATTT
* * * *
794208 GATGCACCAATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTCAAACATTGAATGCACT
1 CATGCACCAATGCACAATCCATGCATCGATGCA-C--GCTGATTTATTAAAACATCGAATGCATT
794271 T
63 T
794272 CATGCA
1 CATGCA
794278 TCGTGCACTC
Statistics
Matches: 113, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
63 2 0.02
64 73 0.65
65 16 0.14
66 6 0.05
67 16 0.14
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (63 bp):
CATGCACCAATGCACAATCCATGCATCGATGCACGCTGATTTATTAAAACATCGAATGCATTT
Found at i:796709 original size:14 final size:14
Alignment explanation
Indices: 796690--796729 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
796680 TAAGATACTA
796690 TTTCCATCACCATC
1 TTTCCATCACCATC
796704 TTTCCATCACCATC
1 TTTCCATCACCATC
*
796718 -CTCCATCACCAT
1 TTTCCATCACCAT
796730 TCACGCCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:796906 original size:15 final size:15
Alignment explanation
Indices: 796883--796921 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
796873 TACTTTGATA
*
796883 TCATTTCTTGCCATT
1 TCATTTCTTACCATT
* *
796898 TCCTTTCTTATCATT
1 TCATTTCTTACCATT
796913 TCATTTCTT
1 TCATTTCTT
796922 CTTCTATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.03, T:0.59
Consensus pattern (15 bp):
TCATTTCTTACCATT
Found at i:797148 original size:10 final size:10
Alignment explanation
Indices: 797133--797166 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
797123 AAGCAACAAG
*
797133 AAGAAAAAGA
1 AAGAAAAAAA
797143 AAGAAAAAAA
1 AAGAAAAAAA
*
797153 AAGAAATAAA
1 AAGAAAAAAA
797163 AAGA
1 AAGA
797167 CTCCTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:800664 original size:14 final size:14
Alignment explanation
Indices: 800645--800684 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
800635 TAAGATACTA
*
800645 TTTCCATCACCATC
1 TTTCCATCACAATC
800659 TTTCCATCACAATC
1 TTTCCATCACAATC
*
800673 -CTCCATCACAAT
1 TTTCCATCACAAT
800685 TCACGCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTCCATCACAATC
Found at i:800679 original size:13 final size:14
Alignment explanation
Indices: 800647--800684 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
800637 AGATACTATT
* *
800647 TCCATCACCATCTT
1 TCCATCACAATCTC
800661 TCCATCACAATC-C
1 TCCATCACAATCTC
800674 TCCATCACAAT
1 TCCATCACAAT
800685 TCACGCCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.29, C:0.42, G:0.00, T:0.29
Consensus pattern (14 bp):
TCCATCACAATCTC
Found at i:802951 original size:32 final size:32
Alignment explanation
Indices: 802907--802978 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
802897 ATCGGGTCGG
*
802907 ATATATA-TATTTATATTAAA-TATAAATATA
1 ATATATATTATTTAAATTAAATTATAAATATA
* *
802937 ATATATATTAATTTAAATTAAATTTATTAATATT
1 ATATATATT-ATTTAAATTAAA-TTATAAATATA
802971 ATATATAT
1 ATATATAT
802979 ATAAAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.20
31 1 0.03
32 11 0.31
34 16 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATATATTATTTAAATTAAATTATAAATATA
Found at i:805871 original size:22 final size:22
Alignment explanation
Indices: 805843--805890 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
805833 GCATTTAATA
805843 TAAAATTATTAAGGATTATCTT
1 TAAAATTATTAAGGATTATCTT
*
805865 TAAAATTGTTAAGGATTATCTT
1 TAAAATTATTAAGGATTATCTT
805887 TAAA
1 TAAA
805891 CAGATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (22 bp):
TAAAATTATTAAGGATTATCTT
Found at i:806370 original size:14 final size:14
Alignment explanation
Indices: 806353--806379 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
806343 TTCATGCTTG
806353 TTCGTTTATGTTCA
1 TTCGTTTATGTTCA
806367 TTCGTTTATGTTC
1 TTCGTTTATGTTC
806380 GTTTATGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (14 bp):
TTCGTTTATGTTCA
Found at i:807383 original size:55 final size:55
Alignment explanation
Indices: 807251--807588 Score: 452
Period size: 55 Copynumber: 6.2 Consensus size: 55
807241 ATGCACAATT
* * ***
807251 AGTGCCTATACAG-GAATTCATCAACCCATGATGAATTCCGTG-GGCTGCACAC-A
1 AGTGCCTGTACAGTG-ATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
*
807304 TAGTGCATGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
1 -AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* *
807360 AGTGCCTGTACAGTGATTTATCAACTCATGATGAATTCCGTGGATATGCACACGA
1 AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * *
807415 AGTGCCTGTACGGTGATTCATCAACTCATGATGAATTCC-TGGATATGCACACTA
1 AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
* * *
807469 AGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATTTGCACACGA
1 AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
** * *
807524 AGTGCCTGTATGGTGATTCATCAACTCATGATGAATTCCGTGAATTTACACAC-A
1 AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
807578 AGGTGCCTGTA
1 A-GTGCCTGTA
807589 GTACACATAG
Statistics
Matches: 260, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
54 91 0.35
55 168 0.65
56 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (55 bp):
AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
Found at i:807461 original size:109 final size:109
Alignment explanation
Indices: 807251--807588 Score: 468
Period size: 109 Copynumber: 3.1 Consensus size: 109
807241 ATGCACAATT
* * ** *
807251 AGTGCCTATACAG-GAATTCATCAACCCATGATGAATTCCGTGG-GCTGCACAC-ATAGTGCATG
1 AGTGCCTGTACAGTG-ATTCATCAACTCATGATGAATTCCGTGGATATGCACACGA-AGTGCCTG
*
807313 TACAGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGA
64 TACGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACAC-A
*
807360 AGTGCCTGTACAGTGATTTATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTA
1 AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTA
*
807425 CGGTGATTCATCAACTCATGATGAATTCC-TGGATATGCACACTA
66 CGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACAC-A
* * * *
807469 AGTGCATGTACGGTGATTCATCAACTCATGATGAATTCCGTGAATTTGCACACGAAGTGCCTGTA
1 AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTA
* * *
807534 TGGTGATTCATCAACTCATGATGAATTCCGTGAATTTACACACA
66 CGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACA
807578 AGGTGCCTGTA
1 A-GTGCCTGTA
807589 GTACACATAG
Statistics
Matches: 205, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
109 141 0.69
110 63 0.31
111 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (109 bp):
AGTGCCTGTACAGTGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTA
CGGTGATTCATCAACTCATGATGAATTCCGTGAATATGCACACA
Found at i:807512 original size:164 final size:164
Alignment explanation
Indices: 807266--807588 Score: 499
Period size: 164 Copynumber: 2.0 Consensus size: 164
807256 CTATACAGGA
*
807266 ATTCATCAACCCATGATGAATTCCGTGGGCTGCACACATAGTGCATGTACAGTGATTCATCAACT
1 ATTCATCAACCCATGATGAATTCCGTGGGATGCACACATAGTGCATGTACAGTGATTCATCAACT
*
807331 CATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACAGTGATTTATCAACTCATGATGAAT
66 CATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACAGTGATTCATCAACTCATGATGAAT
* *
807396 TCCGTGGATATGCACACGAA-GTGCCTGTACGGTG
131 TCCGTGAATATACACAC-AAGGTGCCTGTACGGTG
* * *
807430 ATTCATCAACTCATGATGAATTCC-TGGATATGCACAC-TAAGTGCATGTACGGTGATTCATCAA
1 ATTCATCAACCCATGATGAATTCCGTGG-GATGCACACAT-AGTGCATGTACAGTGATTCATCAA
* **
807493 CTCATGATGAATTCCGTGAATTTGCACACGAAGTGCCTGTATGGTGATTCATCAACTCATGATGA
64 CTCATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACAGTGATTCATCAACTCATGATGA
*
807558 ATTCCGTGAATTTACACACAAGGTGCCTGTA
129 ATTCCGTGAATATACACACAAGGTGCCTGTA
807589 GTACACATAG
Statistics
Matches: 145, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
163 6 0.04
164 139 0.96
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (164 bp):
ATTCATCAACCCATGATGAATTCCGTGGGATGCACACATAGTGCATGTACAGTGATTCATCAACT
CATGATGAATTCCGTGAATATGCACACGAAGTGCCTGTACAGTGATTCATCAACTCATGATGAAT
TCCGTGAATATACACACAAGGTGCCTGTACGGTG
Found at i:808037 original size:22 final size:23
Alignment explanation
Indices: 807995--808038 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
807985 CTGGTATCGA
807995 TACCCTTACCATGGTATCGATAC
1 TACCCTTACCATGGTATCGATAC
* *
808018 TACCC-TACTATGTTATCGATA
1 TACCCTTACCATGGTATCGATA
808039 TCCCCGACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.34
Consensus pattern (23 bp):
TACCCTTACCATGGTATCGATAC
Found at i:812954 original size:22 final size:22
Alignment explanation
Indices: 812926--813041 Score: 153
Period size: 22 Copynumber: 5.3 Consensus size: 22
812916 GAGGATTTAT
812926 AGTGGTCATTCGGGACATATCC
1 AGTGGTCATTCGGGACATATCC
* * *
812948 AGTGGTCCTTCGGGACGTATCT
1 AGTGGTCATTCGGGACATATCC
* *
812970 AGTGGTCATTCGGGACTTATCT
1 AGTGGTCATTCGGGACATATCC
*
812992 AGTGGTCATTCGGGACGTATCC
1 AGTGGTCATTCGGGACATATCC
* *
813014 AGTGGTCCTTCGGGATATAT-C
1 AGTGGTCATTCGGGACATATCC
813035 AGTGGTC
1 AGTGGTC
813042 CTTAAAGACG
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
21 8 0.10
22 76 0.90
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (22 bp):
AGTGGTCATTCGGGACATATCC
Found at i:812996 original size:44 final size:43
Alignment explanation
Indices: 812925--813044 Score: 170
Period size: 44 Copynumber: 2.7 Consensus size: 43
812915 CGAGGATTTA
*
812925 TAGTGGTCATTCGGGACATATCCAGTGGTCCTTCGGGACGTATC
1 TAGTGGTCATTCGGGACTTAT-CAGTGGTCCTTCGGGACGTATC
*
812969 TAGTGGTCATTCGGGACTTATCTAGTGGTCATTCGGGACGTATC
1 TAGTGGTCATTCGGGACTTATC-AGTGGTCCTTCGGGACGTATC
* *
813013 CAGTGGTCCTTCGGGA-TATATCAGTGGTCCTT
1 TAGTGGTCATTCGGGACT-TATCAGTGGTCCTT
813045 AAAGACGTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
43 11 0.16
44 58 0.84
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (43 bp):
TAGTGGTCATTCGGGACTTATCAGTGGTCCTTCGGGACGTATC
Found at i:819968 original size:22 final size:22
Alignment explanation
Indices: 819921--820041 Score: 90
Period size: 22 Copynumber: 5.6 Consensus size: 22
819911 GGGTTTATAA
* * *
819921 TGGTCCTTCGGGACATATTCAA
1 TGGTCTTTCGGGACATATCCAG
*
819943 TGGTCTTTCGGGACGTATCCAG
1 TGGTCTTTCGGGACATATCCAG
* **
819965 TGGT-TATTCGGGATATATATAG
1 TGGTCT-TTCGGGACATATCCAG
* *
819987 TGGGTCTTTAGGGACGTA---A-
1 T-GGTCTTTCGGGACATATCCAG
*
820006 TGGTCCTTCGGGACATATCCAG
1 TGGTCTTTCGGGACATATCCAG
*
820028 TGGTCTTTAGGGAC
1 TGGTCTTTCGGGAC
820042 GTAATGGTCC
Statistics
Matches: 76, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
18 13 0.17
19 1 0.01
20 1 0.01
21 2 0.03
22 47 0.62
23 11 0.14
24 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (22 bp):
TGGTCTTTCGGGACATATCCAG
Found at i:820018 original size:18 final size:18
Alignment explanation
Indices: 819997--820059 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
819987 TGGGTCTTTA
819997 GGGACGTAATGGTCCTTC
1 GGGACGTAATGGTCCTTC
* * *
820015 GGGACATATCCAGTGGTCTTTA
1 GGGACGTA---A-TGGTCCTTC
820037 GGGACGTAATGGTCCTTC
1 GGGACGTAATGGTCCTTC
820055 GGGAC
1 GGGAC
820060 AAATATTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 19 0.54
19 1 0.03
21 1 0.03
22 14 0.40
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (18 bp):
GGGACGTAATGGTCCTTC
Found at i:820040 original size:40 final size:40
Alignment explanation
Indices: 819918--820060 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
819908 CGAGGGTTTA
* * *
819918 TAATGGTCCTTCGGGACATATTCAATGGTCTTTCGGGACG
1 TAATGGTCCTTCGGGACATATACAGTGGTCTTTAGGGACG
** * *
819958 TATCCAGTGGTTATTCGGGATATATATAGTGGGTCTTTAGGGACG
1 TA---A-TGGTCCTTCGGGACATATACAGT-GGTCTTTAGGGACG
*
820003 TAATGGTCCTTCGGGACATATCCAGTGGTCTTTAGGGACG
1 TAATGGTCCTTCGGGACATATACAGTGGTCTTTAGGGACG
820043 TAATGGTCCTTCGGGACA
1 TAATGGTCCTTCGGGACA
820061 AATATTCACT
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 34 0.40
41 18 0.21
42 1 0.01
43 1 0.01
44 17 0.20
45 15 0.17
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (40 bp):
TAATGGTCCTTCGGGACATATACAGTGGTCTTTAGGGACG
Found at i:823562 original size:55 final size:55
Alignment explanation
Indices: 823498--823702 Score: 304
Period size: 55 Copynumber: 3.7 Consensus size: 55
823488 GCTTGTACAA
* *
823498 TGATTCATCAACTCATGATGAATTCCGTGAATATGCACACGAAGTGTCTGTACGG
1 TGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTACGG
* * * *
823553 TGAGTCATCAACTCATGATGAATTCTGTGGATATGTACATGAAGTGCCTGTACGG
1 TGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTACGG
* *
823608 TGATTCATCAACTCATGATGAATTCTGTGGATATGCACACGAAGTGCCTGTACTG
1 TGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTACGG
* *
823663 TGATTCAT-ATACTCATGATGAATTTCGTGGATTTGCACAC
1 TGATTCATCA-ACTCATGATGAATTCCGTGGATATGCACAC
823703 AAGGTACATA
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 1 0.01
55 135 0.99
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (55 bp):
TGATTCATCAACTCATGATGAATTCCGTGGATATGCACACGAAGTGCCTGTACGG
Found at i:830443 original size:20 final size:21
Alignment explanation
Indices: 830404--830443 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
830394 AAAGCTTAAA
* *
830404 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
830425 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
830444 AAATATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:831371 original size:30 final size:30
Alignment explanation
Indices: 831335--831395 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
831325 TTTCATCCTG
*
831335 AAATTTTTATAGCTATGAGTTAGAAGACTA
1 AAATTTTCATAGCTATGAGTTAGAAGACTA
831365 AAATTTTCATAGCTATGAGTTAGAAGACTA
1 AAATTTTCATAGCTATGAGTTAGAAGACTA
831395 A
1 A
831396 TTTTAGATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (30 bp):
AAATTTTCATAGCTATGAGTTAGAAGACTA
Found at i:833235 original size:22 final size:22
Alignment explanation
Indices: 833207--833262 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
833197 ACTACTACCG
* *
833207 TGGTACCGATATTTCAATGCTA
1 TGGTACCGATACTTCAATACTA
*
833229 TGGTACCGATACTTCTATACTA
1 TGGTACCGATACTTCAATACTA
833251 TGGTACCGATAC
1 TGGTACCGATAC
833263 CCCCTTTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (22 bp):
TGGTACCGATACTTCAATACTA
Found at i:833372 original size:19 final size:21
Alignment explanation
Indices: 833313--833375 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
833303 CTGGTATCAA
*
833313 TACCTTACCATGGTATCGATAC
1 TACCCTACCAT-GTATCGATAC
*
833335 TACCCTACTATGATATCGATAC
1 TACCCTACCATG-TATCGATAC
833357 T-CCCTACCA-GTATCGATAC
1 TACCCTACCATGTATCGATAC
833376 CAAAATTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.24
20 1 0.03
21 8 0.22
22 19 0.51
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (21 bp):
TACCCTACCATGTATCGATAC
Found at i:833446 original size:94 final size:94
Alignment explanation
Indices: 833272--833449 Score: 227
Period size: 94 Copynumber: 1.9 Consensus size: 94
833262 CCCCCTTTGG
* ** *
833272 GTATCGATACCAAAAATAGGTTCGATTTTGTCTGGTATCAATACCTTACCATGGTATCGATACTA
1 GTATCGATACCAAAAATAGATTCGAAGTTGTCTGGTATCAATACCTTACCATGGTATCAATACTA
*
833337 CCCTACTATGATATCGATACTCCCTACCA
66 CCCTACTATCATATCGATACTCCCTACCA
* * * *
833366 GTATCGATACCAAAATTAGATTCGAAGTTGTTTGGTATCGATACCCCTTATCATGGTATCAATAC
1 GTATCGATACCAAAAATAGATTCGAAGTTGTCTGGTATCAATA--CCTTACCATGGTATCAATAC
833431 TA-CCT-C-ATCAGTATCGATA
64 TACCCTACTATCA-TATCGATA
833450 TTGATTGAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 3 0.04
94 46 0.64
95 3 0.04
96 20 0.28
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (94 bp):
GTATCGATACCAAAAATAGATTCGAAGTTGTCTGGTATCAATACCTTACCATGGTATCAATACTA
CCCTACTATCATATCGATACTCCCTACCA
Found at i:845075 original size:13 final size:13
Alignment explanation
Indices: 845019--845096 Score: 84
Period size: 13 Copynumber: 6.0 Consensus size: 13
845009 AATAATGCTC
845019 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
845032 AATGAGCTTCATA
1 AATGCGCGTCATA
** *
845045 AATATGTGTCATA
1 AATGCGCGTCATA
*
845058 AATGCGTGTCATA
1 AATGCGCGTCATA
* *
845071 CATGCACGTCATA
1 AATGCGCGTCATA
845084 AATGCGCGTCATA
1 AATGCGCGTCATA
845097 GATTTATGAC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:845252 original size:20 final size:20
Alignment explanation
Indices: 845227--845269 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
845217 CTAGTTGTGT
845227 GATTGACCCTTTGGTGAAAG
1 GATTGACCCTTTGGTGAAAG
*
845247 GATTGATCCTTTGGTGAAAG
1 GATTGACCCTTTGGTGAAAG
845267 GAT
1 GAT
845270 CAATCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.33
Consensus pattern (20 bp):
GATTGACCCTTTGGTGAAAG
Found at i:845275 original size:20 final size:20
Alignment explanation
Indices: 845234--845278 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
845224 TGTGATTGAC
**
845234 CCTTTGGTGAAAGGATTGAT
1 CCTTTGGTGAAAGGATCAAT
845254 CCTTTGGTGAAAGGATCAAT
1 CCTTTGGTGAAAGGATCAAT
845274 CCTTT
1 CCTTT
845279 TTGTAAGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (20 bp):
CCTTTGGTGAAAGGATCAAT
Found at i:851382 original size:19 final size:19
Alignment explanation
Indices: 851358--851407 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
851348 TAAAGATAAT
851358 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
851377 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
851396 TTGATTTTGAAA
1 TTGATTTTGAAA
851408 ATCAAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGATTTTGAAAGCAAAAG
Found at i:852566 original size:21 final size:21
Alignment explanation
Indices: 852540--852579 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
852530 AAACAATTGG
852540 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
852561 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
852580 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:857945 original size:29 final size:29
Alignment explanation
Indices: 857903--857959 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
857893 AGTGTTGGTC
**
857903 GTAGGTCGCCATGCACTCCTTGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
857932 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
857960 ACCCTTGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.35, G:0.28, T:0.23
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:858051 original size:29 final size:29
Alignment explanation
Indices: 858018--858130 Score: 163
Period size: 29 Copynumber: 3.9 Consensus size: 29
858008 TCCCAACACA
*
858018 TAGGTCGCCATGCCCTCAAGGCGACCTTG
1 TAGGTCGCCATGCCCTCAGGGCGACCTTG
858047 TAGGTCGCCATGCCCTCAGGGCGACCTTG
1 TAGGTCGCCATGCCCTCAGGGCGACCTTG
* *
858076 TAGGTCGCCATGTCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCAGGGCGACCTTG
* * * *
858105 TAGGTCTCCATACACTCCGGGCGACC
1 TAGGTCGCCATGCCCTCAGGGCGACC
858131 AACCCTCGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 77 1.00
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCAGGGCGACCTTG
Found at i:858183 original size:23 final size:23
Alignment explanation
Indices: 858149--858201 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
858139 CTCGGCTGCC
858149 CTCGGATTCCCTCGCATAGCTCG
1 CTCGGATTCCCTCGCATAGCTCG
*
858172 CTCGG-TTACCCTCGGATAGCTCG
1 CTCGGATT-CCCTCGCATAGCTCG
*
858195 TTCGGAT
1 CTCGGAT
858202 GGCCTCGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.08
23 23 0.88
24 1 0.04
ACGTcount: A:0.13, C:0.34, G:0.25, T:0.28
Consensus pattern (23 bp):
CTCGGATTCCCTCGCATAGCTCG
Found at i:858207 original size:23 final size:20
Alignment explanation
Indices: 858181--858246 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 20
858171 GCTCGGTTAC
858181 CCTCGGATAGCTCGTTCGGATGG
1 CCTCGGAT-GCTC--TCGGATGG
*
858204 CCTCGGATGCTCTCGAAT-G
1 CCTCGGATGCTCTCGGATGG
*
858223 CCTCAGATGCTCTCGGATGG
1 CCTCGGATGCTCTCGGATGG
858243 CCTC
1 CCTC
858247 TGTCGATGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 17 0.44
20 10 0.26
22 4 0.10
23 8 0.21
ACGTcount: A:0.14, C:0.32, G:0.29, T:0.26
Consensus pattern (20 bp):
CCTCGGATGCTCTCGGATGG
Found at i:858211 original size:10 final size:10
Alignment explanation
Indices: 858196--858264 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
858186 GATAGCTCGT
858196 TCGGATGGCC
1 TCGGATGGCC
858206 TCGGAT-GCTC
1 TCGGATGGC-C
*
858216 TCGAAT-GCC
1 TCGGATGGCC
*
858225 TCAGAT-GCTC
1 TCGGATGGC-C
858235 TCGGATGGCC
1 TCGGATGGCC
858245 TCTGTCGATGGCC
1 TC-G--GATGGCC
858258 TCGGATG
1 TCGGATG
858265 CCCAGCGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
9 9 0.18
10 27 0.55
11 3 0.06
12 1 0.02
13 9 0.18
ACGTcount: A:0.13, C:0.29, G:0.32, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:858341 original size:29 final size:29
Alignment explanation
Indices: 858304--858361 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
858294 GCAATCTCTT
*
858304 GTAGCTCGCCGGGAAGACATGGCAACCTA
1 GTAGCTCGCCCGGAAGACATGGCAACCTA
* * *
858333 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCAACCTA
858362 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.34, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCAACCTA
Found at i:859165 original size:3 final size:3
Alignment explanation
Indices: 859157--859183 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
859147 CAAGCTTTGT
859157 GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA
859184 AGCATTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:859942 original size:13 final size:13
Alignment explanation
Indices: 859902--859947 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
859892 TATATTTTTA
*
859902 ATATTATACTAAT
1 ATATTATAATAAT
*
859915 ATA-TACTCA-AAT
1 ATATTA-TAATAAT
859927 ATATTATAATAAT
1 ATATTATAATAAT
859940 ATATTATA
1 ATATTATA
859948 TTATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTATAATAAT
Found at i:859953 original size:25 final size:25
Alignment explanation
Indices: 859885--859953 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 25
859875 TATAATTTTA
*
859885 ATAATACTATATT-T-TTA-ATATT
1 ATAATAATATATTATATTATATATT
* *
859907 ATACTAATATA-TACTCA-AATATATT
1 ATAATAATATATTA-T-ATTATATATT
859932 ATAATAATATATTATATTATAT
1 ATAATAATATATTATATTATAT
859954 TTTTTAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
21 1 0.03
22 9 0.26
23 1 0.03
24 2 0.06
25 20 0.57
26 2 0.06
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAATAATATATTATATTATATATT
Found at i:863934 original size:18 final size:17
Alignment explanation
Indices: 863911--864016 Score: 104
Period size: 18 Copynumber: 6.1 Consensus size: 17
863901 TTAATTTATT
863911 TCTGATAACTGTAAAGCA
1 TCTGATAACTGTAAA-CA
* *
863929 TCTGATATCTGTAAATA
1 TCTGATAACTGTAAACA
* * *
863946 TATGATAATTGAAAATCA
1 TCTGATAACTGTAAA-CA
* *
863964 TCTGATATCTGTAAATA
1 TCTGATAACTGTAAACA
* *
863981 TCTTATAACTGAAAATCA
1 TCTGATAACTGTAAA-CA
863999 TCTGATAACTGTAAACA
1 TCTGATAACTGTAAACA
864016 T
1 T
864017 TTAGAATTCA
Statistics
Matches: 68, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
17 28 0.41
18 40 0.59
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (17 bp):
TCTGATAACTGTAAACA
Found at i:863966 original size:35 final size:35
Alignment explanation
Indices: 863913--864013 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 35
863903 AATTTATTTC
* *
863913 TGATAACTGTAAAGCATCTGATATCTGTAAATATA
1 TGATAACTGAAAATCATCTGATATCTGTAAATATA
* *
863948 TGATAATTGAAAATCATCTGATATCTGTAAATATC
1 TGATAACTGAAAATCATCTGATATCTGTAAATATA
* *
863983 TTATAACTGAAAATCATCTGATAACTGTAAA
1 TGATAACTGAAAATCATCTGATATCTGTAAA
864014 CATTTAGAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (35 bp):
TGATAACTGAAAATCATCTGATATCTGTAAATATA
Found at i:864103 original size:11 final size:11
Alignment explanation
Indices: 864087--864115 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
864077 ACTTGATGAA
864087 AAATATTATAG
1 AAATATTATAG
864098 AAATATTATAG
1 AAATATTATAG
864109 AAATATT
1 AAATATT
864116 TCATACTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (11 bp):
AAATATTATAG
Found at i:866382 original size:23 final size:24
Alignment explanation
Indices: 866355--866400 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
866345 AATAAAAATG
866355 AATTT-AAAAT-TCATTTAATGAGA
1 AATTTCAAAATATCA-TTAATGAGA
866378 AATTTCCAAAATATCATTAATGA
1 AATTT-CAAAATATCATTAATGA
866401 ATCTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
25 12 0.60
26 3 0.15
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (24 bp):
AATTTCAAAATATCATTAATGAGA
Found at i:866447 original size:15 final size:16
Alignment explanation
Indices: 866421--866450 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
866411 TTACCACTGG
866421 CCATTGAAAATATCTT
1 CCATTGAAAATATCTT
866437 CCATT-AAAATATCT
1 CCATTGAAAATATCT
866451 CAAAGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (16 bp):
CCATTGAAAATATCTT
Found at i:867747 original size:20 final size:20
Alignment explanation
Indices: 867722--867761 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
867712 CTTGACAAGC
867722 CCCGCGGCTTTATCATTCGA
1 CCCGCGGCTTTATCATTCGA
867742 CCCGCGGCTTTATCATTCGA
1 CCCGCGGCTTTATCATTCGA
867762 AAACTTCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.20, T:0.30
Consensus pattern (20 bp):
CCCGCGGCTTTATCATTCGA
Found at i:867837 original size:19 final size:20
Alignment explanation
Indices: 867796--867848 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
867786 TAAGGAAATA
*
867796 TAAATAAATTTTATTAGTTTG
1 TAAAT-AATTTTATTACTTTG
867817 TAAATAATTTT-TTACTTTG
1 TAAATAATTTTATTACTTTG
*
867836 TAAACAATTTTAT
1 TAAATAATTTTAT
867849 CTTAATAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.59
20 7 0.24
21 5 0.17
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (20 bp):
TAAATAATTTTATTACTTTG
Found at i:867880 original size:13 final size:14
Alignment explanation
Indices: 867862--867890 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
867852 AATAAACATT
867862 TTAA-TTTTTTTAA
1 TTAATTTTTTTTAA
867875 TTAATTTTTTTTAA
1 TTAATTTTTTTTAA
867889 TT
1 TT
867891 TTGTCGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTAATTTTTTTTAA
Found at i:869922 original size:17 final size:17
Alignment explanation
Indices: 869902--869947 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
869892 ACTCATTAAT
869902 ATTTTAAAATC-CAATTA
1 ATTTTAAAA-CACAATTA
869919 ATTTT-AAACACAATTA
1 ATTTTAAAACACAATTA
869935 ATTTT-AAACACAA
1 ATTTTAAAACACAA
869948 ATAGAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.04
16 22 0.79
17 5 0.18
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTTAAAACACAATTA
Found at i:869934 original size:16 final size:16
Alignment explanation
Indices: 869913--869947 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
869903 TTTTAAAATC
869913 CAATTAATTTTAAACA
1 CAATTAATTTTAAACA
869929 CAATTAATTTTAAACA
1 CAATTAATTTTAAACA
869945 CAA
1 CAA
869948 ATAGAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (16 bp):
CAATTAATTTTAAACA
Found at i:870518 original size:2 final size:2
Alignment explanation
Indices: 870511--870590 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
870501 AGACTATGCA
870511 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
870553 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
870591 GTGTGTGTGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:872440 original size:17 final size:18
Alignment explanation
Indices: 872403--872443 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
872393 ATATTATGTA
*
872403 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
872421 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
872438 TTTACT
1 TTTACT
872444 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:873417 original size:17 final size:20
Alignment explanation
Indices: 873375--873425 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
873365 TTTTGTATAT
873375 TAATAATTTTATACAACATA
1 TAATAATTTTATACAACATA
* *
873395 TAATAATTTTATACAGCTTA
1 TAATAATTTTATACAACATA
873415 TAATAAATTTT
1 TAAT-AATTTT
873426 TTTCCTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATAATTTTATACAACATA
Found at i:882841 original size:56 final size:56
Alignment explanation
Indices: 882754--882915 Score: 315
Period size: 56 Copynumber: 2.9 Consensus size: 56
882744 TTTGGTTTTT
*
882754 AAAATATGTCTTTTCTTTCTTGAGTCCTTTTAATTTCAAATAAAAATCTCCGTCAC
1 AAAATATGTCTTTTCTTTCTTGAGTCTTTTTAATTTCAAATAAAAATCTCCGTCAC
882810 AAAATATGTCTTTTCTTTCTTGAGTCTTTTTAATTTCAAATAAAAATCTCCGTCAC
1 AAAATATGTCTTTTCTTTCTTGAGTCTTTTTAATTTCAAATAAAAATCTCCGTCAC
882866 AAAATATGTCTTTTCTTTCTTGAGTCTTTTTAATTTCAAATAAAAATCTC
1 AAAATATGTCTTTTCTTTCTTGAGTCTTTTTAATTTCAAATAAAAATCTC
882916 TGTTATTGTG
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 105 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (56 bp):
AAAATATGTCTTTTCTTTCTTGAGTCTTTTTAATTTCAAATAAAAATCTCCGTCAC
Found at i:883613 original size:16 final size:16
Alignment explanation
Indices: 883592--883623 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
883582 GTAGTATGTC
883592 GGGTCAATTTTTGGGT
1 GGGTCAATTTTTGGGT
883608 GGGTCAATTTTTGGGT
1 GGGTCAATTTTTGGGT
883624 CAGGTGACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.38, T:0.44
Consensus pattern (16 bp):
GGGTCAATTTTTGGGT
Found at i:883668 original size:32 final size:32
Alignment explanation
Indices: 883632--883807 Score: 139
Period size: 32 Copynumber: 5.6 Consensus size: 32
883622 GTCAGGTGAC
* *
883632 TATCAGATCGGTTG-TTTTTCAGTTCGGATCAA
1 TATCAGATCGGTTGATTTTT-AGGTCGGATTAA
* * *
883664 TATCAAATCGATTGATTTTTGGGTCGG-TTAA
1 TATCAGATCGGTTGATTTTTAGGTCGGATTAA
* * * *
883695 TATCAGATCGGTTAGA-TTTCAAGTTGGGTTAA
1 TATCAGATCGGTT-GATTTTTAGGTCGGATTAA
* *
883727 TATCAGATCGATTGATTTTTGGGTCGAGA-TAA
1 TATCAGATCGGTTGATTTTTAGGTCG-GATTAA
* *
883759 TATCAGATCGGTTAGA--TTTAGGTTGGGTTAA
1 TATCAGATCGGTT-GATTTTTAGGTCGGATTAA
* *
883790 TATCGGATCGATTGATTT
1 TATCAGATCGGTTGATTT
883808 CGATTTGGGA
Statistics
Matches: 112, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
30 3 0.03
31 44 0.39
32 57 0.51
33 8 0.07
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (32 bp):
TATCAGATCGGTTGATTTTTAGGTCGGATTAA
Found at i:883697 original size:31 final size:31
Alignment explanation
Indices: 883662--883807 Score: 141
Period size: 32 Copynumber: 4.6 Consensus size: 31
883652 AGTTCGGATC
* *
883662 AATATCAAATCGATTGATTTTTGGGTCGGTT
1 AATATCAGATCGATTGATTTTAGGGTCGGTT
* * * * *
883693 AATATCAGATCGGTTAGATTTCAAGTTGGGTT
1 AATATCAGATCGATT-GATTTTAGGGTCGGTT
* *
883725 AATATCAGATCGATTGATTTTTGGGTCGAGAT
1 AATATCAGATCGATTGATTTTAGGGTCG-GTT
* * *
883757 AATATCAGATCGGTTAGA-TTTAGGTTGGGTT
1 AATATCAGATCGATT-GATTTTAGGGTCGGTT
*
883788 AATATCGGATCGATTGATTT
1 AATATCAGATCGATTGATTT
883808 CGATTTGGGA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
30 2 0.02
31 38 0.42
32 48 0.53
33 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (31 bp):
AATATCAGATCGATTGATTTTAGGGTCGGTT
Found at i:883705 original size:63 final size:63
Alignment explanation
Indices: 883614--883807 Score: 223
Period size: 63 Copynumber: 3.1 Consensus size: 63
883604 GGGTGGGTCA
* * *
883614 ATTTTTGGGTCAGGTGACTATCAGATCGGTT-GTTTTTC-AGTTCGGATCAATATCAAATCGATT
1 ATTTTTGGGTC-GGTTAATATCAGATCGGTTAG-ATTTCAAGTT-GGATCAATATCAAATCGATT
883677 G
63 G
* * *
883678 ATTTTTGGGTCGGTTAATATCAGATCGGTTAGATTTCAAGTTGGGTTAATATCAGATCGATTG
1 ATTTTTGGGTCGGTTAATATCAGATCGGTTAGATTTCAAGTTGGATCAATATCAAATCGATTG
* * * * **
883741 ATTTTTGGGTCGAGATAATATCAGATCGGTTAGATTT-AGGTTGGGTTAATATCGGATCGATTG
1 ATTTTTGGGTCG-GTTAATATCAGATCGGTTAGATTTCAAGTTGGATCAATATCAAATCGATTG
883804 ATTT
1 ATTT
883808 CGATTTGGGA
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
63 79 0.67
64 39 0.33
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (63 bp):
ATTTTTGGGTCGGTTAATATCAGATCGGTTAGATTTCAAGTTGGATCAATATCAAATCGATTG
Found at i:883707 original size:15 final size:15
Alignment explanation
Indices: 883687--883736 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
883677 GATTTTTGGG
883687 TCGGTTAATATCAGA
1 TCGGTTAATATCAGA
* *
883702 TCGGTTAGATTTCAAGT
1 TCGGTTA-ATATC-AGA
*
883719 TGGGTTAATATCAGA
1 TCGGTTAATATCAGA
883734 TCG
1 TCG
883737 ATTGATTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 11 0.41
16 8 0.30
17 8 0.30
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (15 bp):
TCGGTTAATATCAGA
Found at i:884053 original size:15 final size:16
Alignment explanation
Indices: 884021--884066 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
884011 TCTAAATTCA
* *
884021 GTTCAGGTTGTTTT-G
1 GTTCAGATTATTTTCG
884036 GTTCA-ATTATTTTCG
1 GTTCAGATTATTTTCG
*
884051 GTTCAGATTACTTTCG
1 GTTCAGATTATTTTCG
884067 ATTCGGGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 6 0.23
15 11 0.42
16 9 0.35
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.50
Consensus pattern (16 bp):
GTTCAGATTATTTTCG
Found at i:885395 original size:37 final size:37
Alignment explanation
Indices: 885338--885442 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
885328 AATTTTGTCT
*
885338 GTAGTACAAAGAATTTTGTATTGGGTATGACTTGTTG
1 GTAGTACAAAGAATTTTGTATTGGGTATGAATTGTTG
* *
885375 GTAGTACAAAGAAATCTGTATTGGGTATGAATTGTTG
1 GTAGTACAAAGAATTTTGTATTGGGTATGAATTGTTG
* *
885412 GTAGTACAAAGAATTTTGTATTAGATATGAA
1 GTAGTACAAAGAATTTTGTATTGGGTATGAA
885443 CCGTTTGGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (37 bp):
GTAGTACAAAGAATTTTGTATTGGGTATGAATTGTTG
Found at i:889625 original size:31 final size:32
Alignment explanation
Indices: 889569--889629 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
889559 ATGCTAGATA
*
889569 AAAATGTAAGAAATAAATAAATAAATAAAATT
1 AAAATGTAAGAAATAAACAAATAAATAAAATT
889601 AAAATG-AAGAAA-AAACAAATTAAATAAAA
1 AAAATGTAAGAAATAAACAAA-TAAATAAAA
889630 GATAAGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.22
31 15 0.56
32 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (32 bp):
AAAATGTAAGAAATAAACAAATAAATAAAATT
Found at i:889673 original size:23 final size:21
Alignment explanation
Indices: 889636--889739 Score: 66
Period size: 23 Copynumber: 4.6 Consensus size: 21
889626 AAAAGATAAG
* *
889636 ATAAAGAAAACAAAGATAAAAT
1 ATAAA-AAAATAAAGAAAAAAT
*
889658 AGTAACTAAAATAAAGAAAAAAT
1 A-TAA-AAAAATAAAGAAAAAAT
* *
889681 ATAAAAAAATAAAAAAAAGAAG
1 ATAAAAAAATAAAGAAAA-AAT
*
889703 A-AAAAATATATAAATAAAATAAT
1 ATAAAAA-A-ATAAAGAAAA-AAT
*
889726 AATAAAAAAGTAAA
1 -ATAAAAAAATAAA
889740 AATAATATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
21 17 0.26
22 8 0.12
23 33 0.51
24 2 0.03
25 5 0.08
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (21 bp):
ATAAAAAAATAAAGAAAAAAT
Found at i:889696 original size:19 final size:19
Alignment explanation
Indices: 889674--889748 Score: 51
Period size: 23 Copynumber: 3.5 Consensus size: 19
889664 TAAAATAAAG
889674 AAAAAATATAAAAAAATAA
1 AAAAAATATAAAAAAATAA
* *
889693 AAAAAAGAAGAAAAAATATATA
1 AAAAAA-TATAAAAAA-ATA-A
889715 AATAAAATAATAATAAAAAAGTAA
1 AA-AAAAT-AT-A-AAAAAA-TAA
*
889739 AAATAATATA
1 AAAAAATATA
889749 TATATATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
19 6 0.14
20 7 0.16
21 4 0.09
22 5 0.12
23 9 0.21
24 5 0.12
25 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (19 bp):
AAAAAATATAAAAAAATAA
Found at i:889706 original size:27 final size:26
Alignment explanation
Indices: 889664--889721 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
889654 AAATAGTAAC
* *
889664 TAAAATAAAGAAAAAATATAAAAAAA
1 TAAAAAAAAGAAAAAAAATAAAAAAA
* *
889690 TAAAAAAAAGAAGAAAAAATATATAAA
1 TAAAAAAAAGAA-AAAAAATAAAAAAA
889717 TAAAA
1 TAAAA
889722 TAATAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (26 bp):
TAAAAAAAAGAAAAAAAATAAAAAAA
Found at i:889706 original size:29 final size:31
Alignment explanation
Indices: 889651--889784 Score: 96
Period size: 34 Copynumber: 4.1 Consensus size: 31
889641 GAAAACAAAG
*
889651 ATAAAATAGTAACTAAAATAAAGAAAAAATATAA
1 ATAAAATAATAA-T-AAA-AAAGAAAAAATATAA
889685 A-AAAATAA-AA-AAAAGAAGAAAAAATATATAA
1 ATAAAATAATAATAAAA-AAG-AAAAA-ATATAA
* *
889716 ATAAAATAATAATAAAAAAGTAAAAATAATAT
1 ATAAAATAATAATAAAAAAGAAAAAAT-ATAA
* *
889748 ATATATATAATAAATAAAAACA-TAAAAATAGTAA
1 ATA-AAATAAT-AATAAAAA-AGAAAAAATA-TAA
889782 ATA
1 ATA
889785 TATATATAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 22
0.76 0.05 0.20
Matches are distributed among these distances:
28 1 0.01
29 6 0.07
30 5 0.06
31 9 0.11
32 19 0.23
33 18 0.21
34 25 0.30
35 1 0.01
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (31 bp):
ATAAAATAATAATAAAAAAGAAAAAATATAA
Found at i:889747 original size:36 final size:36
Alignment explanation
Indices: 889681--889777 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
889671 AAGAAAAAAT
* *
889681 ATAAAAAAATAA-AAAAAAG-AAGAAAAAATATATAA
1 ATAAAATAATAATAAAAAAGTAA-AAATAATATATAA
*
889716 ATAAAATAATAATAAAAAAGTAAAAATAATATATAT
1 ATAAAATAATAATAAAAAAGTAAAAATAATATATAA
*
889752 ATATAAT-A-AATAAAAACA-TAAAAATA
1 ATAAAATAATAATAAAAA-AGTAAAAATA
889778 GTAAATATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
34 16 0.29
35 13 0.24
36 24 0.44
37 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (36 bp):
ATAAAATAATAATAAAAAAGTAAAAATAATATATAA
Found at i:889748 original size:34 final size:34
Alignment explanation
Indices: 889674--889777 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
889664 TAAAATAAAG
*
889674 AAAA-AATATAAA-AAAATAA-AA-AAAAGAAGAA
1 AAAATAATATAAATAAAATAATAATAAAA-AAGTA
889705 AAAAT-ATATAAATAAAATAATAATAAAAAAGTA
1 AAAATAATATAAATAAAATAATAATAAAAAAGTA
* *
889738 AAAATAATATATAT-ATATAATAAATAAAAACA-TA
1 AAAATAATATAAATAAAATAAT-AATAAAAA-AGTA
889772 AAAATA
1 AAAATA
889778 GTAAATATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
31 11 0.17
32 7 0.11
33 17 0.27
34 27 0.43
35 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (34 bp):
AAAATAATATAAATAAAATAATAATAAAAAAGTA
Found at i:889750 original size:38 final size:40
Alignment explanation
Indices: 889681--889835 Score: 121
Period size: 40 Copynumber: 4.0 Consensus size: 40
889671 AAGAAAAAAT
*
889681 ATAAAAAAATAA-AAAAAAG-AAGAAA-A-A-ATATATAA
1 ATAAAATAATAATAAAAAAGTAAGAAATATATATATATAA
889716 ATAAAATAATAATAAAAAAGTAA-AAATAATATATATATATA
1 ATAAAATAATAATAAAAAAGTAAGAAAT-ATATATATATA-A
* * * *
889757 AT-AAATAAAAACATAAAAATAGTAA-ATATATATATAAATTA
1 ATAAAAT-AATA-ATAAAAA-AGTAAGAAATATATATATATAA
* * *
889798 ATAAAACAGATAATAAAAAA-TAATATATATATATATAT
1 ATAAAATA-ATAATAAAAAAGTAAGAAATATATATATAT
889836 CTATCTAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 21
0.77 0.06 0.16
Matches are distributed among these distances:
35 11 0.11
36 10 0.10
37 2 0.02
38 1 0.01
39 4 0.04
40 25 0.25
41 17 0.17
42 21 0.21
43 8 0.08
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (40 bp):
ATAAAATAATAATAAAAAAGTAAGAAATATATATATATAA
Found at i:889754 original size:42 final size:39
Alignment explanation
Indices: 889708--889835 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 39
889698 AGAAGAAAAA
889708 ATATATA-AATAAAATAATAATAAAAAAGTAAAAATAATAT
1 ATATATATAATAAAATAATAATAAAAAAGT-AAAAT-ATAT
*
889748 ATATATATAAT-AAATAAAAACATAAAAATAGT-AAATATAT
1 ATATATATAATAAAAT-AATA-ATAAAAA-AGTAAAATATAT
* * *
889788 ATATAAATTAATAAAACAGATAATAAAAAA-TAATATATAT
1 ATATATA-TAATAAAATA-ATAATAAAAAAGTAAAATATAT
889828 ATATATAT
1 ATATATAT
889836 CTATCTAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
39 2 0.03
40 35 0.47
41 22 0.30
42 12 0.16
43 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (39 bp):
ATATATATAATAAAATAATAATAAAAAAGTAAAATATAT
Found at i:889786 original size:34 final size:34
Alignment explanation
Indices: 889688--889795 Score: 116
Period size: 34 Copynumber: 3.2 Consensus size: 34
889678 AATATAAAAA
* * *
889688 AATAAAAAAAAGAAGAAAAAATATATAAATA-AAAT
1 AATAAATAAAA-AAGTAAAAATA-ATAAATATATAT
*
889723 AAT-AATAAAAAAGTAAAAATAATATATATATAT
1 AATAAATAAAAAAGTAAAAATAATAAATATATAT
*
889756 AATAAATAAAAACA-TAAAAATAGTAAATATATAT
1 AATAAATAAAAA-AGTAAAAATAATAAATATATAT
889790 -ATAAAT
1 AATAAAT
889796 TAATAAAACA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.09
33 22 0.34
34 32 0.50
35 4 0.06
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (34 bp):
AATAAATAAAAAAGTAAAAATAATAAATATATAT
Found at i:889786 original size:36 final size:33
Alignment explanation
Indices: 889704--889832 Score: 102
Period size: 34 Copynumber: 3.6 Consensus size: 33
889694 AAAAAGAAGA
*
889704 AAAAATATATAA-ATA-AAATAATAATAAAAAAGT
1 AAAAATATA-AATATATATATAATAATAAAAAA-T
*
889737 AAAAATA-ATATATATATATAATAAATAAAAACAT
1 AAAAATATAAATATATATATAAT-AATAAAAA-AT
889771 AAAAATAGTAAATATATATATAAATTAATAAAACAGAT
1 AAAAATA-TAAATATATATAT-AA-TAATAAAA-A-AT
*
889809 AATAAAAAATAATATATATATATA
1 -A-AAAATATAA-ATATATATATA
889833 TATCTATCTA
Statistics
Matches: 79, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
31 1 0.01
32 4 0.05
33 13 0.16
34 16 0.20
35 1 0.01
36 11 0.14
37 9 0.11
38 4 0.05
39 5 0.06
40 15 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (33 bp):
AAAAATATAAATATATATATAATAATAAAAAAT
Found at i:890439 original size:37 final size:37
Alignment explanation
Indices: 890389--890498 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
890379 GCTTATGAAA
*
890389 CCTATTTTTAGGAGTTTGAATCATAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
*
890426 CCTATTTTTAGGAGTTTAAATCCTAGTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
* *
890463 ACTATTTTTAGGAGTTTGAATCCTACTAAAACTCTA
1 CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
890499 ACATTTGTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTAT
Found at i:891185 original size:84 final size:84
Alignment explanation
Indices: 891051--891257 Score: 281
Period size: 84 Copynumber: 2.5 Consensus size: 84
891041 ATTTGCCTCT
* * * *
891051 GAGCTGAGTGTAATCGAACT-AGAAGGTCTTTGGTTGGCAGATAGCTCTTCTCGACTTAAGCTAT
1 GAGCTGAGCGTAGTCGAACTCA-AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTAT
* *
891115 GCTGCAAATGATGTGCCTTG
65 GATGCAAATGATGGGCCTTG
* *
891135 GAGCTGAGCGTAGTCGAACTCAAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
891200 ATGCAAATGATGGGCCTTG
66 ATGCAAATGATGGGCCTTG
* * * * *
891219 GAGCTGAGCATAGTCAAACTCGAAGGCCTTTGGTGGGCA
1 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCA
891258 CGATTCCCTT
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 107 0.99
85 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (84 bp):
GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
ATGCAAATGATGGGCCTTG
Found at i:891578 original size:110 final size:110
Alignment explanation
Indices: 891358--892011 Score: 1086
Period size: 110 Copynumber: 6.0 Consensus size: 110
891348 ATCCAAATAT
* * * *
891358 TTGTGTTGTTTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * * *
891419 ATTTGTTTGTTGACAGCCAGCCGCCCCTTTGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
891464 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
*
891529 AGTTGTTTGTTGACAGTAAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* *
891574 TTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAAATGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
891639 AGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTATGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
**
891684 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA--CTGAATGAAACTTCAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
891747 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
*
891792 TTGTGTTGTCTCGAGTCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
*
891857 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
*
891902 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGCAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
891967 AGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTGTAAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
892012 AACCACTAAC
Statistics
Matches: 513, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
106 47 0.09
108 102 0.20
110 364 0.71
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (110 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:891812 original size:218 final size:219
Alignment explanation
Indices: 891358--892011 Score: 1084
Period size: 218 Copynumber: 3.0 Consensus size: 219
891348 ATCCAAATAT
* * * *
891358 TTGTGTTGTTTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * * *
891419 ATTTGTTTGTTGACAGCCAGCCGCCCCTTTGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
* *
891484 TATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTAAG
131 TATCCTTCGCTGTGAAGTTGAAATTGAC-CTGAATGAAACTGCAAAGTTGTTTGTTGACAGTCAG
891549 TCGCCCCTTCGCTGTGAAGTTGAGC
195 TCGCCCCTTCGCTGTGAAGTTGAGC
* *
891574 TTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAAATGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
891639 AGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
*
891704 TATCCTTCGCTGTGAAGTTGAAATTGA-CTGAATGAAACTTCAAAGTTGTTTGTTGACAGTCAGT
131 TATCCTTCGCTGTGAAGTTGAAATTGACCTGAATGAAACTGCAAAGTTGTTTGTTGACAGTCAGT
891768 CGCCCCTTCGCTGTGAAGTTGAGC
196 CGCCCCTTCGCTGTGAAGTTGAGC
*
891792 TTGTGTTGTCTCGAGTCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
*
891857 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
*
891922 TATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGCAAAGTTATTTGTTGACAGTCAG
131 TATCCTTCGCTGTGAAGTTGAAATTGAC-CTGAATGAAACTGCAAAGTTGTTTGTTGACAGTCAG
*
891987 TCGCCCCTTCGCTGTAAAGTTGAGC
195 TCGCCCCTTCGCTGTGAAGTTGAGC
892012 AACCACTAAC
Statistics
Matches: 408, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
216 46 0.11
218 209 0.51
220 153 0.38
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (219 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
TATCCTTCGCTGTGAAGTTGAAATTGACCTGAATGAAACTGCAAAGTTGTTTGTTGACAGTCAGT
CGCCCCTTCGCTGTGAAGTTGAGC
Found at i:891953 original size:328 final size:326
Alignment explanation
Indices: 891358--892011 Score: 1128
Period size: 328 Copynumber: 2.0 Consensus size: 326
891348 ATCCAAATAT
* * * *
891358 TTGTGTTGTTTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTGGAAATTT
1 TTGTGTTGTCTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTATGAAACTGCAAAGTT
* *
891423 GTTTGTTGACAGCCAGCCGCCCCTTTGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATC
66 GTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATA
*
891488 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTAAGTCGC
131 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTAAGTCAC
891553 CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
196 CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
*
891618 TGACTCTGAATGAAAATGAAAAGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTATGAAGTTGAG
261 TGACTCTGAATGAAAATGAAAAGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTATAAAGTTGAG
891683 C
326 C
* * *
891684 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTGAATGAAACTTCAAAG
1 TTGTGTTGTCTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACT--ATGAAACTGCAAAG
* *
891749 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
64 TTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
*
891814 TACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTC
129 TACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTAAGTC
*
891879 ACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAA
194 ACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAA
* * *
891944 ATTGACTCTGAATGAAACTGCAAAGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTGTAAAGTTG
259 ATTGACTCTGAATGAAAATGAAAAGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTATAAAGTTG
892009 AGC
324 AGC
892012 AACCACTAAC
Statistics
Matches: 308, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
326 46 0.15
328 262 0.85
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (326 bp):
TTGTGTTGTCTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTATGAAACTGCAAAGTT
GTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATA
CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTAAGTCAC
CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAAT
TGACTCTGAATGAAAATGAAAAGTTATTTGTTGACAGTCAGTCGCCCCTTCGCTATAAAGTTGAG
C
Found at i:892287 original size:32 final size:32
Alignment explanation
Indices: 892246--892337 Score: 132
Period size: 31 Copynumber: 2.9 Consensus size: 32
892236 TTCACATCAG
**
892246 GATGTTGAATCCCCAAAGATGCCCCAATATTT
1 GATGTTGAATCTTCAAAGATGCCCCAATATTT
* *
892278 GATGTTGAATCTTCAAAAATG-CCCAACATTT
1 GATGTTGAATCTTCAAAGATGCCCCAATATTT
892309 GATGTTGAATCTTCAAAGATGCCCTCAAT
1 GATGTTGAATCTTCAAAGATGCCC-CAAT
892338 GTTCCTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 29 0.56
32 20 0.38
33 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTTCAAAGATGCCCCAATATTT
Found at i:893370 original size:16 final size:15
Alignment explanation
Indices: 893345--893410 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
893335 ATACATCTTG
893345 TTTTCTTTTTTCTTTA
1 TTTT-TTTTTTCTTTA
*
893361 TTTTTGTTTTT-TTTC
1 TTTTT-TTTTTCTTTA
893376 TTTTTTATTTTCTTT-
1 TTTTTT-TTTTCTTTA
** *
893391 TTGCTTTTTTCTTTG
1 TTTTTTTTTTCTTTA
893406 TTTTT
1 TTTTT
893411 CTCTTTTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 9 0.22
15 20 0.49
16 12 0.29
ACGTcount: A:0.03, C:0.09, G:0.05, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTCTTTA
Found at i:893388 original size:12 final size:12
Alignment explanation
Indices: 893345--893433 Score: 63
Period size: 12 Copynumber: 6.9 Consensus size: 12
893335 ATACATCTTG
893345 TTTTCTTTTTTC
1 TTTTCTTTTTTC
* *
893357 TTTATTTTTGTTTT
1 TTT-TCTTT-TTTC
*
893371 TTTTCTTTTTTA
1 TTTTCTTTTTTC
*
893383 TTTTCTTTTTGCTT
1 TTTTCTTTTT--TC
893397 TTTTCTTTGTTT-
1 TTTTCTTT-TTTC
*
893409 TTCTCTTTTTTC
1 TTTTCTTTTTTC
893421 TTCTTCTCTTTTT
1 TT-TTCT-TTTTT
893434 GTTCTTGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
11 3 0.05
12 25 0.40
13 12 0.19
14 20 0.32
15 2 0.03
ACGTcount: A:0.02, C:0.13, G:0.03, T:0.81
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:893410 original size:38 final size:38
Alignment explanation
Indices: 893345--893419 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
893335 ATACATCTTG
* *
893345 TTTTCTTTTTTCTTTATTTTTGTTTTTTTTCTTTTTTA
1 TTTTCTTTTTGCTTTATTTTTGTTTTTTCTCTTTTTTA
*
893383 TTTTCTTTTTGCTTTTTTCTTTG-TTTTTCTCTTTTTT
1 TTTTCTTTTTGCTTTATT-TTTGTTTTTTCTCTTTTTT
893420 CTTCTTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 29 0.88
39 4 0.12
ACGTcount: A:0.03, C:0.11, G:0.04, T:0.83
Consensus pattern (38 bp):
TTTTCTTTTTGCTTTATTTTTGTTTTTTCTCTTTTTTA
Found at i:893415 original size:26 final size:26
Alignment explanation
Indices: 893345--893433 Score: 83
Period size: 26 Copynumber: 3.4 Consensus size: 26
893335 ATACATCTTG
* * *
893345 TTTTCTTTTTTCTT-TATTTTTGTTTT
1 TTTTCTTTTTTATTCTCTTTTTG-CTT
*
893371 TTTTCTTTTTTATTTTCTTTTTGCTT
1 TTTTCTTTTTTATTCTCTTTTTGCTT
*
893397 TTTTCTTTGTTT-TTCTCTTTTTTCTT
1 TTTTCTTT-TTTATTCTCTTTTTGCTT
*
893423 CTTCTCTTTTT
1 -TTTTCTTTTT
893434 GTTCTTGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 37 0.69
27 17 0.31
ACGTcount: A:0.02, C:0.13, G:0.03, T:0.81
Consensus pattern (26 bp):
TTTTCTTTTTTATTCTCTTTTTGCTT
Found at i:893420 original size:19 final size:18
Alignment explanation
Indices: 893350--893422 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
893340 TCTTGTTTTC
*
893350 TTTTTTCTTTATTT-TTGTT
1 TTTTTTCTTT-TTTCTT-TG
*
893369 TTTTTTCTTTTTTATTT-
1 TTTTTTCTTTTTTCTTTG
893386 TCTTTTTGCTTTTTTCTTTG
1 T-TTTTT-CTTTTTTCTTTG
893406 TTTTTCTCTTTTTTCTT
1 TTTTT-TCTTTTTTCTT
893423 CTTCTCTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
17 1 0.02
18 9 0.19
19 36 0.75
20 2 0.04
ACGTcount: A:0.03, C:0.11, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTTTG
Found at i:893438 original size:14 final size:15
Alignment explanation
Indices: 893402--893439 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
893392 TGCTTTTTTC
*
893402 TTTGTTTTTCTCTTT
1 TTTGTTCTTCTCTTT
*
893417 TTTCTTCTTCTC-TT
1 TTTGTTCTTCTCTTT
893431 TTTGTTCTT
1 TTTGTTCTT
893440 GATTGGATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTGTTCTTCTCTTT
Found at i:896378 original size:3 final size:3
Alignment explanation
Indices: 896370--896396 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
896360 AAGGTATTAG
896370 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
896397 GAGGAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:899741 original size:82 final size:82
Alignment explanation
Indices: 899632--899785 Score: 195
Period size: 82 Copynumber: 1.9 Consensus size: 82
899622 GAACCCACCT
* * * * * * *
899632 TCTTTTTCTTTTGTTCTTTTTCTCTTTTTTTTTTTTTTTAATTTAGGGCACCCTTTCGGGTTTTC
1 TCTTTTTCTTTTGTTCTTTTTCTCTTTTTTTCTTTCTTCAACTTAAGACACCCTTTCAGGTTTTC
899697 ACCCTAAACGTTTTTTC
66 ACCCTAAACGTTTTTTC
*
899714 TCTTTTCTCTTTT-TTGTTTTT-TGCTTTTTTTCTTTCTTCAACTTAAGACACCCTTTCAGGTTT
1 TCTTTT-TCTTTTGTTCTTTTTCT-CTTTTTTTCTTTCTTCAACTTAAGACACCCTTTCAGGTTT
*
899777 TCATCCTAA
64 TCACCCTAA
899786 GCGAAGTACT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
81 1 0.02
82 54 0.89
83 6 0.10
ACGTcount: A:0.12, C:0.21, G:0.08, T:0.59
Consensus pattern (82 bp):
TCTTTTTCTTTTGTTCTTTTTCTCTTTTTTTCTTTCTTCAACTTAAGACACCCTTTCAGGTTTTC
ACCCTAAACGTTTTTTC
Found at i:901058 original size:18 final size:18
Alignment explanation
Indices: 901017--901061 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
901007 ATGTAAGAAA
*
901017 TAAATAAATAAATAAAAT
1 TAAATAAATAAAAAAAAT
901035 TAAAATAAGA-AAAAAAAAT
1 T-AAATAA-ATAAAAAAAAT
901054 TAAATAAA
1 TAAATAAA
901062 AGATAAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 15 0.62
20 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
TAAATAAATAAAAAAAAT
Found at i:901171 original size:41 final size:41
Alignment explanation
Indices: 901126--901204 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
901116 AAAAATAAAG
901126 AAAAAGAAGAAAAATATATATAA-AAAAATAATAAAAAAGGT
1 AAAAAGAAGAAAAATATATATAATAAAAA-AATAAAAAAGGT
* * * * *
901167 AAAAATAATATATATATATATAATAAAAACATAAAAAA
1 AAAAAGAAGAAAAATATATATAATAAAAAAATAAAAAA
901205 TATTAAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 27 0.84
42 5 0.16
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (41 bp):
AAAAAGAAGAAAAATATATATAATAAAAAAATAAAAAAGGT
Found at i:901190 original size:33 final size:32
Alignment explanation
Indices: 901098--901283 Score: 119
Period size: 33 Copynumber: 5.5 Consensus size: 32
901088 AATAGTAAGT
* * *
901098 AAAATAAAAA-AA-ATATAAAAAAATAAAGAAA
1 AAAATAAAAATAATATATATATAAAT-AATAAA
* * *
901129 AAGAAGAAAAAT-ATATATAAAAAAATAATAAA
1 AA-AATAAAAATAATATATATATAAATAATAAA
* *
901161 AAAGGTAAAAATAATATATATATATATAATAAA
1 AAA-ATAAAAATAATATATATATAAATAATAAA
*
901194 AACATAAAAAATATTAAATATATATATAAATTAATAAA
1 AA-A-ATAAAA-A-T-AATATATATATAAA-TAATAAA
* * *
901232 ACAAATAATAAAAAATAATATATATATATAATCTAA
1 A-AAATAA-AAATAAT-ATATATATAAATAAT-AAA
901268 AAAATAAAAAT-ATATA
1 AAAATAAAAATAATATA
901284 AAGTAAAAAG
Statistics
Matches: 125, Mismatches: 16, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
31 3 0.02
32 24 0.19
33 33 0.26
34 8 0.06
35 14 0.11
36 14 0.11
37 17 0.14
38 11 0.09
39 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (32 bp):
AAAATAAAAATAATATATATATAAATAATAAA
Found at i:901215 original size:35 final size:33
Alignment explanation
Indices: 901153--901282 Score: 104
Period size: 35 Copynumber: 3.6 Consensus size: 33
901143 ATATAAAAAA
*
901153 ATAATAAAAAAGGT-AAAAATAAT-ATATATATAT
1 ATAATAAAAAA--TAAAAAATATTAATATATATAT
901186 ATAATAAAAACATAAAAAATATTAAATATATATAT
1 ATAATAAAAA-ATAAAAAATATT-AATATATATAT
*
901221 AAATTAATAAAACAAATAATAAAA-AATAATATATATAT
1 --A-TAAT-AAA-AAATAA-AAAATATTAATATATATAT
901259 ATAATCTAAAAAATAAAAATATAT
1 ATAA--TAAAAAATAAAAA-ATAT
901283 AAAGTAAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 25
0.74 0.03 0.23
Matches are distributed among these distances:
32 1 0.01
33 18 0.22
34 4 0.05
35 20 0.25
36 5 0.06
37 2 0.03
38 15 0.19
39 9 0.11
40 6 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (33 bp):
ATAATAAAAAATAAAAAATATTAATATATATAT
Found at i:901219 original size:41 final size:40
Alignment explanation
Indices: 901139--901261 Score: 123
Period size: 41 Copynumber: 3.1 Consensus size: 40
901129 AAGAAGAAAA
*
901139 ATATATATAA-AAAAATAATAAAAAAGGTAAAAATA-ATATAT
1 ATATATATAATAAAAA-AATAAAAAA--TATAAATATATATAT
*
901180 ATATATATAATAAAAACATAAAAAATATTAAATATATATAT
1 ATATATATAATAAAAAAATAAAAAATA-TAAATATATATAT
*
901221 A-A-AT-TAATAAAACAAATAATAAAAAAT-AATATATATAT
1 ATATATATAATAAAA-AAATAA-AAAATATAAATATATATAT
901259 ATA
1 ATA
901262 ATCTAAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
38 20 0.28
39 11 0.15
40 11 0.15
41 25 0.35
42 5 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (40 bp):
ATATATATAATAAAAAAATAAAAAATATAAATATATATAT
Found at i:901285 original size:42 final size:43
Alignment explanation
Indices: 901188--901285 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 43
901178 ATATATATAT
* *
901188 AATAAAAACATA-AAAAATATTAAATATATATATAAATTAATA
1 AATAAAAATATATAAAAATATTAAATATATATATAAATTAAAA
*
901230 AA-ACAAATA-ATAAAAA-A-T-AATATATATATATAATCTAAAA
1 AATAAAAATATATAAAAATATTAAATATATATATA-AAT-TAAAA
901270 AATAAAAATATATAAA
1 AATAAAAATATATAAA
901286 GTAAAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
38 12 0.26
39 4 0.09
40 8 0.17
41 16 0.34
42 7 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (43 bp):
AATAAAAATATATAAAAATATTAAATATATATATAAATTAAAA
Found at i:901290 original size:22 final size:25
Alignment explanation
Indices: 901240--901292 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 25
901230 AAACAAATAA
*
901240 TAAAAAATAATATATATATATAATC
1 TAAAAAATAATATATATATATAAAC
*
901265 TAAAAAATAA-A-A-ATATATAAAG
1 TAAAAAATAATATATATATATAAAC
901287 TAAAAA
1 TAAAAA
901293 GAAAATGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 1 0.04
24 1 0.04
25 10 0.38
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
TAAAAAATAATATATATATATAAAC
Found at i:901910 original size:37 final size:37
Alignment explanation
Indices: 901803--901912 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
901793 GTTTATAGAA
* *
901803 CCTATTTTTAAGAGTTTGAATCATAGTAAAACT-TCAT
1 CCTATTTTTAGGAGTTTGAATCATACTAAAACTCT-AT
*
901840 CCTATTTTTAGGAGTTTGAATCCTACTAAAACTCTAT
1 CCTATTTTTAGGAGTTTGAATCATACTAAAACTCTAT
*
901877 CCTATTTTTAGGAGTTTGAATCGTACTAAAACTCTA
1 CCTATTTTTAGGAGTTTGAATCATACTAAAACTCTA
901913 ACGTTTGTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 67 0.99
38 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCATACTAAAACTCTAT
Found at i:904472 original size:29 final size:30
Alignment explanation
Indices: 904423--904527 Score: 117
Period size: 29 Copynumber: 3.5 Consensus size: 30
904413 ATTGGTAATG
*
904423 AACCGGCTGAAAATCGG-TAGAACCGGCTGAA
1 AACCGG-T-AAAACCGGATAGAACCGGCTGAA
*
904454 AACCGGTAGAACC-GATAGAACCGGCTGAA
1 AACCGGTAAAACCGGATAGAACCGGCTGAA
* *
904483 AACCTGTAAAACCGGGGT-GAACCGGCTGAA
1 AACCGGTAAAACC-GGATAGAACCGGCTGAA
*
904513 AACCGGCAAAACCGG
1 AACCGGTAAAACCGG
904528 TTTGAACTGG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
28 1 0.02
29 31 0.48
30 24 0.38
31 8 0.12
ACGTcount: A:0.36, C:0.25, G:0.29, T:0.10
Consensus pattern (30 bp):
AACCGGTAAAACCGGATAGAACCGGCTGAA
Found at i:904486 original size:20 final size:20
Alignment explanation
Indices: 904422--904467 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
904412 GATTGGTAAT
*
904422 GAACCGGCTGAAAATCGGTA
1 GAACCGGCTGAAAACCGGTA
904442 GAACCGGCTGAAAACCGGTA
1 GAACCGGCTGAAAACCGGTA
904462 GAACCG
1 GAACCG
904468 ATAGAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.30, T:0.11
Consensus pattern (20 bp):
GAACCGGCTGAAAACCGGTA
Found at i:904527 original size:20 final size:20
Alignment explanation
Indices: 904422--904527 Score: 67
Period size: 20 Copynumber: 5.3 Consensus size: 20
904412 GATTGGTAAT
* *
904422 GAACCGGCTGAAAATCGGTA
1 GAACCGGCTGAAAACCGGCA
*
904442 GAACCGGCTGAAAACCGGTA
1 GAACCGGCTGAAAACCGGCA
* * *
904462 GAACC-GAT-AGAACCGGCT
1 GAACCGGCTGAAAACCGGCA
* **
904480 GAAAAC--CTGTAAAACCGGGGT
1 G-AACCGGCTG-AAAACC-GGCA
904501 GAACCGGCTGAAAACCGGCA
1 GAACCGGCTGAAAACCGGCA
*
904521 AAACCGG
1 GAACCGG
904528 TTTGAACTGG
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
18 9 0.13
19 5 0.07
20 40 0.60
21 10 0.15
22 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.29, T:0.10
Consensus pattern (20 bp):
GAACCGGCTGAAAACCGGCA
Found at i:904534 original size:30 final size:30
Alignment explanation
Indices: 904442--904534 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
904432 AAAATCGGTA
* *
904442 GAACCGGCTGAAAACCGGTAGAACC-GATA
1 GAACCGGCTGAAAACCGGTAAAACCGGATT
* **
904471 GAACCGGCTGAAAACCTGTAAAACCGGGGT
1 GAACCGGCTGAAAACCGGTAAAACCGGATT
* *
904501 GAACCGGCTGAAAACCGGCAAAACCGGTTT
1 GAACCGGCTGAAAACCGGTAAAACCGGATT
904531 GAAC
1 GAAC
904535 TGGTGATTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 23 0.43
30 31 0.57
ACGTcount: A:0.35, C:0.25, G:0.28, T:0.12
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGGTAAAACCGGATT
Found at i:905438 original size:6 final size:7
Alignment explanation
Indices: 905419--905449 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
905409 TTTAATTACG
905419 AAAATTT
1 AAAATTT
905426 AAAATTT
1 AAAATTT
905433 -AAATTT
1 AAAATTT
905439 AAAATTT
1 AAAATTT
905446 AAAA
1 AAAA
905450 ACCTGATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:905438 original size:13 final size:13
Alignment explanation
Indices: 905420--905448 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
905410 TTAATTACGA
905420 AAATTTAAAATTT
1 AAATTTAAAATTT
905433 AAATTTAAAATTT
1 AAATTTAAAATTT
905446 AAA
1 AAA
905449 AACCTGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:907618 original size:65 final size:64
Alignment explanation
Indices: 907499--907671 Score: 269
Period size: 65 Copynumber: 2.7 Consensus size: 64
907489 AGATTTTCTC
* * * *
907499 CAAGGGAAACTATCTCAAGAGAGACAAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 CAAGAGAAACTGTCTCAAGGGAGACAAAA-TTCATTTCAAGGGAAATGCTTTCAATGTTTATG-T
907564 T
64 T
907565 CAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTT
1 CAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTT
*
907629 C-AGAGAAACTG-CTCAAGGGAGACAAAATTTATTTCAAGGGAAA
1 CAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAA
907672 CTGTCTCAAG
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
62 31 0.30
63 10 0.10
64 3 0.03
65 32 0.31
66 26 0.25
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (64 bp):
CAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAATGCTTTCAATGTTTATGTT
Found at i:908126 original size:34 final size:34
Alignment explanation
Indices: 908084--908169 Score: 172
Period size: 34 Copynumber: 2.5 Consensus size: 34
908074 GTGGATGGCC
908084 CCTTCGTCGTGAAGTTGAGCCTTGACTTGAATAT
1 CCTTCGTCGTGAAGTTGAGCCTTGACTTGAATAT
908118 CCTTCGTCGTGAAGTTGAGCCTTGACTTGAATAT
1 CCTTCGTCGTGAAGTTGAGCCTTGACTTGAATAT
908152 CCTTCGTCGTGAAGTTGA
1 CCTTCGTCGTGAAGTTGA
908170 AATTCAAGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (34 bp):
CCTTCGTCGTGAAGTTGAGCCTTGACTTGAATAT
Found at i:908753 original size:33 final size:33
Alignment explanation
Indices: 908677--908751 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
908667 TGAATCCCCG
* *
908677 AAGATGCCCCAATATTCGATGTTGAATCTCCAA
1 AAGATGCCCCAACATTCGATGTTGAATATCCAA
* * * *
908710 AAAATGCCCCAACATTTGGTGTTGAATATTC-A
1 AAGATGCCCCAACATTCGATGTTGAATATCCAA
908742 AAGATGCCCC
1 AAGATGCCCC
908752 CATTGTTCCT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
32 10 0.29
33 25 0.71
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (33 bp):
AAGATGCCCCAACATTCGATGTTGAATATCCAA
Found at i:909856 original size:28 final size:28
Alignment explanation
Indices: 909803--909873 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
909793 TGTCTTGTCT
*
909803 TTTTTCTTTTTTTTTGTTTTCTCTTTGC
1 TTTTCCTTTTTTTTTGTTTTCTCTTTGC
909831 TTTTCCTTTGTTTTTCT-TTTTC-CTTTG-
1 TTTTCCTTT-TTTTT-TGTTTTCTCTTTGC
909858 TTTT--TTTTCTTTTTGT
1 TTTTCCTTTT-TTTTTGT
909874 CTTGATTGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
27 4 0.11
28 13 0.34
29 10 0.26
30 1 0.03
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (28 bp):
TTTTCCTTTTTTTTTGTTTTCTCTTTGC
Found at i:912750 original size:6 final size:7
Alignment explanation
Indices: 912731--912761 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
912721 TTTAATTGCG
912731 AAAATTT
1 AAAATTT
912738 AAAATTT
1 AAAATTT
912745 -AAATTT
1 AAAATTT
912751 AAAATTT
1 AAAATTT
912758 AAAA
1 AAAA
912762 AACCTGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Done.