Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008778.1 Hibiscus syriacus cultivar Beakdansim tig00111903_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: 61935
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:703 original size:30 final size:29
Alignment explanation
Indices: 651--711 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
641 GAGTTAGACA
* *
651 CAAATAATTTCAGTCCAGTATTATTCGAGT
1 CAAATAATTTCAATCCAATATTATT-GAGT
**
681 CAAATAATTTCAATTTAATATTATTGAGT
1 CAAATAATTTCAATCCAATATTATTGAGT
710 CA
1 CA
712 TTTTTTTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (29 bp):
CAAATAATTTCAATCCAATATTATTGAGT
Found at i:10921 original size:17 final size:17
Alignment explanation
Indices: 10899--10939 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
10889 TATAATAAAC
*
10899 TTATGATAATTAACTTA
1 TTATGATAATTAAATTA
10916 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
10933 ATATGAT
1 TTATGAT
10940 TATTTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:13464 original size:13 final size:12
Alignment explanation
Indices: 13429--13562 Score: 58
Period size: 12 Copynumber: 10.2 Consensus size: 12
13419 AATAAACTAC
13429 TTATAATTAATA
1 TTATAATTAATA
13441 TTAAAATAATTATATA
1 TT---ATAATTA-ATA
13457 TTATAATTAATA
1 TTATAATTAATA
*
13469 TTAATATAATTAATT
1 -T--TATAATTAATA
13484 TTA-ATATTAAATTA
1 TTATA-ATT-AA-TA
*
13498 TTATAATATAGT-
1 TTATAAT-TAATA
**
13510 TTATAATTTGTAA
1 TTATAATTAAT-A
*
13523 TTAAAATTAATA
1 TTATAATTAATA
*
13535 -TAAAATATAATA
1 TTATAAT-TAATA
*
13547 TATAAAATTAATA
1 T-TATAATTAATA
13560 TTA
1 TTA
13563 ATATAAACTA
Statistics
Matches: 98, Mismatches: 7, Indels: 34
0.71 0.05 0.24
Matches are distributed among these distances:
11 10 0.10
12 25 0.26
13 25 0.26
14 14 0.14
15 19 0.19
16 5 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:13488 original size:15 final size:15
Alignment explanation
Indices: 13430--13568 Score: 94
Period size: 15 Copynumber: 9.3 Consensus size: 15
13420 ATAAACTACT
13430 TATAATTAATATTAA
1 TATAATTAATATTAA
* *
13445 AATAATT-ATA-TAT
1 TATAATTAATATTAA
13458 TATAATTAATATTAA
1 TATAATTAATATTAA
*
13473 TATAATTAATTTTAA
1 TATAATTAATATTAA
*
13488 TATTAAATTATTA-TAA
1 TA-T-AATTAATATTAA
* *
13504 TATAGTTTATAATT--
1 TATAATTAAT-ATTAA
* *
13518 TGTAATTAAAATTAA
1 TATAATTAATATTAA
13533 TATAA--AATATAATATA
1 TATAATTAATAT--TA-A
*
13549 TAAAATTAATATTAA
1 TATAATTAATATTAA
13564 TATAA
1 TATAA
13569 ACTATATGTT
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
13 15 0.16
14 16 0.17
15 37 0.40
16 14 0.15
17 6 0.06
18 5 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
TATAATTAATATTAA
Found at i:13551 original size:14 final size:13
Alignment explanation
Indices: 13524--13560 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13514 AATTTGTAAT
13524 TAAAATT-A-ATA
1 TAAAATTAATATA
13535 TAAAATATAATATA
1 TAAAAT-TAATATA
13549 TAAAATTAATAT
1 TAAAATTAATAT
13561 TAATATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 1 0.04
13 7 0.30
14 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATTAATATA
Found at i:13563 original size:31 final size:30
Alignment explanation
Indices: 13433--13574 Score: 105
Period size: 31 Copynumber: 4.8 Consensus size: 30
13423 AACTACTTAT
* * *
13433 AATTAATATTAAAAT-AATTAT-ATATTAT
1 AATTAATATTAATATAAAATATAATATTAA
*
13461 AATTAATATTAATATAATTAATTTTAATATT-A
1 AATTAATATTAATATAA--AA-TATAATATTAA
* *** **
13493 AATTATTA-TAATATAGTTTATAAT-TTGT
1 AATTAATATTAATATAAAATATAATATTAA
*
13521 AATTAAAATTAATATAAAATATAATATATAA
1 AATTAATATTAATATAAAATATAATAT-TAA
*
13552 AATTAATATTAATATAAACTATA
1 AATTAATATTAATATAAAATATA
13575 TGTTATAAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
27 2 0.02
28 25 0.29
29 14 0.16
30 1 0.01
31 30 0.35
32 9 0.10
33 5 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATAATATTAA
Found at i:13565 original size:60 final size:59
Alignment explanation
Indices: 13433--13582 Score: 146
Period size: 60 Copynumber: 2.5 Consensus size: 59
13423 AACTACTTAT
* * *
13433 AATTAATATTAAAATAATTATATATTATAATTAATATTAATATAATTAATTTTAATATTA
1 AATTAATATTAATATAATTATATATTATAATTAAAATTAATATAA-TAATTATAATATTA
* * *
13493 AATTATTA-TAATATAGTT-TATAATTTGTAATTAAAATTAATATAA-AA-TATAATATATAA
1 AATTAATATTAATATAATTATAT-A-TTATAATTAAAATTAATATAATAATTATAATAT-T-A
* *
13552 AATTAATATTAATATAAACTATATGTTATAA
1 AATTAATATTAATAT-AATTATATATTATAA
13583 ATTATATAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
57 7 0.10
58 6 0.08
59 17 0.24
60 37 0.51
61 2 0.03
62 3 0.04
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (59 bp):
AATTAATATTAATATAATTATATATTATAATTAAAATTAATATAATAATTATAATATTA
Found at i:13582 original size:31 final size:30
Alignment explanation
Indices: 13521--13705 Score: 117
Period size: 31 Copynumber: 5.8 Consensus size: 30
13511 TATAATTTGT
* * *
13521 AATTAAAATTAATATAAAATATAATATATAA
1 AATTAATATTAATATAAACTATAGT-TATAA
13552 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAACTATA-GTTATAA
* *
13582 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAACTATAGTT-ATAA
* *
13618 AATTACTATTAATAT--AGTATAGTTTATAA
1 AATTAATATTAATATAAACTATAG-TTATAA
*
13647 ACATTATACTATATTAATATAAATTATAGTTA-AGA
1 A-A-T-TA--ATATTAATATAAACTATAGTTATA-A
*
13682 TAATTAACATTAATATAAACTATA
1 -AATTAATATTAATATAAACTATA
13706 TAGTACATTA
Statistics
Matches: 123, Mismatches: 13, Indels: 36
0.72 0.08 0.21
Matches are distributed among these distances:
29 10 0.08
30 9 0.07
31 47 0.38
32 4 0.03
33 6 0.05
34 15 0.12
35 20 0.16
36 12 0.10
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (30 bp):
AATTAATATTAATATAAACTATAGTTATAA
Found at i:13599 original size:88 final size:93
Alignment explanation
Indices: 13433--13603 Score: 221
Period size: 91 Copynumber: 1.9 Consensus size: 93
13423 AACTACTTAT
* * * *
13433 AATTAATATTAAAATAATTATATATTATAATTAATATTAATATAATTAATTTTAATATTAAATTA
1 AATTAATATTAAAATAATAATATATTAAAATTAATATTAATATAACTAATTGT-ATATTAAATTA
13498 TTATAATATAGTTTATAATTTGTAATTAA
65 TTATAATATAGTTTATAATTTGTAATTAA
13527 AATTAATA-TAAAAT-ATAATATA-TAAAATTAATATTAATATAAACT-ATATGT-TA-TAAATT
1 AATTAATATTAAAATAATAATATATTAAAATTAATATTAATAT-AACTAAT-TGTATATTAAATT
*
13586 A-TATAGTATAGTTTATAA
64 ATTATAATATAGTTTATAA
13604 ACTATAGTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
88 16 0.23
89 7 0.10
90 2 0.03
91 19 0.27
92 12 0.17
93 6 0.09
94 8 0.11
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (93 bp):
AATTAATATTAAAATAATAATATATTAAAATTAATATTAATATAACTAATTGTATATTAAATTAT
TATAATATAGTTTATAATTTGTAATTAA
Found at i:13601 original size:14 final size:14
Alignment explanation
Indices: 13584--13645 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
13574 ATGTTATAAA
13584 TTATATAGTATAGT
1 TTATATAGTATAGT
* *
13598 TTATAAACTATAGT
1 TTATATAGTATAGT
* *
13612 TAATATAATTACTA-T
1 TTATAT-AGTA-TAGT
*
13627 TAATATAGTATAGT
1 TTATATAGTATAGT
13641 TTATA
1 TTATA
13646 AACATTATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 10 0.26
16 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (14 bp):
TTATATAGTATAGT
Found at i:13629 original size:66 final size:65
Alignment explanation
Indices: 13552--13740 Score: 192
Period size: 65 Copynumber: 2.9 Consensus size: 65
13542 TAATATATAA
* * * *
13552 AATTAATATTAATATAAACTATATGTTATAAATTATATAGTATAGTTTATAAACTATAGTTAATA
1 AATTACTATTAATATAAACTATATGTTATAAA-TATATACTATAGTTTATAAATTATAGTTAAGA
13617 T
65 T
* *
13618 AATTACTATTAATAT--AGTATA-GTTTATAAACATTATACTATA-TTAATATAAATTATAGTTA
1 AATTACTATTAATATAAACTATATG-TTATAAATA-TATACTATAGTT--TATAAATTATAGTTA
13679 AGAT
62 AGAT
* *
13683 AATTAAC-ATTAATATAAACTATATAGTACATTAATATA-ACTATAGTTTATAAATTATA
1 AATT-ACTATTAATATAAACTATAT-GT-TATAAATATATACTATAGTTTATAAATTATA
13741 TACTATATGT
Statistics
Matches: 102, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
63 4 0.04
64 20 0.20
65 29 0.28
66 27 0.26
67 11 0.11
68 5 0.05
69 6 0.06
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (65 bp):
AATTACTATTAATATAAACTATATGTTATAAATATATACTATAGTTTATAAATTATAGTTAAGAT
Found at i:13728 original size:19 final size:21
Alignment explanation
Indices: 13688--13728 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
13678 AAGATAATTA
13688 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
13710 ACATTAATAT-AAC-TATAGT
1 ACATTAATATAAACATATAGT
13729 TTATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:13745 original size:21 final size:21
Alignment explanation
Indices: 13716--13769 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
13706 TAGTACATTA
*
13716 ATATAACTATA-GTTTATAAATT
1 ATAT-ACTATATG-TTATAAAGT
13738 ATATACTATATGTTATAAAGT
1 ATATACTATATGTTATAAAGT
*
13759 ATAAACTATAT
1 ATATACTATAT
13770 AGTACACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (21 bp):
ATATACTATATGTTATAAAGT
Found at i:13817 original size:13 final size:13
Alignment explanation
Indices: 13801--13884 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
13791 GTATTATAAG
13801 TTACATATATAGT
1 TTACATATATAGT
* *
13814 TTACATTTATACAT
1 TTACATATATA-GT
*
13828 ATAC-TATA-AGT
1 TTACATATATAGT
* * *
13839 TTATACATACA-T
1 TTACATATATAGT
*
13851 GTAC-TATA-AG-
1 TTACATATATAGT
13861 TTACATATATAGT
1 TTACATATATAGT
13874 TTACATATATA
1 TTACATATATA
13885 CATATACTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
10 4 0.08
11 10 0.19
12 9 0.17
13 25 0.48
14 4 0.08
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (13 bp):
TTACATATATAGT
Found at i:13844 original size:60 final size:60
Alignment explanation
Indices: 13780--13895 Score: 214
Period size: 60 Copynumber: 1.9 Consensus size: 60
13770 AGTACACTAA
* *
13780 TATACATACATGTATTATAAGTTACATATATAGTTTACATTTATACATATACTATAAGTT
1 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATAAGTT
13840 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATA
1 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATA
13896 GGTTACATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (60 bp):
TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATAAGTT
Found at i:13975 original size:21 final size:21
Alignment explanation
Indices: 13929--13975 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13919 TATGCATAGT
13929 GTTTATGATTTAGGGTTAACA
1 GTTTATGATTTAGGGTTAACA
* *
13950 TTTTATGATTTAGGGTTAATA
1 GTTTATGATTTAGGGTTAACA
13971 GTTTA
1 GTTTA
13976 GGTTTAGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTTATGATTTAGGGTTAACA
Found at i:14048 original size:2 final size:2
Alignment explanation
Indices: 14041--14081 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14031 TGCATTGTAT
14041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14082 TACTTATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14415 original size:4 final size:4
Alignment explanation
Indices: 14406--14680 Score: 543
Period size: 4 Copynumber: 69.0 Consensus size: 4
14396 TTTAAGGTTT
14406 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
14454 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
14502 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
14550 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
14598 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
14646 TACA TACA TACA TAC- TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA
14681 CACACACACA
Statistics
Matches: 270, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
3 3 0.01
4 267 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:14685 original size:2 final size:2
Alignment explanation
Indices: 14678--14710 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14668 ATACATACAT
14678 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14711 ATACAGACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14725 original size:4 final size:4
Alignment explanation
Indices: 14718--14926 Score: 283
Period size: 4 Copynumber: 52.2 Consensus size: 4
14708 ACAATACAGA
* *
14718 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CGCG CGCG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
* * * * * * ** * *
14766 CGCG CGCG CGCG CACA CACA CACA CATA CACA CACG CACA CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
14814 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
* * *
14862 CACG CTCG CTCG CACG CACG CACG CACG CACT CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
14910 CACG CACG CACG CACG C
1 CACG CACG CACG CACG C
14927 GCACACACAC
Statistics
Matches: 193, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 193 1.00
ACGTcount: A:0.24, C:0.50, G:0.24, T:0.02
Consensus pattern (4 bp):
CACG
Found at i:14935 original size:2 final size:2
Alignment explanation
Indices: 14928--14981 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
14918 CACGCACGCG
14928 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14970 CA CA CA CA CA CA
1 CA CA CA CA CA CA
14982 TACATATAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15227 original size:19 final size:19
Alignment explanation
Indices: 15176--15237 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
15166 ATAAAATATC
*
15176 AATTCTCAATTTCCCTCCA
1 AATTCTCAATTTCCCTCTA
* * *
15195 TATTTTTCTA-TTCCCTCTA
1 -AATTCTCAATTTCCCTCTA
15214 AATTCTCAATTTCCCTCTA
1 AATTCTCAATTTCCCTCTA
15233 AATTC
1 AATTC
15238 CCAAATAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 6 0.18
19 22 0.65
20 6 0.18
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTCAATTTCCCTCTA
Found at i:15319 original size:2 final size:2
Alignment explanation
Indices: 15312--15510 Score: 55
Period size: 2 Copynumber: 100.0 Consensus size: 2
15302 CTCACTTTGA
*
15312 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT -T A- AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * * * * *
15353 -T AT AGT TT AT AA ACT AT AT ACT TT TT AT AGT TT AT AC AT AT AT
1 AT AT A-T AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT
* * * * * *
15396 AGT TT AC AT AT AT AGT TT AT AT AT AC AGT -T CAT AT AA AC AT A-
1 A-T AT AT AT AT AT A-T AT AT AT AT AT A-T AT -AT AT AT AT AT AT
* *
15438 AT TT AT AT AT AT A- ACT -T AT A- AT A- AT -T AT AT AGT TT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
15477 AT AA ACT -T AT AT -T AT AT AT AT AT AT AT AT -T AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15511 TTTTTCAATT
Statistics
Matches: 143, Mismatches: 29, Indels: 50
0.64 0.13 0.23
Matches are distributed among these distances:
1 13 0.09
2 120 0.84
3 10 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15398 original size:15 final size:15
Alignment explanation
Indices: 15378--15416 Score: 64
Period size: 13 Copynumber: 2.7 Consensus size: 15
15368 ATATACTTTT
15378 TATAGTTTATACATA
1 TATAGTTTATACATA
15393 TATAG-TT-TACATA
1 TATAGTTTATACATA
15406 TATAGTTTATA
1 TATAGTTTATA
15417 TATACAGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.50
14 4 0.18
15 7 0.32
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:15403 original size:13 final size:13
Alignment explanation
Indices: 15387--15425 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
15377 TTATAGTTTA
15387 TACATATATAGTT
1 TACATATATAGTT
15400 TACATATATAGTT
1 TACATATATAGTT
* *
15413 TATATATACAGTT
1 TACATATATAGTT
15426 CATATAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TACATATATAGTT
Found at i:15493 original size:17 final size:17
Alignment explanation
Indices: 15453--15510 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
15443 TATATATAAC
*
15453 TTATA-ATAATTATATA
1 TTATATATAAATATATA
15469 GTTTATATATAAACT-TATA
1 --TTATATATAAA-TATATA
*
15488 TTATATATATATATATA
1 TTATATATAAATATATA
15505 TTATAT
1 TTATAT
15511 TTTTTCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 20 0.57
18 5 0.14
19 8 0.23
20 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTATATATAAATATATA
Found at i:15500 original size:13 final size:13
Alignment explanation
Indices: 15312--15510 Score: 55
Period size: 13 Copynumber: 14.8 Consensus size: 13
15302 CTCACTTTGA
15312 ATATA-TATATAT
1 ATATATTATATAT
15324 ATATA-TATATAT
1 ATATATTATATAT
*
15336 ACTATATTAATATAA
1 A-TATATT-ATATAT
*
15351 ATTATAGTTTATAAACT
1 A-TATA--TTATATA-T
15368 ATATACTT-T-T-T
1 ATATA-TTATATAT
*
15379 ATAGT-TTATACAT
1 ATA-TATTATATAT
*
15392 ATATAGTT-TACAT
1 ATATA-TTATATAT
15405 ATATAGTT-TATAT
1 ATATA-TTATATAT
* *
15418 ATACAGTTCATATAA
1 ATATA-TT-ATATAT
*
15433 ACATAATT-TATAT
1 ATAT-ATTATATAT
15446 ATATAACTTATAATAATT
1 ATAT-A-TTAT-AT-A-T
15464 ATATAGTT-TATAT
1 ATATA-TTATATAT
* *
15477 ATAAACT-TATAT
1 ATATATTATATAT
15489 -TATA-TATATAT
1 ATATATTATATAT
15500 ATATATTATAT
1 ATATATTATAT
15511 TTTTTCAATT
Statistics
Matches: 146, Mismatches: 18, Indels: 45
0.70 0.09 0.22
Matches are distributed among these distances:
10 3 0.02
11 13 0.09
12 25 0.17
13 51 0.35
14 7 0.05
15 23 0.16
16 12 0.08
17 7 0.05
18 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (13 bp):
ATATATTATATAT
Found at i:15604 original size:23 final size:24
Alignment explanation
Indices: 15564--15610 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15554 TTATTTCTTC
*
15564 ATATTTTTCATTTATTTTGATTTA
1 ATATTTTTCATTTATTTTAATTTA
15588 ATATTTTTC-TATT-TTTTAATTTA
1 ATATTTTTCAT-TTATTTTAATTTA
15611 TTTCAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (24 bp):
ATATTTTTCATTTATTTTAATTTA
Found at i:16658 original size:137 final size:135
Alignment explanation
Indices: 16406--16678 Score: 503
Period size: 137 Copynumber: 2.0 Consensus size: 135
16396 CATTCACCCT
16406 ATTCGAGTAAATAATCTTTCTGGTGCATTATTTGAACAAATTTTTTTTGACTGTATTATTGCAAA
1 ATTCGAGTAAATAATCTTTCTGGTGCATTATTTGAACAAATTTTTTTTGACTGTATTATTGCAAA
16471 AAAAAAAATCAGCCGGCTTCCTCTCTACTACTGTTACTTTGTATAATGAGCTCATTAATTTATTG
66 AAAAAAAATCAGCCGGCTTCCTCTCTACTACTGTTACTTTGTATAATGAGCTCATTAATTTATTG
16536 TCAAA
131 TCAAA
16541 ATTCGAGTAAATAATCTTTCTGGTGCATTATTTGAACAAA-TTTTTTTGACTGTATTATTGCAAA
1 ATTCGAGTAAATAATCTTTCTGGTGCATTATTTGAACAAATTTTTTTTGACTGTATTATTGC---
*
16605 AAAAAAAAAAATCAGTCGGCTTCCTCTCTACTACTGTTACTTTGTATAATGAGCTCATTAATTTA
63 AAAAAAAAAAATCAGCCGGCTTCCTCTCTACTACTGTTACTTTGTATAATGAGCTCATTAATTTA
16670 TTGTCAAA
128 TTGTCAAA
16678 A
1 A
16679 GATATATTTT
Statistics
Matches: 134, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
134 21 0.16
135 40 0.30
137 73 0.54
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (135 bp):
ATTCGAGTAAATAATCTTTCTGGTGCATTATTTGAACAAATTTTTTTTGACTGTATTATTGCAAA
AAAAAAAATCAGCCGGCTTCCTCTCTACTACTGTTACTTTGTATAATGAGCTCATTAATTTATTG
TCAAA
Found at i:21039 original size:18 final size:18
Alignment explanation
Indices: 21014--21056 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
21004 TTCAATTTAA
21014 TCATTTTATTATTCTTTTT
1 TCATTTTATTATT-TTTTT
21033 T-ATTTTATTATTTTTTT
1 TCATTTTATTATTTTTTT
21050 TCATTTT
1 TCATTTT
21057 GTTTTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 16 0.70
19 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (18 bp):
TCATTTTATTATTTTTTT
Found at i:21110 original size:97 final size:93
Alignment explanation
Indices: 21003--21247 Score: 333
Period size: 93 Copynumber: 2.6 Consensus size: 93
20993 TTTGTTTTCC
*
21003 TTTCAATTTAATCATTTTATTATTCTTTTTTATTTTATTATTTT-TTTTCATTTTGTTTTGTTTA
1 TTTCAATTTAATCATTTTATTATTCTTTTTT-TTTTATT-TTTTATTTTCATTTTATTTTGTTTA
21067 CACATTATTATATATATTTTTCATTTATTTTTA
64 CACATTA-T-TATAT-TTTTTCATTTATTTTTA
21100 TTTCAATTTAATCATTTTATTATTC---TTTTTTTATTTTTTATTTTCATTTTATTTTGTTTACA
1 TTTCAATTTAATCATTTTATTATTCTTTTTTTTTTATTTTTTATTTTCATTTTATTTTGTTTACA
21162 CATTATTATATTTTTTCATTTATTTTTA
66 CATTATTATATTTTTTCATTTATTTTTA
* * *
21190 TTTTAATTTAATCCTTTTATT-TT-TTTTATTTTTTATTTGTTTATCTT-ATTTTGATTTT
1 TTTCAATTTAATCATTTTATTATTCTTTT-TTTTTTATTT-TTTATTTTCATTTT-ATTTT
21248 ATTTCTTATT
Statistics
Matches: 137, Mismatches: 4, Indels: 18
0.86 0.03 0.11
Matches are distributed among these distances:
89 2 0.01
90 36 0.26
91 6 0.04
92 20 0.15
93 45 0.33
94 3 0.02
97 25 0.18
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (93 bp):
TTTCAATTTAATCATTTTATTATTCTTTTTTTTTTATTTTTTATTTTCATTTTATTTTGTTTACA
CATTATTATATTTTTTCATTTATTTTTA
Found at i:21277 original size:2 final size:2
Alignment explanation
Indices: 21272--21296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21262 TTTATACAAT
21272 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
21297 TATTTTATTT
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:21618 original size:4 final size:4
Alignment explanation
Indices: 21611--21636 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21601 TTTTTATCTC
21611 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
21637 ATATGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:21707 original size:8 final size:8
Alignment explanation
Indices: 21694--21723 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
21684 ACTTGATTTA
21694 TTTTTATT
1 TTTTTATT
21702 TTTTTATT
1 TTTTTATT
21710 TTTATTATT
1 TTT-TTATT
21719 TTTTT
1 TTTTT
21724 TCTAACACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:21707 original size:14 final size:14
Alignment explanation
Indices: 21675--21721 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
21665 TCATTTTCCC
**
21675 TTTATTTTTACTTGA
1 TTTATTTTTA-TTTT
21690 TTTATTTTTATTTT
1 TTTATTTTTATTTT
21704 TTTATTTTTATTATT
1 TTTATTTTTATT-TT
21719 TTT
1 TTT
21722 TTTCTAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:25516 original size:64 final size:64
Alignment explanation
Indices: 25350--25516 Score: 253
Period size: 64 Copynumber: 2.6 Consensus size: 64
25340 TGCAGCTTTT
* * *
25350 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACGTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTTAACAAACAACGTTCCAGTTTCATTC
* * *
25414 AGAGTCAATGTCAACTTCACAGCGAAAGATATTGGACTTAACAAATAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTTAACAAACAACGTTCCAGTTTCATTC
* * *
25478 AGAGTCAATTTCAACTTCACGGCGAATGATCTTGGACTT
1 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTT
25517 GAAACAACAC
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 93 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTTAACAAACAACGTTCCAGTTTCATTC
Found at i:25830 original size:147 final size:146
Alignment explanation
Indices: 25453--25933 Score: 675
Period size: 147 Copynumber: 3.3 Consensus size: 146
25443 TATTGGACTT
* *
25453 AACAAATAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAATGATCTTGGACTTG
1 AACAAATAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACTCG
* *
25518 AAACAACACAAGATTGGATTTCAACTTCAAAACAAAGGATATCCAATTCAAAGCTCAACTTTACA
66 AAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTTACA
** *
25583 GTGAAGGGGCGTCTATC
131 ACGAA-GGGCGTCTGTC
** *
25600 AACAAATAAC-TT----TTTCATTCAGAGTCAATTTCAACTTCACGATGAAGGATCTTAGACTCG
1 AACAAATAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACTCG
*
25660 AAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAGTTCAAAGCTCAACTTTACA
66 AAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTTACA
*
25725 ACGAATGGGCATCTGTC
131 ACGAA-GGGCGTCTGTC
* * *
25742 AATAAATAACTTTCCAGTTTTATTCAGAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACTCA
1 AACAAATAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACTCG
* * ** * *
25807 AAACAAGACAAGATTGGATTTCAACTTCACAAAGAAATATATCCAATTCAAAACTCAACTTCACA
66 AAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTTACA
* *
25872 ACGAAGGAACGTTTGTC
131 ACGAAGG-GCGTCTGTC
* *
25889 AACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTTAACTTCAC
1 AACAAATAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCAC
25934 ATCAAAGAAT
Statistics
Matches: 295, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
142 126 0.43
143 2 0.01
146 4 0.01
147 163 0.55
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (146 bp):
AACAAATAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAAGGATCTTGGACTCG
AAACAACACAAGATTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTTACA
ACGAAGGGCGTCTGTC
Found at i:26205 original size:124 final size:123
Alignment explanation
Indices: 26036--26891 Score: 869
Period size: 124 Copynumber: 6.8 Consensus size: 123
26026 GAAACAATAC
* * * *
26036 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGACTCAACTTTACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
* * *
26101 CCACGATTTCAACTTCACGATGAAGGATATCGTGTCCACTAGCAATATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTG-CCACCAGCAACATTCATCTTTAGA
* * * * * *
26160 TTGGATTTTAACTTCACGATGAAGGATATCCAATTCAAGGTTCAACTTTACAATGAATGAGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
* * * * *
26225 CTACGATTTCAACTTCATGACAAATGATATCGTGTCCACCAACAACATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTG-CCACCAGCAACATTCATCTTTAGA
* *
26284 TTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAATAGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
* * * *
26349 TCATGATTTCAACTTCACGACAAAGGATATCGCGCCCACCAGCAACA-TCTATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTG-CCACCAGCAACATTC-ATCTTTAGA
* * * *
26408 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAATGCTCAACTTCACAACGAATGTGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
* * * *
26473 CCACGATTTCAACTTCACAATGAAGGATATCGTACCCACCATCAACATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGT-GCCACCAGCAACATTCATCTTTAGA
* * * * *
26532 TTGGATTTCAACTTCGCGACGAAAGATATCCAATTAAAGGCTCAACTTCACAGCAAATGAGCTTT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATG-G----
* ** * * * * *
26597 CCCTTTTCATTTAGAGTCAATTTCAACTTCACAACGAAGGATAT--TG-GACTC-GAAACAACTC
61 -GC----CA--TCCA--CGATTTCAACTTCACGACGAAGGATATCGTGCCAC-CAGCAAC-ATTC
* * *
26658 AACTTACACAACA
115 ATCTT----TAGA
* * *
26671 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAGCGAAGGGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
* ** * * * * *
26736 CCACGATTTCAACTTCACGATGAATAATATCGTGCCTACAAG-AGCATACAACTCTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCC-ACCAGCAACATTCATCTTTAGA
* *
26794 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGGCTCAACTTCACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
* *
26859 CTACGATTTCAACTTCACGACGAATGATATCGT
66 CCACGATTTCAACTTCACGACGAAGGATATCGT
26892 ACCCAAAAGA
Statistics
Matches: 607, Mismatches: 97, Indels: 57
0.80 0.13 0.07
Matches are distributed among these distances:
123 94 0.15
124 372 0.61
125 24 0.04
127 10 0.02
128 2 0.00
129 5 0.01
134 7 0.01
135 8 0.01
136 3 0.00
138 26 0.04
139 56 0.09
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (123 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGCCACCAGCAACATTCATCTTTAGA
Found at i:26562 original size:372 final size:371
Alignment explanation
Indices: 26036--26896 Score: 989
Period size: 372 Copynumber: 2.3 Consensus size: 371
26026 GAAACAATAC
* * *
26036 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGACTCAACTTTACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAAG-CTCAACTTCACAACGAATGAGCCAT
** * *
26101 CCACGATTTCAACTTCACGATGAAGGATATCGTGTCCACTAGCAATATTCATCTTTAGATTGGAT
65 CCACGATTTCAACTTCACGATGAAGGATATCGTACCCACCAGCAACATTCATCTTTAGATTGGAT
* * * * * * **
26166 TTTAACTTCACGATGAAGGATATCCAATTCAAGGTTCAACTTTACAATGAATGAG-C-CATCT-A
130 TTCAACTTCACGACGAAAGATATCCAATTAAAGGCTCAACTTCACAACAAATGAGCCTCATCTAA
* ** * * * *
26228 -CGATTTCAACTTCATGACAAATGATATCGTG-TCCACCAACAACATTCATCTT-TAGATTGGAT
195 GCAATTTCAACTTCACAACAAAGGATATCG-GATCCA--AACAAC--TCAACTTAAACATTGGAT
* * * *
26290 TTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAATAGGCCATTCATGA
255 TTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCCATCCACGA
* * * *
26355 TTTCAACTTCACGACAAAGGATATCGCGCCCACCAGCAACAT-CTATCTTTAGA
320 TTTCAACTTCACGACAAAGAATATCGCGCCCACAAG-AACATAC-AACTCTAGA
* *
26408 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAATGCTCAACTTCACAACGAATGTGTCAT
1 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAA-GCTCAACTTCACAACGAATGAGCCAT
* *
26473 CCACGATTTCAACTTCACAATGAAGGATATCGTACCCACCATCAACATTCATCTTTAGATTGGAT
65 CCACGATTTCAACTTCACGATGAAGGATATCGTACCCACCAGCAACATTCATCTTTAGATTGGAT
* *
26538 TTCAACTTCGCGACGAAAGATATCCAATTAAAGGCTCAACTTCACAGCAAATGAGCTTTCCCTTT
130 TTCAACTTCACGACGAAAGATATCCAATTAAAGGCTCAACTTCACAACAAATGAG-----CC---
* * * *
26603 TCATTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAAACAACTCAACTTACACA
187 TCATCTA-AG-CAATTTCAACTTCACAACAAAGGATATCGGA-TCCAAACAACTCAACTT--A-A
* * *
26668 ACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAGCGAAGGGGT
246 ACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGC
** * * * *
26733 CATCCACGATTTCAACTTCACGATGAATAATATCGTGCCTACAAGAGCATACAACTCTAGA
311 CATCCACGATTTCAACTTCACGACAAAGAATATCGCGCCCACAAGAACATACAACTCTAGA
26794 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGGCTCAACTTCACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACGACGAATGATATCCAATTCAA-GCTCAACTTCACAACGAATGAGCCAT
* * *
26859 CTACGATTTCAACTTCACGACGAATGATATCGTACCCA
65 CCACGATTTCAACTTCACGATGAAGGATATCGTACCCA
26897 AAAGATTGAC
Statistics
Matches: 412, Mismatches: 55, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
372 163 0.40
373 1 0.00
378 1 0.00
382 4 0.01
383 6 0.01
384 1 0.00
385 7 0.02
386 130 0.32
387 99 0.24
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (371 bp):
TTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGCTCAACTTCACAACGAATGAGCCATC
CACGATTTCAACTTCACGATGAAGGATATCGTACCCACCAGCAACATTCATCTTTAGATTGGATT
TCAACTTCACGACGAAAGATATCCAATTAAAGGCTCAACTTCACAACAAATGAGCCTCATCTAAG
CAATTTCAACTTCACAACAAAGGATATCGGATCCAAACAACTCAACTTAAACATTGGATTTCAAC
TTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCCATCCACGATTTCAA
CTTCACGACAAAGAATATCGCGCCCACAAGAACATACAACTCTAGA
Found at i:26889 original size:123 final size:123
Alignment explanation
Indices: 26670--26891 Score: 372
Period size: 123 Copynumber: 1.8 Consensus size: 123
26660 CTTACACAAC
* * *
26670 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAGCGAAGGGGTCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGAGCCA
*
26735 TCCACGATTTCAACTTCACGATGAATAATATCGTGCCTACAAGAGCATACAACTCTAG
66 TCCACGATTTCAACTTCACGACGAATAATATCGTGCCTACAAGAGCATACAACTCTAG
* *
26793 ATTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGGCTCAACTTCACAACGAATGAGCCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGAGCCA
* *
26858 TCTACGATTTCAACTTCACGACGAATGATATCGT
66 TCCACGATTTCAACTTCACGACGAATAATATCGT
26892 ACCCAAAAGA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 91 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (123 bp):
ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGAGCCA
TCCACGATTTCAACTTCACGACGAATAATATCGTGCCTACAAGAGCATACAACTCTAG
Found at i:27286 original size:2 final size:2
Alignment explanation
Indices: 27281--27325 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
27271 TGAAGCATAC
*
27281 AT AT AT AT AT GT AT -T 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
27322 AT AT
1 AT AT
27326 TATTTTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:28367 original size:18 final size:18
Alignment explanation
Indices: 28344--28386 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
28334 ACCATAACCC
28344 GACCCGCCTCATAACTCA
1 GACCCGCCTCATAACTCA
28362 GACCCGCCTCATAACTCA
1 GACCCGCCTCATAACTCA
28380 GACCCGC
1 GACCCGC
28387 GTGTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.47, G:0.14, T:0.14
Consensus pattern (18 bp):
GACCCGCCTCATAACTCA
Found at i:28687 original size:31 final size:28
Alignment explanation
Indices: 28651--28776 Score: 87
Period size: 31 Copynumber: 4.2 Consensus size: 28
28641 AATTTAATCC
*
28651 TTTTATTTTTTATTCGTTTATCTTATTTTAA
1 TTTTATTTCTTATT-GTTT-T-TTATTTTAA
28682 TTTTATTTCTTATTGTTTTTTATTTATACAA
1 TTTTATTTCTTATTGTTTTTTATTT-T--AA
* * *
28713 TATTATATATTATT-TTATTTTATTTTAA
1 TTTTATTTCTTATTGTT-TTTTATTTTAA
* *
28741 TCTT-TTT-TTATTTGTTTATTCTATTTTCA
1 TTTTATTTCTTA-TTGTTT-TT-TATTTTAA
28770 TTTTATT
1 TTTTATT
28777 ATATATTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
26 3 0.04
27 5 0.06
28 15 0.19
29 12 0.15
30 9 0.12
31 34 0.44
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (28 bp):
TTTTATTTCTTATTGTTTTTTATTTTAA
Found at i:28689 original size:5 final size:5
Alignment explanation
Indices: 28667--28825 Score: 69
Period size: 5 Copynumber: 30.6 Consensus size: 5
28657 TTTTTATTCG
* * **
28667 TTTAT CTTAT TTTAAT TTTATT TCTTAT TGTT-T TTTAT TTATAC AATAT
1 TTTAT TTTAT TTT-AT TTTA-T T-TTAT T-TTAT TTTAT TT-TAT TTTAT
* * * *
28716 TATAT ATTAT TTTAT TTTAT TTTAAT CTTT-T TTTA- TTT-G TTTAT TCTAT
1 TTTAT TTTAT TTTAT TTTAT TTT-AT -TTTAT TTTAT TTTAT TTTAT TTTAT
* *
28765 TTTCAT TTTAT TATAT ATT-T TTTAT TTCT-T TTTATT TTTAT TTCTAT
1 TTT-AT TTTAT TTTAT TTTAT TTTAT TT-TAT TTTA-T TTTAT TT-TAT
*
28812 TATTAT TTTCT TTT
1 T-TTAT TTTAT TTT
28826 TATTCTACAT
Statistics
Matches: 118, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
4 15 0.13
5 62 0.53
6 34 0.29
7 7 0.06
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:28778 original size:19 final size:18
Alignment explanation
Indices: 28720--28778 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 18
28710 CAATATTATA
*
28720 TATTATTTTATTTTATTT
1 TATTATTCTATTTTATTT
* *
28738 TAATCTT-T-TTTTATTT
1 TATTATTCTATTTTATTT
28754 GT-TTATTCTATTTTCATTT
1 -TATTATTCTATTTT-ATTT
28773 TATTAT
1 TATTAT
28779 ATATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
16 11 0.34
17 3 0.09
18 10 0.31
19 8 0.25
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
TATTATTCTATTTTATTT
Found at i:28799 original size:40 final size:39
Alignment explanation
Indices: 28723--28829 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 39
28713 TATTATATAT
*
28723 TATTTTATTTTATTTTAATCTTTTTTTATTTGTTTATTC
1 TATTTTATTTTATTATAATCTTTTTTTATTTGTTTATTC
* * *
28762 TATTTTCATTTTATTAT-AT-ATTTTTTATTTCTTT-TTA
1 TATTTT-ATTTTATTATAATCTTTTTTTATTTGTTTATTC
* *
28799 T-TTTTATTTCTATTATTATTTTCTTTTTATT
1 TATTTTATTT-TATTATAATCTT-TTTTTATT
28830 CTACATATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
35 4 0.07
36 10 0.17
37 5 0.09
38 14 0.24
39 16 0.28
40 9 0.16
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.75
Consensus pattern (39 bp):
TATTTTATTTTATTATAATCTTTTTTTATTTGTTTATTC
Found at i:28801 original size:29 final size:30
Alignment explanation
Indices: 28713--28812 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 30
28703 ATTTATACAA
28713 TATTATATATTATTTTATTT-TATTTTAATCTT
1 TATT-TATATT-TTTTATTTCTATTTTAAT-TT
*
28745 T-TTT-TATTTGTTTA-TTCTATTTTCATTT
1 TATTTATATTT-TTTATTTCTATTTTAATTT
*
28773 TATTATATATTTTTTATTTCT-TTTTATTTT
1 TATT-TATATTTTTTATTTCTATTTTAATTT
*
28803 TATTTCTATT
1 TATTTATATT
28813 ATTATTTTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
28 6 0.10
29 23 0.40
30 17 0.29
31 11 0.19
32 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (30 bp):
TATTTATATTTTTTATTTCTATTTTAATTT
Found at i:28804 original size:16 final size:18
Alignment explanation
Indices: 28762--28820 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 18
28752 TTGTTTATTC
*
28762 TATTTTCATTT-TATTAT
1 TATTTTTATTTCTATTAT
28779 ATATTTTTTATTTCT-TT-T
1 -TA-TTTTTATTTCTATTAT
28797 TATTTTTATTTCTATTAT
1 TATTTTTATTTCTATTAT
28815 TATTTT
1 TATTTT
28821 CTTTTTATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 11 0.31
17 4 0.11
18 10 0.28
19 10 0.28
20 1 0.03
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTTTATTTCTATTAT
Found at i:28838 original size:23 final size:23
Alignment explanation
Indices: 28719--28840 Score: 67
Period size: 23 Copynumber: 5.3 Consensus size: 23
28709 ACAATATTAT
28719 ATATTATTTTA-TTTTATTT-TA
1 ATATTATTTTATTTTTATTTCTA
* *
28740 ATCTTTTTTTATTTGTT-TATTCT-
1 ATATTATTTTATTT-TTAT-TTCTA
* * * *
28763 ATTTTCATTTTATTATATATTTTTT
1 ATATT-ATTTTATT-TTTATTTCTA
*
28788 AT-TTCTTTTTATTTTTATTTCTA
1 ATATT-ATTTTATTTTTATTTCTA
* *
28811 TTATTATTTTCTTTTTA-TTCTA
1 ATATTATTTTATTTTTATTTCTA
28833 CATATTAT
1 -ATATTAT
28841 ATATATATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
21 9 0.12
22 8 0.10
23 32 0.42
24 24 0.31
25 4 0.05
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (23 bp):
ATATTATTTTATTTTTATTTCTA
Found at i:28845 original size:2 final size:2
Alignment explanation
Indices: 28834--28867 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
28824 TTTATTCTAC
28834 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28868 GTACATATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28995 original size:18 final size:18
Alignment explanation
Indices: 28964--29005 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
28954 TTTTTTTAAA
*
28964 TATTTATTTGTATTTCTT
1 TATTTTTTTGTATTTCTT
* *
28982 TATTTTTTTTTATTTTTT
1 TATTTTTTTGTATTTCTT
29000 TATTTT
1 TATTTT
29006 CTTCATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (18 bp):
TATTTTTTTGTATTTCTT
Found at i:29050 original size:12 final size:12
Alignment explanation
Indices: 29033--29067 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
29023 TTTTATTTCC
29033 TTTATATTTATA
1 TTTATATTTATA
29045 TTTATATTTATA
1 TTTATATTTATA
29057 TTTATATTTAT
1 TTTATATTTAT
29068 TTATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATATTTATA
Found at i:29076 original size:18 final size:18
Alignment explanation
Indices: 29033--29067 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29023 TTTTATTTCC
29033 TTTATATTTATATTTATA
1 TTTATATTTATATTTATA
29051 TTTATATTTATATTTAT
1 TTTATATTTATATTTAT
29068 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATATTTATATTTATA
Found at i:32619 original size:21 final size:19
Alignment explanation
Indices: 32589--32635 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
32579 ATAAATATTA
32589 AAATAATTTATTTA--ATAT
1 AAAT-ATTTATTTATTATAT
32607 AAATATTTATTTATTATAT
1 AAATATTTATTTATTATAT
*
32626 ATATATTTAT
1 AAATATTTAT
32636 GACTACATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 4 0.15
19 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATATTTATTTATTATAT
Found at i:34058 original size:3 final size:3
Alignment explanation
Indices: 34050--34115 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
34040 TTAATATATT
*
34050 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
34098 TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
34116 ATCAATATGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:34644 original size:113 final size:112
Alignment explanation
Indices: 34429--34988 Score: 638
Period size: 113 Copynumber: 4.9 Consensus size: 112
34419 ATAGAATTAT
* * ** * * ** *
34429 GCAAAAAGTTAAACAAGCTCTTCTTATTATGAACTTATTCTT-CTTC-AGATGACGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCT
* * * * *
34492 CATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
65 CATTATGAACT-TTCCTGGAAAAGTTGATCCATCAAATGATGAATTCAA
* *
34541 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * **
34606 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACTTTC-CTGGAAAAGTTGATCCATCAAATGATGAATTCAA
* * *
34654 GCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* ****
34719 CTCATTATGAACTCTCCTTGGTGCTGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACTTTCC-TGGAAAAGTTGATCCATCAAATGATGAATTCAA
* * *
34770 GCAAAAGGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAA-GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*** * *
34835 CATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGGATTCAG
65 CATTATGAACT-TTCCTGGAAAAGTTGATCCATCAAATGATGAATTCAA
* *
34884 GTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
34949 ATTATGAACTCTTTCTGGAAAAGATAATCCATCAAGTGAT
66 ATTATGAACT-TTCCTGGAAAAGTTGATCCATCAAATGAT
34989 AGATTTGAAT
Statistics
Matches: 385, Mismatches: 54, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
112 38 0.10
113 195 0.51
114 54 0.14
115 2 0.01
116 54 0.14
117 42 0.11
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCCTGGAAAAGTTGATCCATCAAATGATGAATTCAA
Found at i:34856 original size:230 final size:229
Alignment explanation
Indices: 34468--34988 Score: 737
Period size: 230 Copynumber: 2.3 Consensus size: 229
34458 TGAACTTATT
34468 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGAT
1 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGAT
* *
34533 GAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAG
66 GAATTCAAACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAG
**** *
34598 TTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATT-TGAGCAAAAGA
131 TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGGATTCAG-GCAAAAGA
*
34662 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
195 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
* *** *
34697 TTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT-CCTTGGTGCTGTTGATCCATCAAATGA
1 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC-TGGCAATGTTAATCCATCAAATGA
* * * *
34761 TGAATTCAAGCAAAAGGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATG
65 TGAATTCAAACAAAA-GGTTAAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
* *
34826 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAG
129 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGGATTCAGGCAAAAG
* *
34891 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC
194 ATTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
** * * * *
34927 CTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTTTCTGGAAAAGATAATCCATCAAGTGAT
1 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGAT
34989 AGATTTGAAT
Statistics
Matches: 258, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
227 41 0.16
228 3 0.01
229 69 0.27
230 144 0.56
231 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (229 bp):
CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGAT
GAATTCAAACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAG
TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGGATTCAGGCAAAAGAT
TGAACAAATTCTTCTCATTATGAACTTCTTCTTC
Found at i:35911 original size:83 final size:83
Alignment explanation
Indices: 35772--36123 Score: 560
Period size: 83 Copynumber: 4.2 Consensus size: 83
35762 GCTATTTCTA
*
35772 CTATGAGCAAAGTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
35837 GAACACTTTCAGAAGATG
66 GAACACTTCCAGAAGATG
** * *
35855 CTATGAGCAAATTCATCTTTTAAATCCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
35920 GAACACTTCCAAAAGATG
66 GAACACTTCCAGAAGATG
*
35938 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
36003 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * * *
36021 CTATGAGCACATTCATTTTTCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACT
1 CTATGAGCAAATTCA----TCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACT
36086 CAAAGAACACTTCCAGAAGATG
62 CAAAGAACACTTCCAGAAGATG
36108 CTATGAGCAAATTCAT
1 CTATGAGCAAATTCAT
36124 TTATTCCAAT
Statistics
Matches: 248, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
83 169 0.68
87 79 0.32
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:36006 original size:166 final size:167
Alignment explanation
Indices: 35718--36123 Score: 598
Period size: 166 Copynumber: 2.4 Consensus size: 167
35708 TCTGTAGTTC
*
35718 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTCTACTATGAGCAAA
1 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCA-AA-A-G--A----TGCTATGAGCAAA
* *
35783 GTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTTCA
57 TTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCA
*
35848 GAAGATGCTATGAGCAAATTCA-TCTTTTAAATCCAATGATTGGTT
122 GAAGATGCTATGAGCAAATTCATTCTTTCAAATCCAATGATTGGTT
* * *
35893 CTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCACATTCATCTTC
1 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCAAATTCATCTTC
35958 CAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
66 CAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
* *
36023 ATGAGCACATTCATTTTTCTTTCAAATTCAATGATTGGTT
131 ATGAGCAAATTCA---TTCTTTCAAATCCAATGATTGGTT
* *
36063 TTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCAT
1 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCAAATTCAT
36124 TTATTCCAAT
Statistics
Matches: 213, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
166 95 0.45
170 78 0.37
172 1 0.00
173 1 0.00
174 2 0.01
175 36 0.17
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (167 bp):
CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCAAATTCATCTTC
CAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
ATGAGCAAATTCATTCTTTCAAATCCAATGATTGGTT
Found at i:37284 original size:18 final size:18
Alignment explanation
Indices: 37263--37318 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
37253 TTACCCCCCT
37263 TTTTTCTTCTTTTTTCTC
1 TTTTTCTTCTTTTTTCTC
*
37281 TTTTTTTTCTTTTTTCT-
1 TTTTTCTTCTTTTTTCTC
37298 TTTTCTCTT-TTTTTT-TC
1 TTTT-TCTTCTTTTTTCTC
37315 TTTT
1 TTTT
37319 CTTTTTCTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 14 0.41
18 19 0.56
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTCTC
Found at i:37300 original size:23 final size:24
Alignment explanation
Indices: 37264--37329 Score: 98
Period size: 23 Copynumber: 2.7 Consensus size: 24
37254 TACCCCCCTT
37264 TTTTCTTCTTTTTTCTCTTTTTTTTC
1 TTTT-TTC-TTTTTCTCTTTTTTTTC
37290 TTTTTTCTTTTTCTCTTTTTTTT-
1 TTTTTTCTTTTTCTCTTTTTTTTC
*
37313 TCTTTTCTTTTTCTCTT
1 TTTTTTCTTTTTCTCTT
37330 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 16 0.41
24 16 0.41
25 3 0.08
26 4 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTCTTTTTCTCTTTTTTTTC
Found at i:37309 original size:25 final size:25
Alignment explanation
Indices: 37264--37329 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
37254 TACCCCCCTT
37264 TTTTCTTCTTTTT-TCTCTTTTTTTTC
1 TTTT-TTCTTTTTCTCT-TTTTTTTTC
37290 TTTTTTCTTTTTCTCTTTTTTTTTC
1 TTTTTTCTTTTTCTCTTTTTTTTTC
37315 --TTTTCTTTTTCTCTT
1 TTTTTTCTTTTTCTCTT
37330 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 15 0.38
25 17 0.44
26 7 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTTCTTTTTCTCTTTTTTTTTC
Found at i:48721 original size:17 final size:17
Alignment explanation
Indices: 48694--48738 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
48684 ATAAATATTA
48694 AAATAATTTATTTAATAT
1 AAAT-ATTTATTTAATAT
*
48712 AAATATTTATTTATTAT
1 AAATATTTATTTAATAT
*
48729 ATATATTTAT
1 AAATATTTAT
48739 GACTACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTATTTAATAT
Found at i:50146 original size:3 final size:3
Alignment explanation
Indices: 50138--50191 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
50128 TTAATATATT
*
50138 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50186 TAA TAA
1 TAA TAA
50192 ATCAATATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:52442 original size:23 final size:23
Alignment explanation
Indices: 52395--52444 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
52385 AATAACATAT
**
52395 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
52418 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
52441 TAGG
1 TAGG
52445 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:52504 original size:87 final size:87
Alignment explanation
Indices: 52358--52520 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
52348 AATGTTATAT
*
52358 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
52423 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
52445 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATATGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
52510 AGCGCTTATAT
66 AGCGCTTATAT
52521 TGACTTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:52971 original size:200 final size:197
Alignment explanation
Indices: 52537--53246 Score: 741
Period size: 200 Copynumber: 3.5 Consensus size: 197
52527 ATTTTCGAAG
* * * * *
52537 TAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTACA
1 TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
** ** * * * *
52602 ATGTTTTTTTAGATCGATACAATTT-TAAATGTATCGATACTTTATGCTTGCACCTGGTTGGGCA
66 ATG--TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTT-TG--
* * * * *
52666 TTCATATTTCATTCTGGAAAAAAATATCGACACAAACTAACAACATGTCGATACATTAT-TTAGA
126 TGC--A-TTCATTCTGGACAAAAGTATCGACACAAATTAACAA-GTGTCGATACATTATGTT-GA
*
52730 CCTATTCTCTCA
186 CCTATTTTCTCA
* ** * *
52742 TAAAACCGATATATTTATACCGGTTACATTAAAAATTTACCTATTACATTATACTTATGGGTTTC
1 T-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* *
52807 GATGTTTCTGGGATCGATACTTTTTATAAATGTATAGACACTTTATG-GTTGCACC-C-TTTTTG
65 GATGTTT-TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCG-TGCACCTCGTTTGT-
* * * *
52869 GTATTCATTCTGGACCAAAAGTATCGACACAAATTTATCAAGTGTCGATACTTTATGCTGACCTA
127 GCATTCATTCTGGA-CAAAAGTATCGACACAAA-TTAACAAGTGTCGATACATTATGTTGACCTA
*
52934 TTTTATCA
190 TTTTCTCA
* * *
52942 TGAAATCGGTATATTTATATCGGTTACATTGTAAATTTACCTAATACATTATAATTATCGGTTTC
1 T-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* *
53007 AATGTTTTGGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGC
65 GATGTTTT-GGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGC
* ** *
53072 ATTCATCCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGATATGTT
129 ATTCATTCTGGACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTGACCTATT
*
53137 TTCTAA
192 TTCTCA
* * * * *
53143 TTAACCGGTATATTTATACCAGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTG
1 TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* *
53208 ATTTTTTTGGG-TCGATAC-TTGTATAAAATGTATCGACAC
66 A-TGTTTTGGGATCGATACTTTTTAT-AAATGTATCGACAC
53247 ATATTTAGGT
Statistics
Matches: 424, Mismatches: 65, Indels: 38
0.80 0.12 0.07
Matches are distributed among these distances:
198 4 0.01
199 33 0.08
200 211 0.50
201 70 0.17
202 4 0.01
204 5 0.01
205 14 0.03
206 83 0.20
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (197 bp):
TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
ATGTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGTGCAT
TCATTCTGGACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTGACCTATTTTCT
CA
Found at i:55248 original size:251 final size:252
Alignment explanation
Indices: 54791--55244 Score: 709
Period size: 251 Copynumber: 1.8 Consensus size: 252
54781 GTTTCGATGT
* * *
54791 TTTTGGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCAT
1 TTTTGGGATCGACACTCTATAAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCAT
* * * * *
54856 TATGGACAAAAATTATCGACATAATATTAATAAGTGTCGATACATATTATAGACCTATTCTCTCA
66 TATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
* *
54921 TAAAACTGGTATATGTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTC
131 TAAAACCGGTATATGTATACCGGTTATATTACAAAATTACCCATTACATTATAATTATGGGTTTC
54986 GATGTTTTTGGGATCGACACTTTTAAGAAATGTATCGACACTTTATGTGTGCAACCC
196 GATGTTTTTGGGATCGACACTTTTAAGAAATGTATCGACACTTTATGTGTGCAACCC
* *
55043 TTTT-GGATCGACACTCTATAAAAATGTATCGACACTTTGTAG-GTTCACCCTTTTTGGCATTCA
1 TTTTGGGATCGACACTCTATAAAAATGTATCGACACTTTAT-GCGTTCACCCTTTTTGGCATCCA
* * * *
55106 TTTTGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATGTTGTAGACATATT-TTTC
65 TTATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTC
*
55170 ATAAAACCGGTATATTTATACCGGTTATATTGA-AAAATTACCCATTACATTATAATTATGGGTT
130 ATAAAACCGGTATATGTATACCGGTTATATT-ACAAAATTACCCATTACATTATAATTATGGGTT
55234 TCGATGTTTTT
194 TCGATGTTTTT
55245 TGGGTTGTTA
Statistics
Matches: 183, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
250 73 0.40
251 105 0.57
252 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (252 bp):
TTTTGGGATCGACACTCTATAAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCAT
TATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
TAAAACCGGTATATGTATACCGGTTATATTACAAAATTACCCATTACATTATAATTATGGGTTTC
GATGTTTTTGGGATCGACACTTTTAAGAAATGTATCGACACTTTATGTGTGCAACCC
Found at i:56556 original size:3 final size:3
Alignment explanation
Indices: 56548--56598 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
56538 ACTTGTTTGG
* *
56548 ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC AAC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
56596 ATC
1 ATC
56599 GTAATCTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:59204 original size:201 final size:201
Alignment explanation
Indices: 58089--59429 Score: 2226
Period size: 200 Copynumber: 6.7 Consensus size: 201
58079 TATTTAAATT
* * *
58089 AGTATTGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCCATTCTCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
* * * *
58154 ATATTTATATCGGTTATATTGAAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
*
58219 GGATCGACACTTTTTGAAAATGTATCGACA-TTTATACGTTCACCCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
58283 ACCAAA
196 ACCAAA
*
58289 AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
* *
58354 ATATTTATACCGGGTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
58419 GGATCGACACTTTTTGAAAATGTATCGACACTTTATG-GTTCACCCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
58483 ACCAAA
196 ACCAAA
*
58489 AGAATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
* * * *
58554 ATATTTATACCGGTTACATTATAAATTTACATATTATATTATAATTATGGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
*
58619 GGATCGATACTTTTTGAAAATGTATCGACACTTTATG-GTTCACCCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
58683 ACCAAA
196 ACCAAA
*
58689 AGAATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
* *
58754 ATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * *
58819 GAATCGACACTGTTTGAAAATGTATCGACACTTTATACGTTCA-CCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
58883 ACCAAA
196 ACCAAA
* * *
58889 AGTATAGACACAAAATTAAAAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAATCA
1 AGTATCGACACAAAATT--AAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCG
* * *
58954 GTATATTTATACAGATTACATTGTAAATTTACCTATTTCATTATAATTATGGGTTTCGATGTTTC
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* *
59019 TGGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTTACCCTTTTTGGCATCCATTAT
129 TGGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCT
59084 GGACCAAA
194 GGACCAAA
* * *
59092 AGTATCGACACAAAATTAAAAAAATGTCGATACATGTTGTAAACCTATTCTCTCATAAAATCGAT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
*
59157 ATATGTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * *
59222 GGATCGACACTTTTTAAAAATATATCGACACATTATGCGTTCACCCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
59287 ACCAAA
196 ACCAAA
59293 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA-CTGG
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC-GG
* * * *
59357 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTAT-GGATGCATATGTTTC
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTC-GATGTTTC
59421 TGGGATCGA
129 TGGGATCGA
59430 TAAATTTTAC
Statistics
Matches: 1075, Mismatches: 59, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
200 586 0.55
201 302 0.28
202 145 0.13
203 42 0.04
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (201 bp):
AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
ACCAAA
Found at i:61609 original size:21 final size:21
Alignment explanation
Indices: 61550--61632 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
61540 CCCCTTATGC
* *
61550 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
61571 CTCACAAG-TT-TC-TCGACT
1 CTCTCAAGTTTCTCTTCGACT
* * *
61589 CTCTTAAGTTTTTTTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
61610 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
61631 CT
1 CT
61633 GATTGTCTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
18 12 0.24
19 4 0.08
20 2 0.04
21 33 0.65
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Done.