Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 26
Found at i:1000300 original size:13 final size:13
Alignment explanation
Indices: 1000274--1000308 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1000264 CAATCCAGGC
1000274 GACATACG-GGGT
1 GACATACGAGGGT
1000286 GACATACGAGGGT
1 GACATACGAGGGT
1000299 GACATACGAG
1 GACATACGAG
1000309 CCATATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.14
Consensus pattern (13 bp):
GACATACGAGGGT
Found at i:1000397 original size:28 final size:32
Alignment explanation
Indices: 1000324--1000516 Score: 201
Period size: 32 Copynumber: 6.2 Consensus size: 32
1000314 TACGAGTCAT
* *
1000324 ACGAGCCAATGGGGAGGATGCAACGAGCCAT--
1 ACGAGCCAATGGGGAGCATGC-ACGAGCAATAG
1000355 ACGAGCCAATGGGGAGCATGCA-G-G-AATAG
1 ACGAGCCAATGGGGAGCATGCACGAGCAATAG
* *
1000384 A-GAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAATGGGGAGCATGC-ACGAGCAATAG
* *
1000416 ACGAGCC-ATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAATGGGGAGCATGC-ACGAGCAATAG
1000448 ACGAGCCAATGGGGAGCATGCA-G-G-AATAG
1 ACGAGCCAATGGGGAGCATGCACGAGCAATAG
* *
1000477 A-GAGCCAATGGGGAGCATGCAACGAGCCATAT
1 ACGAGCCAATGGGGAGCATGC-ACGAGCAATAG
1000509 ACGAGCCA
1 ACGAGCCA
1000517 TACGAGCCAA
Statistics
Matches: 141, Mismatches: 8, Indels: 24
0.82 0.05 0.14
Matches are distributed among these distances:
27 2 0.01
28 39 0.28
29 8 0.06
30 4 0.03
31 23 0.16
32 41 0.29
33 24 0.17
ACGTcount: A:0.34, C:0.22, G:0.34, T:0.11
Consensus pattern (32 bp):
ACGAGCCAATGGGGAGCATGCACGAGCAATAG
Found at i:1000489 original size:93 final size:91
Alignment explanation
Indices: 1000322--1000517 Score: 356
Period size: 93 Copynumber: 2.1 Consensus size: 91
1000312 TATACGAGTC
*
1000322 ATACGAGCCAATGGGGAGGATGCAACGAGCCATACGAGCCAATGGGGAGCATGCAGGAATAGAGA
1 ATACGAGCC-ATGGGGAGCATGCAACGAGCCATACGAGCCAATGGGGAGCATGCAGGAATAGAGA
1000387 GCCAATGGGGAGCATGCAACGAGCCAT
65 GCCAATGGGGAGCATGCAACGAGCCAT
1000414 ATACGAGCCATGGGGAGCATGCAACGAGCCATATACGAGCCAATGGGGAGCATGCAGGAATAGAG
1 ATACGAGCCATGGGGAGCATGCAACGAGCC--ATACGAGCCAATGGGGAGCATGCAGGAATAGAG
1000479 AGCCAATGGGGAGCATGCAACGAGCCAT
64 AGCCAATGGGGAGCATGCAACGAGCCAT
1000507 ATACGAGCCAT
1 ATACGAGCCAT
1000518 ACGAGCCAAT
Statistics
Matches: 101, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
91 20 0.20
92 9 0.09
93 72 0.71
ACGTcount: A:0.34, C:0.21, G:0.33, T:0.12
Consensus pattern (91 bp):
ATACGAGCCATGGGGAGCATGCAACGAGCCATACGAGCCAATGGGGAGCATGCAGGAATAGAGAG
CCAATGGGGAGCATGCAACGAGCCAT
Found at i:1000503 original size:61 final size:64
Alignment explanation
Indices: 1000322--1000516 Score: 248
Period size: 61 Copynumber: 3.2 Consensus size: 64
1000312 TATACGAGTC
* * *
1000322 ATACGAGCCAATGGGGAGGATGCAACGAGCCATACGAGCCAATGGGGAGCATGC-A-G-G-AAT
1 ATACGAGCCAATGGGGAGCATGCAACGAGCCATAAGAGCCAATGGGGAGCATGCAACGAGCCAT
*
1000382 AGA-GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCC-ATGGGGAGCATGCAACGAGCCA
1 ATACGAGCCAATGGGGAGCATGCAACGAGCCATA-A-GAGCCAATGGGGAGCATGCAACGAGCCA
1000445 T
64 T
*
1000446 ATACGAGCCAATGGGGAGCATGC-A-G-G-AATAGAGAGCCAATGGGGAGCATGCAACGAGCCAT
1 ATACGAGCCAATGGGGAGCATGCAACGAGCCATA-AGAGCCAATGGGGAGCATGCAACGAGCCAT
1000507 ATACGAGCCA
1 ATACGAGCCA
1000517 TACGAGCCAA
Statistics
Matches: 120, Mismatches: 7, Indels: 15
0.85 0.05 0.11
Matches are distributed among these distances:
59 29 0.24
60 20 0.17
61 43 0.36
62 2 0.02
63 2 0.02
64 5 0.04
65 19 0.16
ACGTcount: A:0.34, C:0.22, G:0.33, T:0.11
Consensus pattern (64 bp):
ATACGAGCCAATGGGGAGCATGCAACGAGCCATAAGAGCCAATGGGGAGCATGCAACGAGCCAT
Found at i:1000598 original size:29 final size:29
Alignment explanation
Indices: 1000548--1000656 Score: 175
Period size: 29 Copynumber: 3.8 Consensus size: 29
1000538 AGGAATAGAG
* *
1000548 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
*
1000577 AGGTCGCCATGTAGTCTCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1000606 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1000635 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
1000657 CCATTCCCAT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 74 0.99
30 1 0.01
ACGTcount: A:0.15, C:0.30, G:0.32, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:1000739 original size:36 final size:36
Alignment explanation
Indices: 1000699--1000771 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1000689 CATAGATTCC
1000699 TTCACGTGCTCCCCGCTGCATGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATGCCTACACCTCCCAA
1000735 TTCACGTGCTCCCCGCTGCATGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATGCCTACACCTCCCAA
1000771 T
1 T
1000772 GCATGCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.16, C:0.47, G:0.14, T:0.23
Consensus pattern (36 bp):
TTCACGTGCTCCCCGCTGCATGCCTACACCTCCCAA
Found at i:1000799 original size:18 final size:18
Alignment explanation
Indices: 1000776--1000810 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1000766 CCCAATGCAT
1000776 GCATGTGAACCATTTGAG
1 GCATGTGAACCATTTGAG
1000794 GCATGTGAACCATTTGA
1 GCATGTGAACCATTTGA
1000811 TTATTGGTAC
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:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
GCATGTGAACCATTTGAG
Found at i:1000943 original size:23 final size:23
Alignment explanation
Indices: 1000915--1000960 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1000905 AAAAGAAAGA
1000915 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
1000938 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
1000961 CCGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:1000973 original size:4 final size:4
Alignment explanation
Indices: 1000964--1001029 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
1000954 ATTGCAGCCG
** **
1000964 AGAA AGAA AGAA AGAA AGGG AGAA AGGAA AGAA AGAA AGGG AGAA AGGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA A-GAA
*
1001014 AGTA AG-A AG-A AGAA AG
1 AGAA AGAA AGAA AGAA AG
1001030 GGAGATAAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 6 0.12
4 36 0.72
5 8 0.16
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:1000975 original size:25 final size:23
Alignment explanation
Indices: 1000915--1000975 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
1000905 AAAAGAAAGA
**
1000915 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
1000938 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
1000961 CCGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
1000976 AGAAAGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.07, G:0.36, T:0.07
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:1000995 original size:21 final size:21
Alignment explanation
Indices: 1000963--1001021 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
1000953 GATTGCAGCC
1000963 GAGAAA-GAAAGAAAGAAAGG
1 GAGAAAGGAAAGAAAGAAAGG
1000983 GAGAAAGGAAAGAAAGAAAGG
1 GAGAAAGGAAAGAAAGAAAGG
*
1001004 GAGAAAGGAAAGTAAGAA
1 GAGAAAGGAAAGAAAGAA
1001022 GAAGAAAGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 6 0.16
21 31 0.84
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
GAGAAAGGAAAGAAAGAAAGG
Found at i:1001201 original size:41 final size:41
Alignment explanation
Indices: 1001156--1001244 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
1001146 TATATGATTG
* *
1001156 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
1001197 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
1001238 TTAGTTT
1 TTAGTTT
1001245 GTATTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:1001268 original size:47 final size:47
Alignment explanation
Indices: 1001225--1001315 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
1001215 TTATATAGTT
1001225 AAAAAA-TAATTAATTAGTTTGTATT-GTT-AATAGTTAGTTATATA
1 AAAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTTAGTTATATA
* *
1001269 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTT-AGTTATAT
1001316 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 6 0.15
45 17 0.41
46 3 0.07
47 7 0.17
48 8 0.20
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (47 bp):
AAAAAATTAATTAATTAGTTTGTATTAGTTAAATAGTTAGTTATATA
Found at i:1001287 original size:45 final size:44
Alignment explanation
Indices: 1001184--1001315 Score: 132
Period size: 45 Copynumber: 3.0 Consensus size: 44
1001174 TACATAAATT
*
1001184 AAAAATTATTTAATTAGTATATGTTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTGTTAATAGTTAGTTATA-TAA
*
1001226 AAAAA-TAATTAATTAGTTTGTATTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGT-TTGTTAATAGTTAGTTATATAA
1001270 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TT-GTT-AATAGTT-AGTTATAT
1001316 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 3 0.04
40 4 0.05
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 21 0.28
46 3 0.04
47 7 0.09
48 8 0.11
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (44 bp):
AAAAATTATTTAATTAGTTTGTTTGTTAATAGTTAGTTATATAA
Found at i:1001504 original size:16 final size:16
Alignment explanation
Indices: 1001472--1001518 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1001462 TTTTAAAAGT
*
1001472 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
1001488 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
1001504 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
1001519 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:1001513 original size:15 final size:14
Alignment explanation
Indices: 1001493--1001523 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1001483 GTTTATTAGT
1001493 TTATTATATTATAAG
1 TTATTATATTA-AAG
1001508 TTATTATATTAAAG
1 TTATTATATTAAAG
1001522 TT
1 TT
1001524 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:1003693 original size:17 final size:17
Alignment explanation
Indices: 1003671--1003703 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1003661 CAATGATTTT
*
1003671 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
1003688 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
1003704 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:1003836 original size:26 final size:26
Alignment explanation
Indices: 1003801--1004145 Score: 168
Period size: 26 Copynumber: 12.9 Consensus size: 26
1003791 TTGTTAGTAT
1003801 TAAATCATTATTATAAATCATTATTA
1 TAAATCATTATTATAAATCATTATTA
*
1003827 TAAAT-A--ATTACTAAAT-A--ATAA
1 TAAATCATTATTA-TAAATCATTATTA
*
1003848 CTAAATAATTATTATAAAATCATTATTA
1 -TAAATCATTATTAT-AAATCATTATTA
*
1003876 T-AATGATTATTATCAAATCATTACTAAATCA
1 TAAATCATTATTAT-AAATCATTA-T---T-A
*
1003907 TCAAATCATTAAATATTTAAATCATTA-T-
1 T-AAATCATT--AT-TATAAATCATTATTA
* *
1003935 TAAATCATTTTTAT-AATGATTATTA
1 TAAATCATTATTATAAATCATTATTA
* *
1003960 CT-AATTATTATTAT-AATGATTATTA
1 -TAAATCATTATTATAAATCATTATTA
* *
1003985 TCAAATCATTACTAT-AATGATTATTA
1 T-AAATCATTATTATAAATCATTATTA
*
1004011 TCAAATCATTACTAAATCATCAAATCATTAAATATT
1 T-AAATCATTA-T---T-AT-AAATCATT--AT-TA
*
1004047 TAAATCATTA-T-TAAATCATTTTTA
1 TAAATCATTATTATAAATCATTATTA
*
1004071 T-AATGATTATTACTAAATCATTATTA
1 TAAATCATTATTA-TAAATCATTATTA
* *
1004097 T-AATGATTATTATCAAATCATTACTA
1 TAAATCATTATTAT-AAATCATTATTA
*
1004123 T-AATGATTATTATCAAATCATTA
1 TAAATCATTATTAT-AAATCATTA
1004146 CTAAATCATC
Statistics
Matches: 260, Mismatches: 21, Indels: 76
0.73 0.06 0.21
Matches are distributed among these distances:
21 3 0.01
22 5 0.02
23 20 0.08
24 13 0.05
25 33 0.13
26 117 0.45
27 18 0.07
28 5 0.02
30 4 0.02
31 4 0.02
33 12 0.05
35 22 0.08
36 4 0.02
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATCATTATTATAAATCATTATTA
Found at i:1003843 original size:11 final size:11
Alignment explanation
Indices: 1003823--1003858 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1003813 ATAAATCATT
1003823 ATTA-TAAATA
1 ATTACTAAATA
1003833 ATTACTAAATA
1 ATTACTAAATA
*
1003844 ATAACTAAATA
1 ATTACTAAATA
1003855 ATTA
1 ATTA
1003859 TTATAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
ATTACTAAATA
Found at i:1003939 original size:97 final size:98
Alignment explanation
Indices: 1003822--1003998 Score: 243
Period size: 97 Copynumber: 1.8 Consensus size: 98
1003812 TATAAATCAT
1003822 TATTATAAATAATTACTAAATAATAACTA-AATAATTATTA-TAAAATCATTATTATAATGATTA
1 TATTATAAATAATTACTAAATAATAACTATAATAATTATTACT--AATCATTATTATAATGATTA
1003885 TTATCAAATCATTACTAAATCATCAAATCATTAAA
64 TTATCAAATCATTACTAAATCATCAAATCATTAAA
* * * *** * *
1003920 TATT-TAAATCATTATTAAATCATTTTTATAATGATTATTACTAATTATTATTATAATGATTATT
1 TATTATAAATAATTACTAAATAATAACTATAATAATTATTACTAATCATTATTATAATGATTATT
1003984 ATCAAATCATTACTA
66 ATCAAATCATTACTA
1003999 TAATGATTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
97 54 0.78
98 14 0.20
99 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (98 bp):
TATTATAAATAATTACTAAATAATAACTATAATAATTATTACTAATCATTATTATAATGATTATT
ATCAAATCATTACTAAATCATCAAATCATTAAA
Found at i:1004179 original size:124 final size:124
Alignment explanation
Indices: 1003800--1004203 Score: 681
Period size: 123 Copynumber: 3.3 Consensus size: 124
1003790 TTTGTTAGTA
* * * * *
1003800 TTAAATCATTATTATAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATAATTATTA
1 TTAAATCATTA-T-TAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATTA
* *
1003862 TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
64 TCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
*
1003923 TTAAATCATTATTAAATCATTTTTATAATGATTATTACT-AATTATTATTATAATGATTATTATC
1 TTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATTATC
1003987 AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
66 AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
*
1004046 TTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATC
1 TTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATTATC
1004111 AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
66 AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
1004170 TTAAATCATTATTAAATCATTTTTATAATGATTA
1 TTAAATCATTATTAAATCATTTTTATAATGATTA
1004204 ATAATACATA
Statistics
Matches: 268, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
121 15 0.06
122 9 0.03
123 127 0.47
124 117 0.44
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (124 bp):
TTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATTATC
AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
Found at i:1007076 original size:26 final size:26
Alignment explanation
Indices: 1007028--1007078 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1007018 ATAAACCTAA
*
1007028 TAATGATTTGATAATTACTATTAATC
1 TAATGATTTGATAATTAATATTAATC
1007054 TAATGATTTGAT-ATTAATGATTAAT
1 TAATGATTTGATAATTAAT-ATTAAT
1007079 AATAATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (26 bp):
TAATGATTTGATAATTAATATTAATC
Found at i:1007931 original size:28 final size:30
Alignment explanation
Indices: 1007891--1007953 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
1007881 ATTTTTTATA
*
1007891 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
1007921 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
1007949 TAATA
1 TAATA
1007954 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:1007960 original size:28 final size:28
Alignment explanation
Indices: 1007895--1007960 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1007885 TTTATATAAT
*
1007895 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
1007923 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
1007951 ATAATTTATA
1 ATAATATATA
1007961 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:1007963 original size:21 final size:21
Alignment explanation
Indices: 1007930--1007978 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1007920 CTAATATAAT
1007930 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
1007951 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
1007972 ATTAACT
1 A-TAACT
1007979 AGATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:1008571 original size:29 final size:29
Alignment explanation
Indices: 1008539--1008618 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
1008529 TCCACCTTGG
*
1008539 AGGTCGCCCGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
1008568 AGGTCGCCTGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
1008597 AGGTCGCCTGGATTGCATGGCG
1 AGGTCGCCTGGATTGCATGGCG
1008619 TCCTATGGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (29 bp):
AGGTCGCCTGGATTGCATGGCGACCTCCA
Found at i:1009363 original size:6 final size:6
Alignment explanation
Indices: 1009313--1009359 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
1009303 ATAGAGAATT
*
1009313 CATTGA CATTGA CATTGA CATTGA CATTGA CATTGA CATTGT CATTG
1 CATTGA CATTGA CATTGA CATTGA CATTGA CATTGA CATTGA CATTG
1009360 TCATAAGAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (6 bp):
CATTGA
Found at i:1010080 original size:13 final size:14
Alignment explanation
Indices: 1010057--1010088 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1010047 TACTTTACAA
1010057 TTATATATATATAC
1 TTATATATATATAC
1010071 TTATAT-TATATAC
1 TTATATATATATAC
1010084 TTATA
1 TTATA
1010089 AGTATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATATATATATAC
Found at i:1010120 original size:27 final size:26
Alignment explanation
Indices: 1010058--1010126 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
1010048 ACTTTACAAT
* *
1010058 TATATATATATACTTATATTATATAC
1 TATATATGTATATTTATATTATATAC
*
1010084 T-TATAAGTATAATTTATAGTTATATA-
1 TATATATGTAT-ATTTATA-TTATATAC
1010110 TATATATGTATGATTTA
1 TATATATGTAT-ATTTA
1010127 AACTTACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 7 0.20
26 8 0.23
27 20 0.57
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (26 bp):
TATATATGTATATTTATATTATATAC
Found at i:1011442 original size:23 final size:24
Alignment explanation
Indices: 1011395--1011468 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
1011385 TATATATTTA
*
1011395 ATATTAATATAATAA-TCT-AATAAT
1 ATATTAATA-AATAATTTTCAA-AAT
*
1011419 ATTTTAATAAAT-ATGTTT-AAAAT
1 ATATTAATAAATAAT-TTTCAAAAT
*
1011442 ATATTAATTAATAATTTTCAAAAT
1 ATATTAATAAATAATTTTCAAAAT
1011466 ATA
1 ATA
1011469 ATATAATACT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.02
23 19 0.45
24 22 0.52
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (24 bp):
ATATTAATAAATAATTTTCAAAAT
Found at i:1011631 original size:31 final size:33
Alignment explanation
Indices: 1011554--1011631 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 33
1011544 TTTATTTATA
* * * *
1011554 AAATTATAAAAATATTTTTTAATAGTAATGAAT
1 AAATTATTATAATATTTTTTAAAAATAATGAAT
*
1011587 AAATTATTCTAATA-TTTTTAAAAATAAT-AAT
1 AAATTATTATAATATTTTTTAAAAATAATGAAT
* *
1011618 AATTTTTTATAATA
1 AAATTATTATAATA
1011632 AAATACATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 14 0.38
32 12 0.32
33 11 0.30
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (33 bp):
AAATTATTATAATATTTTTTAAAAATAATGAAT
Found at i:1013234 original size:2 final size:2
Alignment explanation
Indices: 1013227--1013256 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1013217 TATTTTAATA
1013227 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
1013257 TGTGTAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1013337 original size:17 final size:16
Alignment explanation
Indices: 1013315--1013347 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
1013305 ACAAAATTTT
1013315 ATATATATATATTAAAA
1 ATATATATAT-TTAAAA
1013332 ATATATATATTTAAAA
1 ATATATATATTTAAAA
1013348 TATCTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATTTAAAA
Found at i:1013350 original size:13 final size:15
Alignment explanation
Indices: 1013317--1013350 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1013307 AAAATTTTAT
1013317 ATATATATATTAAAA
1 ATATATATATTAAAA
*
1013332 ATATATATATTTAAA
1 ATATATATATTAAAA
1013347 ATAT
1 ATAT
1013351 CTCAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATATATTAAAA
Found at i:1014711 original size:14 final size:14
Alignment explanation
Indices: 1014692--1014720 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1014682 AGGAAGACTG
1014692 CTTTTATGAGAAAC
1 CTTTTATGAGAAAC
1014706 CTTTTATGAGAAAC
1 CTTTTATGAGAAAC
1014720 C
1 C
1014721 AATACCTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (14 bp):
CTTTTATGAGAAAC
Found at i:1020290 original size:13 final size:13
Alignment explanation
Indices: 1020274--1020298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1020264 TATTAAAATA
1020274 ATATATATATATT
1 ATATATATATATT
1020287 ATATATATATAT
1 ATATATATATAT
1020299 ATGCTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATATATT
Found at i:1021491 original size:13 final size:13
Alignment explanation
Indices: 1021473--1021499 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1021463 CTTAATTTAA
1021473 CTTATACCCAACT
1 CTTATACCCAACT
1021486 CTTATACCCAACT
1 CTTATACCCAACT
1021499 C
1 C
1021500 AACATGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (13 bp):
CTTATACCCAACT
Found at i:1022565 original size:22 final size:22
Alignment explanation
Indices: 1022540--1022607 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
1022530 TGTTGCACTT
*
1022540 TTATCTTTGCCTTTGTGACACG
1 TTATCTTTGTCTTTGTGACACG
*
1022562 TTATCTTTATCTTTGTGACACG
1 TTATCTTTGTCTTTGTGACACG
*
1022584 TTATCTTTGTCTTTGTGGCACG
1 TTATCTTTGTCTTTGTGACACG
1022606 TT
1 TT
1022608 TTTTTTCTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.13, C:0.19, G:0.18, T:0.50
Consensus pattern (22 bp):
TTATCTTTGTCTTTGTGACACG
Found at i:1027319 original size:3 final size:3
Alignment explanation
Indices: 1027311--1027365 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
1027301 TAAAATTAAA
* *
1027311 ATT ATT ATT TTT ATT ATT ATT ATT AAT ATAT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT
1027358 ATT ATT AT
1 ATT ATT AT
1027366 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 40 0.85
4 7 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1027770 original size:13 final size:13
Alignment explanation
Indices: 1027752--1027777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1027742 CGCAGCTATG
1027752 GGGCGAGTCACCA
1 GGGCGAGTCACCA
1027765 GGGCGAGTCACCA
1 GGGCGAGTCACCA
1027778 CATAGTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
GGGCGAGTCACCA
Found at i:1028760 original size:16 final size:15
Alignment explanation
Indices: 1028741--1028771 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1028731 ATACTATAGT
1028741 TTTTTTATTTCATTTA
1 TTTTTTATTT-ATTTA
1028757 TTTTTTATTTATTTA
1 TTTTTTATTTATTTA
1028772 CAATGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:1031291 original size:20 final size:20
Alignment explanation
Indices: 1031263--1031301 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1031253 AATTTGCATT
*
1031263 TTTATATTTACATTCACATA
1 TTTACATTTACATTCACATA
* *
1031283 TTTACATTTGCATTTACAT
1 TTTACATTTACATTCACAT
1031302 TTAGCATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTACATTTACATTCACATA
Found at i:1031299 original size:12 final size:13
Alignment explanation
Indices: 1031282--1031310 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1031272 ACATTCACAT
1031282 ATTTACATTT-GC
1 ATTTACATTTAGC
1031294 ATTTACATTTAGC
1 ATTTACATTTAGC
1031307 ATTT
1 ATTT
1031311 TTTTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTACATTTAGC
Found at i:1037871 original size:22 final size:21
Alignment explanation
Indices: 1037845--1037919 Score: 116
Period size: 21 Copynumber: 3.5 Consensus size: 21
1037835 ATCTACACTC
1037845 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCT-TT
1037867 TTCAAAGATGATAGATTCTTT
1 TTCAAAGATGATAGATTCTTT
*
1037888 TTTAAAGATGATAGATTCTATT
1 TTCAAAGATGATAGATTCT-TT
1037910 TTC-AAGATGA
1 TTCAAAGATGA
1037920 AAGCTTTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
21 27 0.54
22 23 0.46
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (21 bp):
TTCAAAGATGATAGATTCTTT
Found at i:1038755 original size:76 final size:76
Alignment explanation
Indices: 1038580--1039259 Score: 1204
Period size: 75 Copynumber: 9.1 Consensus size: 76
1038570 CTATTTGCCA
1038580 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1038644 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1038655 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1038720 AGCCTTAGGGT
66 AGCCTTAGGGT
1038731 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1038796 AGCCTTA-GGT
66 AGCCTTAGGGT
*
1038806 CATCTGTAAGTCCTACAGTGCATGATGTTACCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1038871 AGCCTTA-GGT
66 AGCCTTAGGGT
1038881 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1038945 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1038956 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1039020 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1039031 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1039094 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1039105 CATCT-TAAGTCCTGCAGT--ATGATGTTTCCAAAAAGCCTTC-GGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1039165 AACCTTAGGGT
66 AGCCTTAGGGT
* *
1039176 CATCTGTAAGTCCTGCAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1039241 AGCCTTAGGGT
66 AGCCTTAGGGT
1039252 CATCTGTA
1 CATCTGTA
1039260 GCAGCCTGTT
Statistics
Matches: 587, Mismatches: 7, Indels: 21
0.95 0.01 0.03
Matches are distributed among these distances:
70 13 0.02
71 32 0.05
72 23 0.04
73 13 0.02
74 83 0.14
75 289 0.49
76 134 0.23
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1039458 original size:3 final size:3
Alignment explanation
Indices: 1039450--1039499 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
1039440 TTTTATTAAA
1039450 ATT ATT ATT ATT ATT ATT ATT A-T ATAT ATT ATT ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T ATT
1039495 ATT AT
1 ATT AT
1039500 ATAAATTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.09
3 33 0.77
4 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1039488 original size:15 final size:15
Alignment explanation
Indices: 1039450--1039499 Score: 84
Period size: 15 Copynumber: 3.3 Consensus size: 15
1039440 TTTTATTAAA
1039450 ATTATTAT-TATTATT
1 ATTATTATATA-TATT
1039465 ATTATTATATATATT
1 ATTATTATATATATT
1039480 ATTATTATATATATT
1 ATTATTATATATATT
1039495 ATTAT
1 ATTAT
1039500 ATAAATTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 32 0.94
16 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTATATATATT
Found at i:1039494 original size:12 final size:13
Alignment explanation
Indices: 1039452--1039502 Score: 81
Period size: 12 Copynumber: 4.2 Consensus size: 13
1039442 TTATTAAAAT
1039452 TATTATTATTAT-
1 TATTATTATTATA
1039464 TATTATTA-TATA
1 TATTATTATTATA
1039476 TATTATTATTATA
1 TATTATTATTATA
1039489 TA-TATTATTATA
1 TATTATTATTATA
1039501 TA
1 TA
1039503 AATTACAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
11 3 0.08
12 28 0.76
13 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTATTATA
Found at i:1039507 original size:12 final size:12
Alignment explanation
Indices: 1039465--1039507 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
1039455 TATTATTATT
1039465 ATTATTATATATA
1 ATTATTATATA-A
*
1039478 TTATTATTATATAT
1 --ATTATTATATAA
1039492 ATTATTATATAA
1 ATTATTATATAA
1039504 ATTA
1 ATTA
1039508 CAAAACTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 15 0.58
15 11 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATATAA
Found at i:1043533 original size:2 final size:2
Alignment explanation
Indices: 1043526--1043569 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1043516 TAGAATGATA
*
1043526 AT AT AT AT AT AT AT AT AT AT A- AT AA 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
1043567 AT A
1 AT A
1043570 CTGTAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1043547 original size:21 final size:21
Alignment explanation
Indices: 1043523--1043567 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1043513 GAATAGAATG
*
1043523 ATAATATATATATATATATAT
1 ATAATAAATATATATATATAT
1043544 ATAATAAATATATATATATAT
1 ATAATAAATATATATATATAT
1043565 ATA
1 ATA
1043568 TACTGTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATAAATATATATATATAT
Found at i:1046338 original size:30 final size:31
Alignment explanation
Indices: 1046287--1046355 Score: 122
Period size: 30 Copynumber: 2.2 Consensus size: 31
1046277 CCTCGCTATT
1046287 CTAAGCTTTACCCTTTCTCTCTAATAGCTTTG
1 CTAAGCTTTACCC-TTCTCTCTAATAGCTTTG
1046319 CTAAGCTTTACCC-TCTCTCTAATAGCTTTG
1 CTAAGCTTTACCCTTCTCTCTAATAGCTTTG
1046349 CTAAGCT
1 CTAAGCT
1046356 ATTATTCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 24 0.65
32 13 0.35
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (31 bp):
CTAAGCTTTACCCTTCTCTCTAATAGCTTTG
Found at i:1047487 original size:30 final size:31
Alignment explanation
Indices: 1047431--1047506 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 31
1047421 CGCTATTCTA
1047431 AGCTTTGCTAAGCTTTACCCTTTCTCTCTAAT
1 AGCTTTGCTAAGCTTTACCC-TTCTCTCTAAT
*
1047463 AGCTTTGCTAGGCTTTACCC-TCTCTCTAAT
1 AGCTTTGCTAAGCTTTACCCTTCTCTCTAAT
*
1047493 AGCTTTCCTAAGCT
1 AGCTTTGCTAAGCT
1047507 ATTATTCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 22 0.54
32 19 0.46
ACGTcount: A:0.18, C:0.29, G:0.12, T:0.41
Consensus pattern (31 bp):
AGCTTTGCTAAGCTTTACCCTTCTCTCTAAT
Found at i:1048317 original size:54 final size:55
Alignment explanation
Indices: 1048235--1048342 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 55
1048225 AGGAATATGA
* * * * * *
1048235 GAAAAGGCTTAGAAAAGCCAGAATGAGAAATAGCTTAG-CAAGCTATTAGAGAAT
1 GAAAAAGCTTAGAAAAGCAAGAACGAGAAATAACTTAGAAAAGCTATGAGAGAAT
* *
1048289 GAAAAAGCTTAGCAAAGCAAGGACGAGAAATAACTTAGAAAAGCTATGAGAGAA
1 GAAAAAGCTTAGAAAAGCAAGAACGAGAAATAACTTAGAAAAGCTATGAGAGAA
1048343 AAGGTGAAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
54 32 0.71
55 13 0.29
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.16
Consensus pattern (55 bp):
GAAAAAGCTTAGAAAAGCAAGAACGAGAAATAACTTAGAAAAGCTATGAGAGAAT
Found at i:1048860 original size:30 final size:31
Alignment explanation
Indices: 1048824--1048887 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
1048814 CTTAGGAAAT
1048824 CTATTAGAGAG-AGGGTAAAGCCTAGCAAAG
1 CTATTAGAGAGAAGGGTAAAGCCTAGCAAAG
*
1048854 CTATTAGAGAGAAAGGGTAAAGCTTAGCAAAG
1 CTATTAGAGAG-AAGGGTAAAGCCTAGCAAAG
1048886 CT
1 CT
1048888 TAGAATAGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 11 0.35
32 20 0.65
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (31 bp):
CTATTAGAGAGAAGGGTAAAGCCTAGCAAAG
Found at i:1050016 original size:55 final size:55
Alignment explanation
Indices: 1049933--1050041 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
1049923 AGGAATATGA
* * * * * *
1049933 GAAAAGGCTTAGAAAAGCCAGAATGAGAAATAGCTTAGCAAAGCTATTAGAGAAT
1 GAAAAAGCTTAGAAAAGCAAGAACGAGAAATAACTTAGAAAAGCTATGAGAGAAT
* *
1049988 GAAAAAGCTTAGCAAAGCAAGGACGAGAAATAACTTAGAAAAGCTATGAGAGAA
1 GAAAAAGCTTAGAAAAGCAAGAACGAGAAATAACTTAGAAAAGCTATGAGAGAA
1050042 AATGTGAAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.50, C:0.11, G:0.24, T:0.16
Consensus pattern (55 bp):
GAAAAAGCTTAGAAAAGCAAGAACGAGAAATAACTTAGAAAAGCTATGAGAGAAT
Found at i:1050044 original size:26 final size:26
Alignment explanation
Indices: 1049960--1050044 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
1049950 CCAGAATGAG
* *
1049960 AAATAGCTTAGCAAAGCTATTAGAGA
1 AAATAACTTAGCAAAGCTATGAGAGA
* * *
1049986 ATGAAAAAGCTTAGCAAAGCAAGGACGAG-
1 A--AATAA-CTTAGCAAAGCTATGA-GAGA
*
1050015 AAATAACTTAGAAAAGCTATGAGAGA
1 AAATAACTTAGCAAAGCTATGAGAGA
1050041 AAAT
1 AAAT
1050045 GTGAAGCTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
25 3 0.07
26 18 0.40
27 4 0.09
28 3 0.07
29 14 0.31
30 3 0.07
ACGTcount: A:0.51, C:0.11, G:0.21, T:0.18
Consensus pattern (26 bp):
AAATAACTTAGCAAAGCTATGAGAGA
Found at i:1054846 original size:21 final size:21
Alignment explanation
Indices: 1054731--1054846 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
1054721 TGACCAACAA
**
1054731 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
1054751 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
1054771 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
1054792 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
1054812 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
1054834 AATCGCAACGCGA
1 AATCGCAACGCGA
1054847 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:1054895 original size:20 final size:20
Alignment explanation
Indices: 1054834--1055006 Score: 197
Period size: 20 Copynumber: 8.6 Consensus size: 20
1054824 GATTTTCCAG
* ** *
1054834 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1054854 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1054874 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1054894 AATTGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1054914 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1054934 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1054954 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1054974 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
1054995 AATCGCAACGCG
1 AATCGCAACGCG
1055007 ATTTTTAAAG
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 116 0.89
21 14 0.11
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1055423 original size:33 final size:33
Alignment explanation
Indices: 1055384--1055454 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1055374 TTCACTTAGA
1055384 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1055417 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1055450 TTTCA
1 TTTCA
1055455 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1055559 original size:21 final size:20
Alignment explanation
Indices: 1055533--1055606 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
1055523 TGCAGAAGAG
1055533 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
1055554 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
1055574 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
1055596 TCGCAACGAGA
1 TCGCAACGAGA
1055607 GAATCGCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.22
21 25 0.56
22 10 0.22
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:1055631 original size:18 final size:18
Alignment explanation
Indices: 1055588--1055639 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
1055578 CAACGAGAAA
1055588 AATGAAAATCGCAA--CG
1 AATGAAAATCGCAACGCG
*
1055604 -A-GAGAATCGCAACGCG
1 AATGAAAATCGCAACGCG
1055620 AATGAAAATCGCAACGCG
1 AATGAAAATCGCAACGCG
1055638 AA
1 AA
1055640 ACCAAAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (18 bp):
AATGAAAATCGCAACGCG
Found at i:1055648 original size:19 final size:18
Alignment explanation
Indices: 1055608--1055651 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1055598 GCAACGAGAG
**
1055608 AATCGCAACGCGAATGAA
1 AATCGCAACGCGAACCAA
1055626 AATCGCAACGCGAAACCAA
1 AATCGCAACGCG-AACCAA
1055645 AATCGCA
1 AATCGCA
1055652 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (18 bp):
AATCGCAACGCGAACCAA
Found at i:1055669 original size:19 final size:19
Alignment explanation
Indices: 1055647--1055744 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
1055637 GAAACCAAAA
*
1055647 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1055666 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1055680 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1055699 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1055713 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1055732 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1055745 CTCTCGTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
16 6 0.09
17 6 0.09
19 32 0.50
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1055688 original size:14 final size:14
Alignment explanation
Indices: 1055669--1055756 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
1055659 TTTCATTTCG
1055669 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1055683 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1055702 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1055716 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1055735 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1055749 CGTTGCGA
1 CGTTGCGA
1055757 CAGTCATTCT
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 28 0.47
16 6 0.10
17 6 0.10
19 20 0.33
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1055764 original size:33 final size:33
Alignment explanation
Indices: 1055652--1055756 Score: 210
Period size: 33 Copynumber: 3.2 Consensus size: 33
1055642 CAAAATCGCA
1055652 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1055685 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1055718 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1055751 TTGCGA
1 TTGCGA
1055757 CAGTCATTCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1055764 original size:66 final size:67
Alignment explanation
Indices: 1055652--1055778 Score: 211
Period size: 66 Copynumber: 1.9 Consensus size: 67
1055642 CAAAATCGCA
***
1055652 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT-TCGCGTTGCGATTCTCT
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTCTCT
1055716 CG
66 CG
*
1055718 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGACAGTCATTCTCTCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATT
1055779 TTCATTTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
66 44 0.79
67 12 0.21
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.44
Consensus pattern (67 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTCTCT
CG
Found at i:1057663 original size:93 final size:93
Alignment explanation
Indices: 1057466--1057775 Score: 579
Period size: 93 Copynumber: 3.4 Consensus size: 93
1057456 ATTGCTTAGT
*
1057466 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-AGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1057529 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
1057557 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1057622 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
* *
1057650 AATTTGTTCGGTTGCTGCCAATTCTGCTAAAGTGTGTATTCTTTAACACTGTGAAATAATATTTG
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1057715 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
66 TCTTTGTTTTGTCTTTTGGTTGAAAGTA
1057743 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1057776 AATACCCTGA
Statistics
Matches: 213, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
91 52 0.24
92 2 0.01
93 159 0.75
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
TCTTTGTTTTGTCTTTTGGTTGAAAGTA
Found at i:1057910 original size:14 final size:14
Alignment explanation
Indices: 1057891--1057947 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1057881 CGAAACTTAA
1057891 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1057905 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1057924 AATCGCAACGACAG
1 AATCGCAACGAGAG
1057938 AATCGCAACG
1 AATCGCAACG
1057948 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1057929 original size:19 final size:18
Alignment explanation
Indices: 1057905--1057996 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
1057895 GCAACGAGAG
1057905 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
1057924 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
1057938 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
1057957 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
1057971 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
1057990 AATCGCA
1 AATCGCA
1057997 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:1057931 original size:33 final size:33
Alignment explanation
Indices: 1057873--1057996 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
1057863 TAGTTTACTT
* * *
1057873 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
1057907 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
1057940 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
1057973 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
1057997 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:1057973 original size:14 final size:14
Alignment explanation
Indices: 1057922--1057980 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1057912 ACGCGAAATG
1057922 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1057936 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
1057955 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1057969 AAAATCGCAACG
1 AAAATCGCAACG
1057981 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1058014 original size:19 final size:19
Alignment explanation
Indices: 1057992--1058145 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
1057982 GAAACCAAAA
*
1057992 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1058011 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1058025 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1058044 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1058060 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1058077 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
** *
1058096 TCTTGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1058115 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1058135 TCGTGTTGCGA
1 TCGCGTTGCGA
1058146 AAGTAAACTA
Statistics
Matches: 105, Mismatches: 19, Indels: 21
0.72 0.13 0.14
Matches are distributed among these distances:
14 17 0.16
16 8 0.08
17 8 0.08
19 60 0.57
20 12 0.11
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1058033 original size:14 final size:14
Alignment explanation
Indices: 1058014--1058070 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1058004 TTTCATTTCG
1058014 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1058028 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
1058045 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
1058061 CGTTGCGATT
1 CGTTGCGATT
1058071 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1058039 original size:33 final size:33
Alignment explanation
Indices: 1057997--1058127 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 33
1057987 CAAAATCGCA
1057997 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1058030 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1058063 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCTTG
1 TTGCGATTTTCATTTCGCGTTGCGA---T--TCTCTCG
*
1058101 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1058128 TTAAGTTTCG
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
33 56 0.65
35 1 0.01
36 1 0.01
38 28 0.33
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1060087 original size:14 final size:14
Alignment explanation
Indices: 1060054--1060089 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
1060044 GATTGTTTAA
1060054 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
1060068 -TGATTTGTAAAAG
1 TTGATTTGTAAAAG
1060081 TTGATTTGT
1 TTGATTTGT
1060090 GTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:1060256 original size:20 final size:19
Alignment explanation
Indices: 1060180--1060266 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
1060170 GCATTATGTT
1060180 GAAATG-AAATCGCAATGC
1 GAAATGAAAATCGCAATGC
1060198 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
1060215 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
1060231 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
1060250 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
1060267 CGAGATAATC
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 7 0.12
19 22 0.37
20 16 0.27
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:1060298 original size:53 final size:53
Alignment explanation
Indices: 1060180--1060285 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
1060170 GCATTATGTT
1060180 GAAATG-AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
1060231 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGATAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1060284 GA
1 GA
1060286 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 6 0.12
52 12 0.23
53 34 0.65
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:1060303 original size:19 final size:19
Alignment explanation
Indices: 1060275--1060463 Score: 212
Period size: 19 Copynumber: 10.7 Consensus size: 19
1060265 AACGAGATAA
*
1060275 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1060294 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1060310 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1060327 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1060346 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
1060363 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1060380 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1060399 TCGCATTGCGATTTT-ATT
1 TCGCATTGCGATTTTCATT
1060417 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
1060435 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1060451 TCGCATTGCGATT
1 TCGCATTGCGATT
1060464 CTCTCGTTGC
Statistics
Matches: 145, Mismatches: 7, Indels: 36
0.77 0.04 0.19
Matches are distributed among these distances:
14 22 0.15
16 15 0.10
17 14 0.10
18 9 0.06
19 75 0.52
20 10 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1060338 original size:52 final size:52
Alignment explanation
Indices: 1060275--1060477 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
1060265 AACGAGATAA
*
1060275 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1060327 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
1060380 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTATTTCCGCATTGCGATTTTC--T
1 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTCTCT-CG--TTGCGATTTTCATT
*
1060435 T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1060478 GTAATTTCCG
Statistics
Matches: 139, Mismatches: 6, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
47 8 0.06
49 2 0.01
50 4 0.03
52 53 0.38
53 52 0.37
54 5 0.04
55 4 0.03
57 11 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1060390 original size:33 final size:34
Alignment explanation
Indices: 1060332--1060496 Score: 192
Period size: 33 Copynumber: 4.8 Consensus size: 34
1060322 TCATTTCGCA
1060332 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
1060366 TTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG
* *
1060402 CATTGCGATTTT-ATTTCCGCATTGCGATTTTCTTG
1 --TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
1060437 TTGGGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
* * **
1060470 TTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTTTCATTTCCGCATTGCGAT
1060497 AGTCAATGCA
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
33 47 0.42
34 28 0.25
35 6 0.05
36 6 0.05
37 4 0.04
38 20 0.18
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (34 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
Found at i:1060452 original size:71 final size:72
Alignment explanation
Indices: 1060313--1060463 Score: 268
Period size: 71 Copynumber: 2.1 Consensus size: 72
1060303 GATTCTCTCG
1060313 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCA
1060378 TTTCGCA
66 TTTCGCA
* * *
1060385 TTGCGATTTTCATTTCGCATTGCGATTTT-ATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCA
1060449 TTTCGCA
66 TTTCGCA
1060456 TTGCGATT
1 TTGCGATT
1060464 CTCTCGTTGC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 47 0.62
72 29 0.38
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCA
TTTCGCA
Found at i:1062765 original size:12 final size:12
Alignment explanation
Indices: 1062748--1062772 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1062738 TCTTCGGGGA
1062748 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1062760 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1062772 C
1 C
1062773 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1062981 original size:24 final size:24
Alignment explanation
Indices: 1062947--1062993 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1062937 CTGAAACATC
1062947 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1062971 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1062994 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1063716 original size:20 final size:20
Alignment explanation
Indices: 1063691--1063914 Score: 234
Period size: 20 Copynumber: 11.2 Consensus size: 20
1063681 TCAGTGTTAT
* *
1063691 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
1063711 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
1063731 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
1063751 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
*
1063771 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
1063791 GATATACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
*
1063811 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
1063831 TATTTACGGATACACGTTGC
1 GATTTACGGATTCGCGTTGC
* *
1063851 GGTTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
*
1063871 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
* **
1063891 GATTTTCATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
1063911 GATT
1 GATT
1063915 CTTGAAAATC
Statistics
Matches: 177, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 176 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:1063967 original size:21 final size:20
Alignment explanation
Indices: 1063882--1063979 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
1063872 ATTTATGTGT
* *
1063882 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
1063902 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
1063923 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
1063944 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
1063965 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1063980 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:1063975 original size:42 final size:43
Alignment explanation
Indices: 1063882--1063980 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1063872 ATTTATGTGT
* *
1063882 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
1063923 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
1063965 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1063981 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:1066299 original size:2 final size:2
Alignment explanation
Indices: 1066292--1066326 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1066282 TTAAATATGA
1066292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1066327 GTGTACCCGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1068819 original size:22 final size:21
Alignment explanation
Indices: 1068778--1068819 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1068768 GGAAGATGAA
*
1068778 TTATAAATTTTATGAATAAAT
1 TTATAAATTTTAAGAATAAAT
*
1068799 TTATAAAATTTTAAGAGTAAA
1 TTAT-AAATTTTAAGAATAAA
1068820 ATGTATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
TTATAAATTTTAAGAATAAAT
Found at i:1076462 original size:23 final size:23
Alignment explanation
Indices: 1076414--1076464 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1076404 TTGCATCTTT
*
1076414 ATTTTTTTCAAATTATTTAATTAA
1 ATTTTTTTAAAATTATTTAA-TAA
1076438 ATTTTTTTAAATATTATTTAA-AA
1 ATTTTTTTAAA-ATTATTTAATAA
1076461 ATTT
1 ATTT
1076465 AATCAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 10 0.40
25 9 0.36
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTTTAAAATTATTTAATAA
Found at i:1076573 original size:20 final size:20
Alignment explanation
Indices: 1076544--1076581 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1076534 ACATTCAAAT
*
1076544 AAAATGCAATATTATAACAC
1 AAAATACAATATTATAACAC
1076564 AAAATACAATATTATAAC
1 AAAATACAATATTATAAC
1076582 TTGCTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATACAATATTATAACAC
Found at i:1079355 original size:23 final size:23
Alignment explanation
Indices: 1079329--1079374 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1079319 TTTTTAATTC
1079329 GATAGCATCATTTAACTTTCCAA
1 GATAGCATCATTTAACTTTCCAA
1079352 GATAGCATCATTTAACTTTCCAA
1 GATAGCATCATTTAACTTTCCAA
1079375 CGTTGATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (23 bp):
GATAGCATCATTTAACTTTCCAA
Found at i:1080201 original size:2 final size:2
Alignment explanation
Indices: 1080189--1080253 Score: 100
Period size: 2 Copynumber: 34.0 Consensus size: 2
1080179 TTTTATAACC
*
1080189 AT AT A- AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT 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
1080229 AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1080254 CATACAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 3 0.05
2 55 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1080206 original size:21 final size:21
Alignment explanation
Indices: 1080189--1080253 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1080179 TTTTATAACC
1080189 ATATAATATATATATATATAT
1 ATATAATATATATATATATAT
* *
1080210 ATATATTATATTTATATATAT
1 ATATAATATATATATATATAT
*
1080231 ATATTATATATATATATATAT
1 ATATAATATATATATATATAT
1080252 AT
1 AT
1080254 CATACAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATAATATATATATATATAT
Found at i:1080253 original size:19 final size:19
Alignment explanation
Indices: 1080189--1080253 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
1080179 TTTTATAACC
1080189 ATATA-ATA-TATATATAT
1 ATATATATATTATATATAT
*
1080206 ATATATATATTATATTTAT
1 ATATATATATTATATATAT
1080225 ATATATATATTATATATAT
1 ATATATATATTATATATAT
1080244 ATATATATAT
1 ATATATATAT
1080254 CATACAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.11
18 3 0.07
19 36 0.82
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATATATATTATATATAT
Found at i:1080919 original size:31 final size:33
Alignment explanation
Indices: 1080853--1080923 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
1080843 TATATCTTAT
* * *
1080853 TTTACTTACAAAAATAATAGCAACGTGTTCAGA
1 TTTACTTACAAAAATAACAGCAACATATTCAGA
1080886 TTTACTTA-AAAAATAACAGCAACATATTC-GA
1 TTTACTTACAAAAATAACAGCAACATATTCAGA
1080917 TTTACTT
1 TTTACTT
1080924 GTAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 9 0.26
32 18 0.51
33 8 0.23
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (33 bp):
TTTACTTACAAAAATAACAGCAACATATTCAGA
Found at i:1083510 original size:2 final size:2
Alignment explanation
Indices: 1083505--1083529 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1083495 AAAATAAAAT
1083505 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
1083530 TAAAAAGAAA
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:1088089 original size:21 final size:21
Alignment explanation
Indices: 1088063--1088107 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1088053 GATTTCTGGG
* *
1088063 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1088084 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1088105 CAA
1 CAA
1088108 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1089704 original size:149 final size:149
Alignment explanation
Indices: 1089519--1089831 Score: 556
Period size: 149 Copynumber: 2.1 Consensus size: 149
1089509 GTCGAGGGTC
* * *
1089519 TACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATAC
1 TACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGAAACATAC
1089584 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
1089649 TGGCACTACGGTGCAATTA
131 TGGCACTACGGTGCAATTA
*
1089668 TACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGAAACATAC
1 TACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGAAACATAC
1089733 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
* *
1089798 TGGTACTACGGTGCAATTC
131 TGGCACTACGGTGCAATTA
1089817 TACGCGG-CACTTCGG
1 TACGCGGTC-CTTCGG
1089832 TGCAATTATA
Statistics
Matches: 157, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGAAACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
TGGCACTACGGTGCAATTA
Found at i:1091307 original size:23 final size:23
Alignment explanation
Indices: 1091260--1091309 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1091250 AATAACATAT
**
1091260 TAGGTAGCGCTTAGATAATGTAA
1 TAGGTAGCGCTTAGATAATAAAA
*
1091283 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTAGATAATAAAA
1091306 TAGG
1 TAGG
1091310 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (23 bp):
TAGGTAGCGCTTAGATAATAAAA
Found at i:1091364 original size:23 final size:23
Alignment explanation
Indices: 1091338--1091385 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1091328 ATCAAGTACA
*
1091338 ATAACA-AATTAGGTAGTGCTTAT
1 ATAACATAA-TAGGTAGCGCTTAT
*
1091361 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1091384 AT
1 AT
1091386 TGACCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1091371 original size:87 final size:87
Alignment explanation
Indices: 1091223--1091385 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
1091213 TATGTTATAT
* *
1091223 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAGATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGT
1091288 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
1091310 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGTGCTTATATAATATAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGT
1091375 AGCGCTTATAT
66 AGCGCTTATAT
1091386 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:1091751 original size:197 final size:198
Alignment explanation
Indices: 1091413--1091856 Score: 549
Period size: 198 Copynumber: 2.2 Consensus size: 198
1091403 AAAACGATAA
* * * * * *
1091413 ATTTAAACCGGTTACATTATAAATTGACCTATTACATTATAAATATCGGTTTCGATGTTTTCAGG
1 ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCAATGTTTTCAGG
* * *
1091478 ATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACTCGTTTGTGCTTTATTTTGGAAA
66 ATCGATACAATTTTAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGGAAA
* * * * * *
1091543 AAAGTATCGACACATATTTAA-AGAGTGTCGATACATAATGTAGACCTATTTGCTAATTAA-CCG
131 AAAGTATCGACACAAATTAAACAAAGTGTCCATACATAATGTAGACCTATCT-CTAATGAACCCG
1091606 GTAT
195 GTAT
* * *
1091610 ATTTTAACCGGTTACATTGTAAATTTACCTGTTACATAATAATTATCGATTTCAATGTTTTGAGG
1 ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCAATGTTTTCAGG
* *
1091675 ATCGATAC-TTTTTAAAAATGTATCGACACTTTATGCGTACACCTCGTTTG-CCATTCATTTT-G
66 ATCGATACAATTTT--AAATGTATCGACACTTTATGCGTACAACTCGTTTGTCC-TTCATTTTGG
* * * * * *
1091737 AAAAATGTATCGACACAAATTAAACAAATTGTCCATACTTTATGTTGACCTATCTCTCATGAACC
128 AAAAAAGTATCGACACAAATTAAACAAAGTGTCCATACATAATGTAGACCTATCTCTAATGAACC
1091802 CGGTAT
193 CGGTAT
* *
1091808 ATTTCT-ACCGGTTACATTGGAAATTTACCTATTACATTATATTTATCGA
1 ATTT-TAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGA
1091857 CACAAAATCT
Statistics
Matches: 211, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
196 4 0.02
197 93 0.44
198 113 0.54
199 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (198 bp):
ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCAATGTTTTCAGG
ATCGATACAATTTTAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGGAAA
AAAGTATCGACACAAATTAAACAAAGTGTCCATACATAATGTAGACCTATCTCTAATGAACCCGG
TAT
Found at i:1095450 original size:201 final size:200
Alignment explanation
Indices: 1094930--1095913 Score: 1105
Period size: 201 Copynumber: 4.9 Consensus size: 200
1094920 TAATTTTCAA
* * *
1094930 AAGTATCGACACTAATTTAA-AAAGTGTCGATACATTCTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACAC-AAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGG
* *
1094994 TAAATTTAAACCGGTTACATTGTAAAGTGACATATTACATTATAATTGCGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* **
1095059 AGGATCGACACTTTTT-TAAATGTATCGACACTTTTTCGTGAACTT-GTTTGGAAAATTTATTAT
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGG-AAATACATTAT
1095122 GGACATA-
194 GGACA-AC
* * * * * *
1095129 AAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCT-TTTT-TTA-AATAACCAG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAA-AACCGG
* * * * * * * * *
1095191 TATATTTAGACCGGTTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGATGTTTGT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * *
1095256 AGGATCAACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATACATTCT
130 GGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAATACATTAT
1095321 GGACAAC
194 GGACAAC
* * * *
1095328 ATGTATCGACATAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTTTCTCATAAAAACGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGG
* *
1095392 TAAATTTAAACCGCTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* ** * * *
1095457 GGGATTGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTAGAAAACAC
130 GGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTG----GTTT-GGAAATAC
1095521 ATTATGGAC-AC
189 ATTATGGACAAC
* ** * * * *
1095532 AAAGTATC-AGTACAAATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCAT-AAACCG
1 -AAGTATCGA-CACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCG
* * * * ** * *
1095595 GTATACTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTACGGATTTCGATGTTTT
64 GTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTT
* * *
1095660 TGGGATCGATACTTTTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTTGGAAATACATTC
129 TGGGATCGACACTTTTTATAAATGTATCGACAC-TTTTTCGTGAACTTGGTTTGGAAATACATTA
1095725 TGGACAAC
193 TGGACAAC
* * * * *
1095733 ATGTATCGACACAAATGAATAAAGTATCAACACA-AATTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGG
*
1095797 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* ** * *
1095862 GGGATCGATACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTG
130 GGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTGGTTTG
1095914 TTTGAAAACA
Statistics
Matches: 647, Mismatches: 112, Indels: 51
0.80 0.14 0.06
Matches are distributed among these distances:
196 2 0.00
197 76 0.12
198 29 0.04
199 94 0.15
200 86 0.13
201 192 0.30
202 3 0.00
204 98 0.15
205 65 0.10
206 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (200 bp):
AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGT
AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
GGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAATACATTATGG
ACAAC
Found at i:1095734 original size:405 final size:403
Alignment explanation
Indices: 1094932--1095936 Score: 1501
Period size: 405 Copynumber: 2.5 Consensus size: 403
1094922 ATTTTCAAAA
* * *
1094932 GTATCGACACTAATTTAA-AAAGTGTCGATACAT-TCTGTAGACCTATTTTCTCATAAAACCGGT
1 GTATCGACA-TAAATGAATAAAGTGTCGACACATAT-TGTAGACCTATTTTCTCATAAAACCGGT
* * * *
1094995 AAATTTAAACCGGTTACATTGTAAAGTGACATATTACATTATAATTGCGGGTTTCGATGTTTTTA
64 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTG
* * * ***
1095060 GGATCGACACTT-TTTTAAATGTATCGACACTT-TTTCGTGAACTTG-TTTG---GAAAATTTAT
129 GGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGAAAACACAT
* * * *
1095119 TATGGACATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTAAA
193 TATGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAAA
* *
1095184 TAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGA
258 TAACCAGTATACTTAGACCGGTTACATTGTTATGTTACCGATTACATTATAATTACGTGTTTCGA
1095249 TGTTTGTAGGATCAACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAAT
323 TGTTTGTAGGATCAACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAAT
1095314 ACATTCTGGACAACAT
388 ACATTCTGGACAACAT
*
1095330 GTATCGACATAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAAACGGTAA
1 GTATCGACATAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
*
1095395 ATTTAAACCGCTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
*
1095460 ATTGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTAGAAAACACATTA
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTT-GAAAACACATTA
* * * * *
1095525 TGGACACAAAGTATC-AGTACAAATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCAT
195 TGGACACAAAGTATCGA-CACAAATGTATAAAGTATCGATACATTATGAATACCT-TTTT-TCAA
* * *
1095589 A-AACCGGTATACTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTACG-GATTTC
257 ATAACCAGTATACTTAGACCGGTTACATTGTTATGTTACCGATTACATTATAATTACGTG-TTTC
* * * * *
1095652 GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTTGGAA
321 GATGTTTGTAGGATCAACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAA
1095717 ATACATTCTGGACAACAT
386 ATACATTCTGGACAACAT
* * * *
1095735 GTATCGACACAAATGAATAAAGTATCAACACAAATTGTAGACCTATTTTCTCATAAAACCGGTAA
1 GTATCGACATAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
1095800 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
*
1095865 ATCGATACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGAAAACACATTAT
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGAAAACACATTAT
1095930 GGACACA
196 GGACACA
1095937 TTATGGACAC
Statistics
Matches: 551, Mismatches: 43, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
397 6 0.01
398 121 0.22
399 27 0.05
400 7 0.01
403 1 0.00
404 75 0.14
405 311 0.56
406 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (403 bp):
GTATCGACATAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGAAAACACATTAT
GGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAAATAA
CCAGTATACTTAGACCGGTTACATTGTTATGTTACCGATTACATTATAATTACGTGTTTCGATGT
TTGTAGGATCAACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATACA
TTCTGGACAACAT
Found at i:1095937 original size:11 final size:11
Alignment explanation
Indices: 1095921--1095946 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1095911 TTGTTTGAAA
1095921 ACACATTATGG
1 ACACATTATGG
1095932 ACACATTATGG
1 ACACATTATGG
1095943 ACAC
1 ACAC
1095947 TTTTGCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (11 bp):
ACACATTATGG
Found at i:1098031 original size:180 final size:182
Alignment explanation
Indices: 1097432--1098018 Score: 844
Period size: 182 Copynumber: 3.2 Consensus size: 182
1097422 ATTAAAGTAC
* * * * * *
1097432 CGACACTTTCAACATAACC-GATAGCG-TTTACCGGTTTTGTCATTTCGATACCGGTTTTATCAT
1 CGACACTTTCAATATATCCAG-TAGCGTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCAT
* * ** *
1097495 ATTTTTACCTATTATATTGTTATGGATCGATACATTTTCT-TAAAGTATCGACACTTTTTAGGCG
65 ATTATTACCTGTTATATTACTATGGATCGATACATTTT-TATAAAGTATCGACACCTTTTAGGCG
* *
1097559 CTATAATTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
129 CTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * * * * *
1097613 CGACACTTTCAATATATCCGGTATCTTTTTACCGGCTTTATCATTTCGAGACATCTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
* * *
1097678 TTATTACCGGATATATTACTATGGATCGATACATTTGTATAAAGTATCGACA-CTTTTCAGGCGC
66 TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTT-AGGCGC
1097742 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
*
1097795 CGACACTTTCAATATATCCAGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCAGTAGCGTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
* ** * *
1097860 TTATTA-CTGTTATATTACTAT-GATTGCCACATTTTTATAAAGTATCGACACCTTTTAAGCGAT
66 TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
1097923 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
*
1097975 CGACACTTTCAATATATCCAGTAGCGCTTTACCGGTTTTATCAT
1 CGACACTTTCAATATATCCAGTAGCGTTTTACCGGTTTTATCAT
1098019 ATTTTTACCT
Statistics
Matches: 365, Mismatches: 36, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
180 124 0.34
181 43 0.12
182 198 0.54
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (182 bp):
CGACACTTTCAATATATCCAGTAGCGTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATA
TTATTACCTGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACCTTTTAGGCGCT
ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
Found at i:1102074 original size:16 final size:16
Alignment explanation
Indices: 1102053--1102129 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
1102043 ATATATTTTA
*
1102053 ATTATATTTATTTATT
1 ATTATATTTAATTATT
* *
1102069 ATTATATTTAATAATC
1 ATTATATTTAATTATT
*
1102085 AATAT-TATTAATTATT
1 ATTATAT-TTAATTATT
*
1102101 ATTATATTTATTTATT
1 ATTATATTTAATTATT
1102117 ATTA-ATTTCAATT
1 ATTATATTT-AATT
1102130 TGAAAGATCC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 5 0.10
16 43 0.88
17 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATATTTAATTATT
Found at i:1102800 original size:22 final size:23
Alignment explanation
Indices: 1102775--1102833 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
1102765 ATCAAGCACA
* *
1102775 ATAACATATTAGGTA-CGCTTAT
1 ATAACATAATAGGTAGCACTTAT
**
1102797 ATAATGTAATAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
* *
1102820 ATAATAAAATAGGT
1 ATAACATAATAGGT
1102834 TAATTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:1102822 original size:23 final size:22
Alignment explanation
Indices: 1102784--1102833 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1102774 AATAACATAT
* **
1102784 TAGGTACGCTTATATAATGTAA
1 TAGGTACACTTATATAATAAAA
1102806 TAGGTAGCACTTATATAATAAAA
1 TAGGTA-CACTTATATAATAAAA
1102829 TAGGT
1 TAGGT
1102834 TAATTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (22 bp):
TAGGTACACTTATATAATAAAA
Found at i:1102886 original size:157 final size:158
Alignment explanation
Indices: 1102598--1102954 Score: 563
Period size: 157 Copynumber: 2.3 Consensus size: 158
1102588 TCATTTAACC
* ** * * **
1102598 GGAAATATTATCAAATACAATAACATATTAGGTAGCTCTTTTATAATGTAATAAGTAGCGTTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCACTTAT
**
1102663 ATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTA
66 ATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAAAATTA
** *
1102728 CCAAGGATAACATAGTCGGTTAATTATT
131 CCAAGGATAACATAACCGGTTAATTACT
*
1102756 GGAAACATTATCAAGCACAATAACATATTAGGTA-CGCTTATATAATGTAATAGGTAGCACTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCACTTAT
*
1102820 ATAATAAAATAGGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAAAATTA
66 ATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAAAATTA
1102885 CCAAGGATAACATAACCGGTTAATTACT
131 CCAAGGATAACATAACCGGTTAATTACT
* *
1102913 GGAAACATTATCAAGCACAATAACATATTATGTAGTGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
1102955 GTAACAAAAT
Statistics
Matches: 182, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 145 0.80
158 37 0.20
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (158 bp):
GGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCACTTAT
ATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAAAATTA
CCAAGGATAACATAACCGGTTAATTACT
Found at i:1103174 original size:72 final size:70
Alignment explanation
Indices: 1103034--1103276 Score: 342
Period size: 72 Copynumber: 3.4 Consensus size: 70
1103024 AAAATTTAAA
* * *
1103034 CTACCTATAACATTAAAATATCTACCGATTTTTTTTAAGGTTGTTAATAATGTAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTACCG-GTTTTTTTAAGGTTGTTAATAATGTAAACGGTAAAAA
1103099 AATAGACT
65 AATAG--T
* * * *
1103107 CTACCTATTACATTAAAATACCTAACGGTTTTTTGAAGTTTGCTAATAATGTAAACGGTAAAAAA
1 CTACCTATTACATTAAAATACCTACCGGTTTTTTTAAGGTTGTTAATAATGTAAACGGTAAAAAA
1103172 ATAGT
66 ATAGT
1103177 GCTACCTATTACATTAAAATACCTACCGGATTTTTTTAAGGTTGTTAATAATGTAAACGGTAAAA
1 -CTACCTATTACATTAAAATACCTACCGG-TTTTTTTAAGGTTGTTAATAATGTAAACGGT-AAA
1103242 AAAATAGT
63 AAAATAGT
* *
1103250 GTTACCTATTACATTAAACTACCTACC
1 -CTACCTATTACATTAAAATACCTACC
1103277 AGATATGTTG
Statistics
Matches: 154, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.01
71 27 0.18
72 66 0.43
73 60 0.39
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (70 bp):
CTACCTATTACATTAAAATACCTACCGGTTTTTTTAAGGTTGTTAATAATGTAAACGGTAAAAAA
ATAGT
Found at i:1103543 original size:90 final size:90
Alignment explanation
Indices: 1103442--1103623 Score: 274
Period size: 90 Copynumber: 2.0 Consensus size: 90
1103432 ATTATGACAA
* * *
1103442 AACCGGTAAAGAGCTATTGGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATACTTT
1 AACCGGTAAAGAGCTACTAGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATACTTC
*
1103507 ACAACACAACAGATAAAAATATGAC
66 ACAACACAACAGATAAAAATATAAC
* * *
1103532 AACCGGTAAAGATCTACTAGATATGTTGGAAGTATCGATACTTTATAAAAATGTATTGATACTTC
1 AACCGGTAAAGAGCTACTAGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATACTTC
* * *
1103597 ACAATATAACAGGTAAAAATATAAC
66 ACAACACAACAGATAAAAATATAAC
1103622 AA
1 AA
1103624 AATCAGTTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (90 bp):
AACCGGTAAAGAGCTACTAGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATACTTC
ACAACACAACAGATAAAAATATAAC
Found at i:1103706 original size:91 final size:91
Alignment explanation
Indices: 1103584--1103778 Score: 327
Period size: 91 Copynumber: 2.1 Consensus size: 91
1103574 TTATAAAAAT
* * * *
1103584 GTATTGATACTTCACAATATAACAGGTAAAAATATAACAAAATCAGTTTCATTATGACAAAACCG
1 GTATCGATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGATTCATTATGACAAAACCG
1103649 GTAAAGAGCTACCTAATATGTTGAAA
66 GTAAAGAGCTACCTAATATGTTGAAA
* *
1103675 GTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGATTCATTATGACAAAACCG
1 GTATCGATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGATTCATTATGACAAAACCG
*
1103740 GTAAGGAGCTACCTAATATGTTGAAA
66 GTAAAGAGCTACCTAATATGTTGAAA
1103766 GTATCGATACTTT
1 GTATCGATACTTT
1103779 TTGTAAAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 97 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (91 bp):
GTATCGATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGATTCATTATGACAAAACCG
GTAAAGAGCTACCTAATATGTTGAAA
Found at i:1103892 original size:116 final size:114
Alignment explanation
Indices: 1103675--1103950 Score: 401
Period size: 116 Copynumber: 2.4 Consensus size: 114
1103665 TATGTTGAAA
*
1103675 GTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGATTCATTATGACAAAACCG
1 GTATCAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGATTCATTATGACAAAACCG
* * * * *
1103740 GTAAGGAGCTACCTAATATGTTGAAAGTATCGATACTTTTTGTAAAAAAAAT
66 GTAAAGAACTACATAATATGTTGAAAATATCAATACTTTTTGT---AAAAAT
* * *
1103792 GTATTAATACTTTACAATATAACA-GTAAAAATATGACAAAATCAGTTTCATTATGACAAAACCG
1 GTATCAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGATTCATTATGACAAAACCG
** *
1103856 GTAAAGAACTACATGCTATGTTGAAAATGTCAATACTTTTTGTAAAAAT
66 GTAAAGAACTACATAATATGTTGAAAATATCAATACTTTTTGTAAAAAT
*
1103905 GTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAG
1 GTATCAATACTTTACAATATAACATGTAAAAATATGACAAAACCAG
1103951 GTAAAAAGCT
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 28 0.20
114 20 0.14
116 73 0.51
117 22 0.15
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (114 bp):
GTATCAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGATTCATTATGACAAAACCG
GTAAAGAACTACATAATATGTTGAAAATATCAATACTTTTTGTAAAAAT
Found at i:1104027 original size:93 final size:93
Alignment explanation
Indices: 1103843--1104040 Score: 301
Period size: 93 Copynumber: 2.1 Consensus size: 93
1103833 TCAGTTTCAT
**
1103843 TATGACAAAACCGGTAAAGAACTACATGCTATGTTGAAAATGTCAATACTTTTTGTAAAAATGTA
1 TATGACAAAACCGGTAAAGAACTACATAATATGTTGAAAATGTCAATACTTTTTGT-AAAATGTA
1103908 TCGATACTTTACAATATAACATGTAAAAA
65 TCGATACTTTACAATATAACATGTAAAAA
* * * *
1103937 TATGACAAAACCAGGTAAA-AAGCTACCTAATATGTTGAAAGTGTCAATATTTTTTGT-ACATGT
1 TATGACAAAACC-GGTAAAGAA-CTACATAATATGTTGAAAATGTCAATACTTTTTGTAAAATGT
1104000 ATCGATACTTTACAATATAACATGTAAAAA
64 ATCGATACTTTACAATATAACATGTAAAAA
1104030 TATGACAAAAC
1 TATGACAAAAC
1104041 TTGTTTCATT
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
93 46 0.48
94 14 0.15
95 36 0.38
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (93 bp):
TATGACAAAACCGGTAAAGAACTACATAATATGTTGAAAATGTCAATACTTTTTGTAAAATGTAT
CGATACTTTACAATATAACATGTAAAAA
Found at i:1104106 original size:207 final size:202
Alignment explanation
Indices: 1103358--1104103 Score: 803
Period size: 207 Copynumber: 3.6 Consensus size: 202
1103348 TCGCGCCTAT
* ** * *
1103358 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGATAAAAATATGACAAA
1 AAAGTATCGATACTTTTTGTAAATGTATCGATACTTTACAATATAACAG-TAAAAATATGACAAA
* *** *
1103423 ACCAGTTTCATTATGACAAAACCGGTAAAGAGCTATTGGATATGTTGAAAGTATCGATAC--TTT
65 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTATCAATACTTTTT
*
1103486 ATAAAAATGTATCGATACTTTACAACACAACAGATAAAAATATGAC--AACCGGTAAAGATCTA-
130 ATAAAAATGTATCGATACTTTACAA-A-AACAG-TAAAAATATGACAAAACCGGTAAAGAGCTAC
1103548 CTAGATATGTTG
192 CTA-ATATGTTG
* * ** * * *
1103560 GAAGTATCGATACTTTATAAAAATGTATTGATACTTCACAATATAACAGGTAAAAATATAACAAA
1 AAAGTATCGATACTTTTTGTAAATGTATCGATACTTTACAATATAACA-GTAAAAATATGACAAA
*
1103625 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTA-ATATGTTGAAAGTATCGATACTTTA
65 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACC-AGATATGTTGAAAGTATCAATACTTT-
** * *** * * ** * *
1103689 CAATATAACATGTAAAAATA--TGACAAAACCAG-ATTCATTATGACAAAACCGGTAAGGAGCTA
128 TTATA-AAAATGTATCGATACTTTACAAAAACAGTA-AAAATATGACAAAACCGGTAAAGAGCTA
1103751 CCTAATATGTTG
191 CCTAATATGTTG
**
1103763 AAAGTATCGATACTTTTTGTAAAAAAAATGTATTAATACTTTACAATATAACAGTAAAAATATGA
1 AAAGTATCGATACTTTTTGT-----AAATGTATCGATACTTTACAATATAACAGTAAAAATATGA
* * * *
1103828 CAAAATCAGTTTCATTATGACAAAACCGGTAAAGAACTA-CATGCTATGTTGAAAATGTCAATAC
61 CAAAATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCA-GATATGTTGAAAGTATCAATAC
* *
1103892 TTTTTGTAAAAATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAAACCAGGTAAAA
125 TTTTTATAAAAATGTATCGATACTTTACAA-A-AACA-GTAAAAATATGACAAAACC-GGTAAAG
1103957 AGCTACCTAATATGTTG
186 AGCTACCTAATATGTTG
* * * *
1103974 AAAGTGTCAATATTTTTTGTACATGTATCGATACTTTACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATACTTTTTGTAAATGTATCGATACTTTACAATATAACA-GTAAAAATATGACAAA
* * *
1104039 A-CTTGTTTCATTATGACAAAATCGGTAAAGAGCTACCAGATATGTTGAAAGTATTAATACTTTT
65 ATC-AGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTATCAATACTTTT
1104103 T
129 T
1104104 GTATATGTAT
Statistics
Matches: 456, Mismatches: 61, Indels: 49
0.81 0.11 0.09
Matches are distributed among these distances:
200 1 0.00
201 7 0.02
202 117 0.26
203 40 0.09
204 9 0.02
205 14 0.03
206 39 0.09
207 143 0.31
208 29 0.06
209 3 0.01
210 14 0.03
211 40 0.09
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (202 bp):
AAAGTATCGATACTTTTTGTAAATGTATCGATACTTTACAATATAACAGTAAAAATATGACAAAA
TCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTATCAATACTTTTTA
TAAAAATGTATCGATACTTTACAAAAACAGTAAAAATATGACAAAACCGGTAAAGAGCTACCTAA
TATGTTG
Found at i:1107276 original size:25 final size:25
Alignment explanation
Indices: 1107245--1107296 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1107235 CAAAGAAATA
1107245 ATATCAAGAAACTTGATATGATAAT
1 ATATCAAGAAACTTGATATGATAAT
1107270 ATATCAAGAAACTTGATATGATAAT
1 ATATCAAGAAACTTGATATGATAAT
1107295 AT
1 AT
1107297 GTGTGTTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (25 bp):
ATATCAAGAAACTTGATATGATAAT
Found at i:1108572 original size:18 final size:18
Alignment explanation
Indices: 1108549--1108588 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
1108539 TATGAAGTGG
1108549 ATTTGGATACAATTGTAT
1 ATTTGGATACAATTGTAT
1108567 ATTTGGATACAATTGTAT
1 ATTTGGATACAATTGTAT
1108585 ATTT
1 ATTT
1108589 TGATCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (18 bp):
ATTTGGATACAATTGTAT
Found at i:1110130 original size:18 final size:18
Alignment explanation
Indices: 1110104--1110138 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1110094 AGTTGAAATG
*
1110104 AAGTAATTTTTGGGCTAA
1 AAGTAATTTCTGGGCTAA
*
1110122 AAGTGATTTCTGGGCTA
1 AAGTAATTTCTGGGCTA
1110139 GGGGTATCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (18 bp):
AAGTAATTTCTGGGCTAA
Done.