Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 128 of 207
Found at i:39157577 original size:20 final size:18
Alignment explanation
Indices: 39157491--39157591 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 18
39157481 ATTTTTTTAT
* *
39157491 AAAATTAATAAAACATATTT
1 AAAATT-ATAAAA-AAATTA
* *
39157511 AAAATTTTATAAAAATGTA
1 AAAATTATAAAAAAAT-TA
*
39157530 TTAAAATTCTATAAAAAATTA
1 --AAAATTATA-AAAAAATTA
39157551 AAAATTATAAAAAAATATA
1 AAAATTATAAAAAAAT-TA
* * *
39157570 AGATATTATAAGAATATTA
1 A-AAATTATAAAAAAATTA
39157589 AAA
1 AAA
39157592 TTGATATGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
18 11 0.17
19 19 0.30
20 18 0.28
21 10 0.16
22 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATTATAAAAAAATTA
Found at i:39158143 original size:21 final size:21
Alignment explanation
Indices: 39158099--39158143 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
39158089 GAGTTTTCAT
*
39158099 ATTTTTTATAGTTTTTTTACA
1 ATTTTTTATAGTTTTTTAACA
*
39158120 ATTTTTTATTA-TTTTTTAAGA
1 ATTTTTTA-TAGTTTTTTAACA
39158141 ATT
1 ATT
39158144 CTATCATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTTTTTATAGTTTTTTAACA
Found at i:39158548 original size:20 final size:18
Alignment explanation
Indices: 39158516--39158566 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
39158506 GTTATTTATA
*
39158516 ATTTCTTATAATTCTTAAT
1 ATTTTTTATAATT-TTAAT
**
39158535 ATTTTTTAATAATTTTTGT
1 ATTTTTT-ATAATTTTAAT
39158554 ATTTTTTATAATT
1 ATTTTTTATAATT
39158567 ATTTAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 16 0.57
20 6 0.21
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTTATAATTTTAAT
Found at i:39158571 original size:10 final size:9
Alignment explanation
Indices: 39158510--39158571 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
39158500 AATCTAGTTA
39158510 TTTATAATT
1 TTTATAATT
39158519 TCTTATAATT
1 T-TTATAATT
* *
39158529 CTTAATATTT
1 -TTTATAATT
39158539 TTTAATAATT
1 TTT-ATAATT
* *
39158549 TTTGTATTT
1 TTTATAATT
39158558 TTTATAATT
1 TTTATAATT
39158567 ATTTA
1 -TTTA
39158572 AGAAACTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
9 14 0.34
10 26 0.63
11 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:39160113 original size:26 final size:27
Alignment explanation
Indices: 39160066--39160133 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
39160056 TAAATTTATG
*
39160066 TATTTTTTTTAATTCGGCACTT-AAGTT
1 TATTTTTTTTAATTCAGCACTTGAA-TT
* *
39160093 T-TTTTTTTTAATTTAGTACTTGAATT
1 TATTTTTTTTAATTCAGCACTTGAATT
39160119 TAATTTTTTTTAATT
1 T-ATTTTTTTTAATT
39160134 GAATTTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 20 0.57
27 3 0.09
28 12 0.34
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (27 bp):
TATTTTTTTTAATTCAGCACTTGAATT
Found at i:39165989 original size:17 final size:16
Alignment explanation
Indices: 39165960--39166003 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
39165950 TTTATGTAAG
*
39165960 AAAACAAAATCAAAAT
1 AAAAAAAAATCAAAAT
39165976 AAAAAAAAATTCAAAAT
1 AAAAAAAAA-TCAAAAT
39165993 ATGAAAAAAAA
1 A--AAAAAAAA
39166004 GCTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
19 8 0.33
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAAAAAATCAAAAT
Found at i:39175789 original size:14 final size:15
Alignment explanation
Indices: 39175764--39175792 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39175754 ATTGAATTAC
39175764 TTTTAGTTTTATTTA
1 TTTTAGTTTTATTTA
39175779 TTTTA-TTTTATTTA
1 TTTTAGTTTTATTTA
39175793 ACATAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTAGTTTTATTTA
Found at i:39179996 original size:31 final size:29
Alignment explanation
Indices: 39179932--39180000 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
39179922 ACGATAACGT
* *
39179932 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
39179961 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
39179992 AAGTGACTA
1 AAGTGACTA
39180001 TTTTGGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:39180599 original size:125 final size:125
Alignment explanation
Indices: 39180403--39180754 Score: 607
Period size: 125 Copynumber: 2.8 Consensus size: 125
39180393 TTATTTCGAG
*
39180403 TTGAAGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGT
39180467 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
* * *
39180528 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
*
39180593 GAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
* *
39180653 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
* *
39180718 AAATCGCGCCCTCGTGGATGCGATTTTACTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
39180755 CAAGTTTGTG
Statistics
Matches: 213, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 212 1.00
126 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
Found at i:39183876 original size:10 final size:10
Alignment explanation
Indices: 39183861--39183885 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39183851 CAAATCTAAC
39183861 ATTATGTAAA
1 ATTATGTAAA
39183871 ATTATGTAAA
1 ATTATGTAAA
39183881 ATTAT
1 ATTAT
39183886 TAAGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:39183928 original size:55 final size:55
Alignment explanation
Indices: 39183869--39184050 Score: 262
Period size: 55 Copynumber: 3.3 Consensus size: 55
39183859 ACATTATGTA
*
39183869 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
* *
39183924 AAATTATGTAAAATTATTAAG-CCAAAAAAATTTTAATTAA--ATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC--AAAAATTTT-GTTAATGGTTA-GTAAAATTATC
* *
39183980 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAATTTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
39184035 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
39184051 GGTTAGGGTT
Statistics
Matches: 113, Mismatches: 7, Indels: 14
0.84 0.05 0.10
Matches are distributed among these distances:
54 6 0.05
55 58 0.51
56 43 0.38
57 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
Found at i:39183936 original size:18 final size:18
Alignment explanation
Indices: 39183913--39183996 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
39183903 TTAATGGTTA
39183913 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
* ***
39183931 GTAAAATTATTAAGCCA-
1 GTAAAATTATCAAATTAT
** * *
39183948 AAAAAATTTTAATTAAATTAG
1 GTAAAA--TT-ATCAAATTAT
39183969 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
39183987 GTAAAATTAT
1 GTAAAATTAT
39183997 TAAGTCCAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
17 4 0.08
18 31 0.63
19 4 0.08
20 6 0.12
21 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:39184095 original size:35 final size:29
Alignment explanation
Indices: 39184048--39184466 Score: 211
Period size: 29 Copynumber: 15.2 Consensus size: 29
39184038 TTATGTAAAA
39184048 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
39184077 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
39184106 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
* * * *
39184135 TTAGGGTT----TTA----ATTAAACTATG
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
39184157 TTAGGGTTA-GG--A---TTTTTAATTAA-
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
*
39184180 ----GTTAGGGTT----TTTAATTAAGTTAGG
1 TTAGGTTAGGGTTAGGGTTT--TTAA-TTAAG
39184204 TTAGGGTTA-GG--A---TTTTTAATTAAG
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
* * * *
39184228 TTAGGGTT---TTTA----ATTAAATTAGG
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
* *
39184251 TTAGGGTTAGGGTTAGAGTTTTTAATTTAG
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
* *
39184281 TTAGGTTAGAGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
39184310 TTAGGTTAGGGTTAGGGTTTTTAATTAA-
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
39184338 --A--TTA-GGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
**
39184362 TTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGG
1 TTA-GG---TT-A--GGGTTAGGGTTTTTAATT--A--A-G
*
39184403 TTAGGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTA-GGTTAGGGTTAGGGTTTTTAATTAAG
39184433 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAG
39184462 TTAGG
1 TTAGG
39184467 GTTTTTAATC
Statistics
Matches: 316, Mismatches: 29, Indels: 90
0.73 0.07 0.21
Matches are distributed among these distances:
18 4 0.01
19 2 0.01
20 3 0.01
22 19 0.06
23 39 0.12
24 22 0.07
25 4 0.01
26 8 0.03
27 3 0.01
28 2 0.01
29 144 0.46
30 17 0.05
31 1 0.00
32 2 0.01
33 2 0.01
35 16 0.05
36 16 0.05
37 1 0.00
38 3 0.01
40 1 0.00
41 7 0.02
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (29 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAG
Found at i:39184140 original size:47 final size:47
Alignment explanation
Indices: 39184087--39184416 Score: 332
Period size: 47 Copynumber: 6.8 Consensus size: 47
39184077 TTAGGTTAGG
*
39184087 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * *
39184134 GTTAGGG-TTTTAATTAAACTATGTTAGGGTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
39184180 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
39184227 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTTAGTTAGGTTAGA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--G---G-GTTTTT-A---A-TTA------A
39184291 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* **** * * *
39184338 ATTA-GG-TTAGGGTT--TTTA-ATTA-AGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
39184379 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
39184417 AGGGTTTTTA
Statistics
Matches: 234, Mismatches: 25, Indels: 48
0.76 0.08 0.16
Matches are distributed among these distances:
41 21 0.09
42 5 0.02
43 7 0.03
45 7 0.03
46 47 0.20
47 88 0.38
49 1 0.00
52 1 0.00
53 8 0.03
54 2 0.01
57 2 0.01
58 9 0.04
59 1 0.00
62 1 0.00
64 34 0.15
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:39184146 original size:17 final size:18
Alignment explanation
Indices: 39184116--39184250 Score: 79
Period size: 18 Copynumber: 7.3 Consensus size: 18
39184106 TTAGGTTAGG
39184116 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
39184134 GTTAGGG-TTTTAATTAAACTA
1 GTTAGGGTTTTTAATT--A--A
39184155 TGTTAGGGTTAGGATTTTTAATTAA
1 -GTTAGGG-T-----TTTTAATTAA
39184180 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
39184198 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
39184209 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
39184227 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
39184245 ATTAGG
1 GTTAGG
39184251 TTAGGGTTAG
Statistics
Matches: 91, Mismatches: 7, Indels: 38
0.67 0.05 0.28
Matches are distributed among these distances:
11 4 0.04
12 1 0.01
13 1 0.01
14 2 0.02
15 2 0.02
16 1 0.01
17 10 0.11
18 43 0.47
19 1 0.01
21 1 0.01
22 7 0.08
23 1 0.01
24 7 0.08
25 1 0.01
27 1 0.01
29 8 0.09
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:39184193 original size:93 final size:93
Alignment explanation
Indices: 39184087--39184416 Score: 337
Period size: 93 Copynumber: 3.4 Consensus size: 93
39184077 TTAGGTTAGG
*
39184087 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTAAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTAAA
*
39184152 CTATGTTAGGGTTAGGATTTTTAATTAA
66 TTATGTTAGGGTTAGGATTTTTAATTAA
* *
39184180 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGG-TTTTAATTAA
*
39184245 ATTAGGTTAGGGTTAGGGTTAGAGTTTTTAATTTAGTTAGGTTAGA
65 ATTA---T---GTTAGGGTTAG-G------ATTT--TTA-ATTA-A
* **** *
39184291 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTT--T
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTAAA
* * *
39184353 TTA-ATTA-AGTTAGGGTTTTTAATTAA
66 TTATGTTAGGGTTAGGATTTTTAATTAA
39184379 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
39184417 AGGGTTTTTA
Statistics
Matches: 204, Mismatches: 15, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
88 39 0.19
89 3 0.01
90 3 0.01
92 3 0.01
93 53 0.26
94 13 0.06
97 1 0.00
98 1 0.00
99 5 0.02
100 14 0.07
101 1 0.00
107 7 0.03
109 7 0.03
110 5 0.02
111 49 0.24
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.46
Consensus pattern (93 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTAATTAAA
TTATGTTAGGGTTAGGATTTTTAATTAA
Found at i:39184321 original size:23 final size:23
Alignment explanation
Indices: 39184286--39184410 Score: 117
Period size: 18 Copynumber: 5.6 Consensus size: 23
39184276 TTTAGTTAGG
39184286 TTAGAGTTAGGGTTTTTAATTAAATTA
1 TTAG-GTTAGGGTTTTTAATT-AA--A
39184313 GGTTAGGGTTAGGGTTTTTAATTAAA
1 --TTA-GGTTAGGGTTTTTAATTAAA
39184339 TTAGGTTAGGGTTTTTAATT--A
1 TTAGGTTAGGGTTTTTAATTAAA
39184360 --A-GTTAGGGTTTTTAATT--A
1 TTAGGTTAGGGTTTTTAATTAAA
39184378 --A-GTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
39184398 TTAGGTTAGGGTT
1 TTAGGTTAGGGTT
39184411 AGGGTTAGGG
Statistics
Matches: 90, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
18 34 0.38
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 26 0.29
24 3 0.03
26 1 0.01
28 2 0.02
29 19 0.21
30 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTTAATTAAA
Found at i:39184404 original size:17 final size:18
Alignment explanation
Indices: 39184337--39184491 Score: 130
Period size: 18 Copynumber: 9.1 Consensus size: 18
39184327 TTTTTAATTA
*
39184337 AATTAGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
39184355 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
39184373 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
* **
39184391 AATTAAATTA-GG-TTAG
1 AATTAAGTTAGGGTTTTT
** *
39184407 GGTTAGGGTTAGGGTTTTT
1 AATTA-AGTTAGGGTTTTT
*
39184426 AATTAAATTA-GG---TT
1 AATTAAGTTAGGGTTTTT
**
39184440 -A--GGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
39184455 AATTAAGTTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
* *
39184473 AATCAAATTAGGGTTTTT
1 AATTAAGTTAGGGTTTTT
39184491 A
1 A
39184492 TTACATCAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
11 3 0.03
12 2 0.02
13 1 0.01
14 2 0.02
15 2 0.02
16 6 0.06
17 7 0.07
18 78 0.74
19 5 0.05
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (18 bp):
AATTAAGTTAGGGTTTTT
Found at i:39184539 original size:25 final size:26
Alignment explanation
Indices: 39184487--39184550 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
39184477 AAATTAGGGT
39184487 TTTTATTACATCAAATATAACTTCTA
1 TTTTATTACATCAAATATAACTTCTA
* *
39184513 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATATAACTTCTA
39184538 TTTTATTACATCA
1 TTTTATTACATCA
39184551 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATATAACTTCTA
Found at i:39185655 original size:7 final size:7
Alignment explanation
Indices: 39185645--39185676 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
39185635 TTATATACAT
39185645 AATACTA
1 AATACTA
39185652 AATACTA
1 AATACTA
39185659 AATACTA
1 AATACTA
39185666 AATACTA
1 AATACTA
39185673 AATA
1 AATA
39185677 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:39186777 original size:10 final size:10
Alignment explanation
Indices: 39186758--39186808 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
39186748 GCCATTGATG
*
39186758 AAAATATAAA
1 AAAATTTAAA
39186768 AAAATTTAAA
1 AAAATTTAAA
* * *
39186778 ATTATTTTTAA
1 A-AAATTTAAA
39186789 AAAATTTAAA
1 AAAATTTAAA
39186799 AAAATTTAAA
1 AAAATTTAAA
39186809 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
10 26 0.79
11 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:39186799 original size:31 final size:30
Alignment explanation
Indices: 39186758--39186823 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
39186748 GCCATTGATG
39186758 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
* *
39186789 AAAATTTAAAAAAATTTAAATTTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
39186819 AAAAT
1 AAAAT
39186824 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:39186805 original size:21 final size:21
Alignment explanation
Indices: 39186766--39186805 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39186756 TGAAAATATA
**
39186766 AAAAAATTTAAAATTATTTTT
1 AAAAAATTTAAAAAAATTTTT
39186787 AAAAAATTTAAAAAAATTT
1 AAAAAATTTAAAAAAATTT
39186806 AAATTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTTAAAAAAATTTTT
Found at i:39186828 original size:19 final size:20
Alignment explanation
Indices: 39186792--39186829 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39186782 TTTTTAAAAA
*
39186792 ATTTAAAAAAATTTAAATTT
1 ATTTAAAAAAATTGAAATTT
*
39186812 ATTTTAAAAAA-TGAAATT
1 ATTTAAAAAAATTGAAATT
39186830 GAGGGGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
ATTTAAAAAAATTGAAATTT
Found at i:39186882 original size:22 final size:22
Alignment explanation
Indices: 39186857--39186907 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
39186847 AAATATGGGT
39186857 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
39186879 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
39186901 TTGAGAG
1 TTGAGAG
39186908 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:39192779 original size:20 final size:17
Alignment explanation
Indices: 39192746--39192788 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
39192736 TTTCAATCAC
39192746 TTTTTTTTAATTCTGATT
1 TTTTTTTTAATTCT-ATT
*
39192764 TTTTTTTTGAATTTCTCTT
1 TTTTTTTT-AA-TTCTATT
39192783 TTTTTT
1 TTTTTT
39192789 AATACCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTAATTCTATT
Found at i:39201065 original size:18 final size:17
Alignment explanation
Indices: 39201032--39201070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
39201022 TTTTATAAAT
39201032 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
39201050 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
39201067 TGTG
1 TGTG
39201071 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:39201327 original size:23 final size:23
Alignment explanation
Indices: 39201296--39201417 Score: 172
Period size: 23 Copynumber: 5.3 Consensus size: 23
39201286 AGTATTATTG
39201296 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
39201319 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
39201342 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
39201365 TTCAGTGGTAGCTACTGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
39201388 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
39201411 ATCAGTG
1 ATCAGTG
39201418 TGGCACTTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:39201416 original size:46 final size:46
Alignment explanation
Indices: 39201296--39201417 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
39201286 AGTATTATTG
*
39201296 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
39201342 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACTGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
39201388 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
39201418 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:39203198 original size:42 final size:42
Alignment explanation
Indices: 39203149--39203401 Score: 240
Period size: 42 Copynumber: 6.0 Consensus size: 42
39203139 TAAACTCAAA
*
39203149 GTCATGACCTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAG
1 GTCATGACTTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAG
* * *
39203191 GCCATGACTTTTAGCGGTGCTTTTACAAAAACGCTGCTAAAG
1 GTCATGACTTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAG
* * * * * * *
39203233 GTCATGACTTTTAACGACACTTATACAACAAACACCACTATAG
1 GTCATGACTTTTAGCGGCGCTTTTACAA-AAACGCCGCTAAAG
* * * * * *
39203276 GTTATGAC-TTTAGCGGCACTTTTTCCACAAACGACGCTATAG
1 GTCATGACTTTTAGCGGCGC-TTTTACAAAAACGCCGCTAAAG
* * * * *
39203318 ATCATGACTTTTAGCGGCGTTTTTCCCACAAACGCCGCTATA-
1 GTCATGACTTTTAGCGGCGCTTTT-ACAAAAACGCCGCTAAAG
* *
39203360 GTCATGACTTTTAGCGGCGCTTATCACACAAACGCCGCTAAA
1 GTCATGACTTTTAGCGGCGCTT-TTACAAAAACGCCGCTAAA
39203402 AATATATCTT
Statistics
Matches: 173, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
42 125 0.72
43 48 0.28
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCATGACTTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAG
Found at i:39203383 original size:127 final size:127
Alignment explanation
Indices: 39203152--39203392 Score: 290
Period size: 127 Copynumber: 1.9 Consensus size: 127
39203142 ACTCAAAGTC
* * * *
39203152 ATGACCTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAGGCCATGACTTTTAGCGGTGCTTTTAC
1 ATGACCTTTAGCGGCACTTTTACAAAAACGACGCTAAAGACCATGACTTTTAGCGGCGCTTTTAC
*
39203217 AAAAACGCTGCTAAAGGTCATGACTTTTAACGACACTTAT-ACAACAAACACCACTATAGGTT
66 AAAAACGCCGCTAAAGGTCATGACTTTTAACGACACTTATCAC-ACAAACACCACTATAGGTT
* * * * *
39203279 ATGA-CTTTAGCGGCACTTTTTCCACAAACGACGCTATAGATCATGACTTTTAGCGGCGTTTTTC
1 ATGACCTTTAGCGGCAC-TTTTACAAAAACGACGCTAAAGACCATGACTTTTAGCGGCGCTTTT-
* * * * * *
39203343 CCACAAACGCCGCTATA-GTCATGACTTTTAGCGGCGCTTATCACACAAAC
64 ACAAAAACGCCGCTAAAGGTCATGACTTTTAACGACACTTATCACACAAAC
39203393 GCCGCTAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
126 11 0.12
127 69 0.73
128 15 0.16
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (127 bp):
ATGACCTTTAGCGGCACTTTTACAAAAACGACGCTAAAGACCATGACTTTTAGCGGCGCTTTTAC
AAAAACGCCGCTAAAGGTCATGACTTTTAACGACACTTATCACACAAACACCACTATAGGTT
Found at i:39204204 original size:15 final size:15
Alignment explanation
Indices: 39204184--39204222 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
39204174 CATAATTGTT
39204184 ATAAAATATAATTTA
1 ATAAAATATAATTTA
39204199 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
39204216 ATAAAAT
1 ATAAAAT
39204223 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:39204229 original size:17 final size:17
Alignment explanation
Indices: 39204189--39204222 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
39204179 TTGTTATAAA
39204189 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39204206 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39204223 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:39204294 original size:20 final size:21
Alignment explanation
Indices: 39204255--39204294 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
39204245 AATTTACTAA
*
39204255 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
39204276 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
39204295 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:39204307 original size:26 final size:28
Alignment explanation
Indices: 39204262--39204341 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
39204252 TAATAAAATC
39204262 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
39204292 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
39204319 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
39204342 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:39204380 original size:108 final size:114
Alignment explanation
Indices: 39204169--39204428 Score: 367
Period size: 117 Copynumber: 2.3 Consensus size: 114
39204159 TTAATCATAT
* * *
39204169 TTTAACATAATTGTTATAAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-T-TTAAT--A
39204233 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC-TAAAATATAA
62 TATTCTTATATGAATTTACT-ATAAAATCATAATATATAATACATAAAATATAA
*
39204286 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-TT-CT-TATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATT
39204348 CTTATATGAATTTA-T-TAAAATCATAATATATAATACAATAAAATATAA
66 CTTATATGAATTTACTATAAAATCATAATATATAATAC-ATAAAATATAA
39204396 TTT-AAATAATTATTATTAAATATAATTT-ATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAT
39204429 CTACTTTATT
Statistics
Matches: 136, Mismatches: 4, Indels: 15
0.88 0.03 0.10
Matches are distributed among these distances:
108 26 0.19
109 25 0.18
110 14 0.10
111 18 0.13
114 1 0.01
115 2 0.01
117 31 0.23
118 19 0.14
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (114 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATT
CTTATATGAATTTACTATAAAATCATAATATATAATACATAAAATATAA
Found at i:39213098 original size:17 final size:17
Alignment explanation
Indices: 39213076--39213108 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39213066 TGTTAAAATT
39213076 AAAAAAAAAAGAAAGAA
1 AAAAAAAAAAGAAAGAA
*
39213093 AAAAAAGAAAGAAAGA
1 AAAAAAAAAAGAAAGA
39213109 TAAGATAGAC
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAGAA
Found at i:39213113 original size:13 final size:13
Alignment explanation
Indices: 39213078--39213106 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39213068 TTAAAATTAA
39213078 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
39213091 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
39213104 AAA
1 AAA
39213107 GATAAGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:39213203 original size:20 final size:20
Alignment explanation
Indices: 39213178--39213223 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
39213168 TTAAGGGAAA
*
39213178 AAATTTACGGTTTCAGGCGG
1 AAATTTACGGTCTCAGGCGG
*
39213198 AAATTTAGGGTCTCAGGCGG
1 AAATTTACGGTCTCAGGCGG
39213218 AAATTT
1 AAATTT
39213224 TGGGATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (20 bp):
AAATTTACGGTCTCAGGCGG
Found at i:39214050 original size:7 final size:7
Alignment explanation
Indices: 39214038--39214166 Score: 73
Period size: 7 Copynumber: 18.1 Consensus size: 7
39214028 ACTAATTAAT
39214038 CTAAACC
1 CTAAACC
39214045 CTAAACC
1 CTAAACC
* *
39214052 TTTAACCC
1 -CTAAACC
39214060 CT-AACTC
1 CTAAAC-C
39214067 CTAAACC
1 CTAAACC
*
39214074 CTAAATC
1 CTAAACC
* *
39214081 ATAAAGC
1 CTAAACC
*
39214088 ATAAACC
1 CTAAACC
*
39214095 CTTAACCC
1 C-TAAACC
39214103 CTAAACC
1 CTAAACC
*
39214110 TTAAA-C
1 CTAAACC
*
39214116 CTCAACC
1 CTAAACC
39214123 CTTAAACC
1 C-TAAACC
* *
39214131 ATAAACT
1 CTAAACC
*
39214138 ATAAACC
1 CTAAACC
*
39214145 ATAAACC
1 CTAAACC
* *
39214152 ATAATCC
1 CTAAACC
39214159 CTAAACC
1 CTAAACC
39214166 C
1 C
39214167 ATAATCCATA
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
6 6 0.06
7 70 0.74
8 19 0.20
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:39214128 original size:21 final size:21
Alignment explanation
Indices: 39214082--39214202 Score: 66
Period size: 21 Copynumber: 5.7 Consensus size: 21
39214072 CCCTAAATCA
* *
39214082 TAAAGCATAAACCCTTAACCCC
1 TAAACCATAAA-CCTCAACCCC
* *
39214104 TAAACCTTAAACCTCAACCCT
1 TAAACCATAAACCTCAACCCC
* * *
39214125 TAAACCATAAA-CTATAAACCA
1 TAAACCATAAACCT-CAACCCC
* * *
39214146 TAAACCATAATCCCTAAACCCA
1 TAAACCATAA-ACCTCAACCCC
* * *
39214168 TAATCCATAATCCAT-AACCCA
1 TAAACCATAAACC-TCAACCCC
*
39214189 TAATCCATAAACCT
1 TAAACCATAAACCT
39214203 TAAGATAGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.04
21 52 0.64
22 24 0.30
23 2 0.02
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACCTCAACCCC
Found at i:39214134 original size:43 final size:43
Alignment explanation
Indices: 39214039--39214136 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 43
39214029 CTAATTAATC
* * *
39214039 TAAACCCTAAACCTTTAACCCCTAACTCCTAAACCCTAAATCA
1 TAAACCATAAACCCTTAACCCCTAACTCCTAAACCCTAAACCA
* * * *
39214082 TAAAGCATAAACCCTTAACCCCTAAAC-CTTAAA-CCTCAACCCT
1 TAAACCATAAACCCTTAACCCCT-AACTCCTAAACCCT-AAACCA
39214125 TAAACCATAAAC
1 TAAACCATAAAC
39214137 TATAAACCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.07
43 39 0.87
44 3 0.07
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (43 bp):
TAAACCATAAACCCTTAACCCCTAACTCCTAAACCCTAAACCA
Found at i:39214177 original size:7 final size:7
Alignment explanation
Indices: 39214138--39214198 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
39214128 ACCATAAACT
*
39214138 ATAAACC
1 ATAATCC
*
39214145 ATAAACC
1 ATAATCC
39214152 ATAATCC
1 ATAATCC
* *
39214159 CTAAACCC
1 AT-AATCC
39214167 ATAATCC
1 ATAATCC
39214174 ATAATCC
1 ATAATCC
*
39214181 ATAACCC
1 ATAATCC
39214188 ATAATCC
1 ATAATCC
39214195 ATAA
1 ATAA
39214199 ACCTTAAGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
7 41 0.89
8 5 0.11
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAATCC
Found at i:39214263 original size:14 final size:14
Alignment explanation
Indices: 39214039--39214269 Score: 94
Period size: 14 Copynumber: 16.2 Consensus size: 14
39214029 CTAATTAATC
*
39214039 TAAACCCTAAACCTT
1 TAAACCCTAAACC-A
* *
39214054 TAACCCCT-AACTCC
1 TAAACCCTAAAC-CA
*
39214068 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* * *
39214082 TAAAGCATAAACCCT
1 TAAACCCTAAA-CCA
* *
39214097 TAACCCCTAAACCT
1 TAAACCCTAAACCA
* *
39214111 TAAA-CCTCAACCCT
1 TAAACCCT-AAACCA
* *
39214125 TAAACCATAAACTA
1 TAAACCCTAAACCA
*
39214139 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
39214153 TAATCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
39214168 TAATCCATAATCCA
1 TAAACCCTAAACCA
*
39214182 T-AACCCATAATCCA
1 TAAACCC-TAAACCA
* *
39214196 TAAA-CCTTAA-GA
1 TAAACCCTAAACCA
**
39214208 TAGTAACTCCTAAACTT
1 TA--AAC-CCTAAACCA
* *
39214225 TAAACCATAAATCA
1 TAAACCCTAAACCA
* *
39214239 TATACCTTAAACCA
1 TAAACCCTAAACCA
*
39214253 TAAACCCTAAACTA
1 TAAACCCTAAACCA
39214267 TAA
1 TAA
39214270 TGATAATTAA
Statistics
Matches: 162, Mismatches: 41, Indels: 27
0.70 0.18 0.12
Matches are distributed among these distances:
12 3 0.02
13 8 0.05
14 106 0.65
15 38 0.23
16 5 0.03
17 2 0.01
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:39214487 original size:14 final size:14
Alignment explanation
Indices: 39214463--39214501 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
39214453 CCTAGACCTT
* *
39214463 AAACTCTAAACCAT
1 AAACCCTAAACCAA
*
39214477 ATACCCTAAACCAA
1 AAACCCTAAACCAA
39214491 AAACCCTAAAC
1 AAACCCTAAAC
39214502 TATAGTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCAA
Found at i:39214918 original size:41 final size:41
Alignment explanation
Indices: 39214869--39215034 Score: 136
Period size: 41 Copynumber: 4.0 Consensus size: 41
39214859 GCTAAAAATA
* * *
39214869 GAGCATTAGCGGCACTTTCCT-AAAAACACCGCTAAAGTCTC
1 GAGCATTAGCGACACTTT-CTGAAAAACACCGCTAAAGCCCC
* ** *
39214910 GAGCATTAGCAATGCTTTCTGAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGACACTTTCTGAAAAACACCGCTAAAGCCCC
** * * * * **
39214951 GAGCATTAGCGATGCTTTTTTAAAAACACAGTTAAAGCCTT
1 GAGCATTAGCGACACTTTCTGAAAAACACCGCTAAAGCCCC
* * * * *
39214992 GAGCATTAGCAACGCTTTTTTAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGACACTTTCTGAAAAACACCGCTAAAGCCCC
39215033 GA
1 GA
39215035 AAGCTCAGAA
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 2 0.02
41 100 0.98
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (41 bp):
GAGCATTAGCGACACTTTCTGAAAAACACCGCTAAAGCCCC
Found at i:39214955 original size:82 final size:82
Alignment explanation
Indices: 39214869--39215034 Score: 224
Period size: 82 Copynumber: 2.0 Consensus size: 82
39214859 GCTAAAAATA
* * * *
39214869 GAGCATTAGCGGCACTTTCCTAAAAACACCGCTAAAGTCTCGAGCATTAGCAATGCTTTCTGAAA
1 GAGCATTAGCGACACTTTCCTAAAAACACAGCTAAAGCCTCGAGCATTAGCAACGCTTTCTGAAA
39214934 AACGCCGCTAAAGCCCC
66 AACGCCGCTAAAGCCCC
** ** * * * *
39214951 GAGCATTAGCGATGCTTTTTTAAAAACACAGTTAAAGCCTTGAGCATTAGCAACGCTTTTTTAAA
1 GAGCATTAGCGACACTTTCCTAAAAACACAGCTAAAGCCTCGAGCATTAGCAACGCTTTCTGAAA
39215016 AACGCCGCTAAAGCCCC
66 AACGCCGCTAAAGCCCC
39215033 GA
1 GA
39215035 AAGCTCAGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (82 bp):
GAGCATTAGCGACACTTTCCTAAAAACACAGCTAAAGCCTCGAGCATTAGCAACGCTTTCTGAAA
AACGCCGCTAAAGCCCC
Found at i:39215149 original size:39 final size:38
Alignment explanation
Indices: 39215074--39215187 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 38
39215064 CGCTTCTTGG
**
39215074 AAAACGCCGCTAATGCTCTATTTTTAGCGGTATTTTTCA-
1 AAAACGCCGCTAATGCTCTA-TTTTAGCGGCGTTTTT-AT
* *
39215113 AAAAGCGCCACTAATGCTCTATTTTAGCAGCGTTTTTAT
1 AAAA-CGCCGCTAATGCTCTATTTTAGCGGCGTTTTTAT
* *
39215152 AAATATGCCGCTAATGCTCGATTTTAGCGGCGTTTT
1 AAA-ACGCCGCTAATGCTCTATTTTAGCGGCGTTTT
39215188 GTCCAAACAC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 47 0.73
40 16 0.25
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (38 bp):
AAAACGCCGCTAATGCTCTATTTTAGCGGCGTTTTTAT
Found at i:39221231 original size:46 final size:44
Alignment explanation
Indices: 39221172--39221286 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
39221162 ACAGGACAGA
* *
39221172 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
39221218 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39221262 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39221287 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39221267 original size:44 final size:45
Alignment explanation
Indices: 39221172--39221305 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
39221162 ACAGGACAGA
* *
39221172 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
39221218 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
39221262 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39221306 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:39228594 original size:46 final size:44
Alignment explanation
Indices: 39228534--39228648 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
39228524 ACAGGACAGA
* *
39228534 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
39228580 ACAGGATTGAGCCATGTAATTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39228624 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39228649 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39228629 original size:44 final size:45
Alignment explanation
Indices: 39228541--39228667 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 45
39228531 AGAACAGAAA
*
39228541 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* * *
39228587 TGAGCCATGTAATTCCATATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
* ** * * *
39228631 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39228668 CAGGATATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.52
45 1 0.01
46 31 0.46
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:39238249 original size:26 final size:27
Alignment explanation
Indices: 39238214--39238281 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
39238204 TTTCTCGAAA
*
39238214 TTTTATTAGGGGAAAAATCGTC-AAAT
1 TTTTACTAGGGGAAAAATCGTCAAAAT
**
39238240 TTTTACTAGGGTTAAAATCGTCAAAAT
1 TTTTACTAGGGGAAAAATCGTCAAAAT
39238267 TTTT-CT-GGGGAAAAA
1 TTTTACTAGGGGAAAAA
39238282 ATTATTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.19
26 21 0.58
27 8 0.22
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (27 bp):
TTTTACTAGGGGAAAAATCGTCAAAAT
Found at i:39244542 original size:16 final size:16
Alignment explanation
Indices: 39244503--39244542 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
39244493 CGTTTGGTTC
39244503 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
39244519 GCTCTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
39244535 GGTGTAAT
1 GCTGTAAT
39244543 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:39244831 original size:120 final size:120
Alignment explanation
Indices: 39244696--39244930 Score: 452
Period size: 120 Copynumber: 2.0 Consensus size: 120
39244686 TTATAATTAA
39244696 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTACATGAATTTACCAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTACATGAATTTACCAAAATCATAATATAT
39244761 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
* *
39244816 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTACATGAATTTACCAAAATCATAATATAT
39244881 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
39244931 CATGAATCAA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 113 1.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTACATGAATTTACCAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:39244891 original size:61 final size:61
Alignment explanation
Indices: 39244706--39244893 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 61
39244696 ATATAATTTA
* *
39244706 ATAAAATTCTTAATATTAAATATTCTTACATGAATTTACCAAAATCATAATATATAATACT
1 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
* * * * * ** * * *
39244767 ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAAAATATATAAT-TT
1 ATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCATAATATATAATACT
39244825 AATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
39244887 ATAAAAT
1 ATAAAAT
39244894 ATAATTTAAA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.35
60 15 0.15
61 42 0.43
62 3 0.03
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (61 bp):
ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
Found at i:39244991 original size:49 final size:48
Alignment explanation
Indices: 39244916--39245012 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 48
39244906 AATTATTATT
* * *
39244916 AAATATAATTTAATACATGAATCAAAAGGTGAACACTTTATAAAATTA
1 AAATATAATTTAATACATGAATCAAAAGCTCAACACTGTATAAAATTA
39244964 AAAT-TAATTTCAATATCATGAATCAAAAGCTCAACACTGTATAAAATTA
1 AAATATAATTT-AATA-CATGAATCAAAAGCTCAACACTGTATAAAATTA
39245013 TAACACATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 8 0.18
49 30 0.68
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (48 bp):
AAATATAATTTAATACATGAATCAAAAGCTCAACACTGTATAAAATTA
Found at i:39252252 original size:39 final size:39
Alignment explanation
Indices: 39252198--39252317 Score: 195
Period size: 39 Copynumber: 3.1 Consensus size: 39
39252188 ATTTTCAATA
* *
39252198 CACCGGCACATAGCCTGCTAGGCACATAGCCTGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
39252237 CACCGGCACAAAGCCTACTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
* *
39252276 CACCGGCACACAGCCTGCTAGGCACATAGCCCAAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
39252315 CAC
1 CAC
39252318 TAGATTTCTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.33, C:0.34, G:0.18, T:0.14
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:39261688 original size:27 final size:27
Alignment explanation
Indices: 39261649--39261753 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
39261639 ATTCTTAGTG
*
39261649 GTTGTGCTTGTAGATATGTTTTGGCGA
1 GTTGTGCTCGTAGATATGTTTTGGCGA
39261676 GTTGTGCTCGTAGATATGTTTTGGCGA
1 GTTGTGCTCGTAGATATGTTTTGGCGA
* * * * * *
39261703 GTTGTGTTCATAGGTTTGATGT-GCGA
1 GTTGTGCTCGTAGATATGTTTTGGCGA
* * *
39261729 GCTATGCTCGTAGATGTGTTTTGGC
1 GTTGTGCTCGTAGATATGTTTTGGC
39261754 AAACCATGCT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 18 0.29
27 44 0.71
ACGTcount: A:0.14, C:0.10, G:0.33, T:0.42
Consensus pattern (27 bp):
GTTGTGCTCGTAGATATGTTTTGGCGA
Found at i:39262938 original size:6 final size:6
Alignment explanation
Indices: 39262927--39262953 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
39262917 AGGTGCTTGT
39262927 GGTCGA GGTCGA GGTCGA GGTCGA GGT
1 GGTCGA GGTCGA GGTCGA GGTCGA GGT
39262954 AGTGATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.52, T:0.19
Consensus pattern (6 bp):
GGTCGA
Found at i:39267330 original size:43 final size:43
Alignment explanation
Indices: 39267280--39267559 Score: 434
Period size: 43 Copynumber: 6.5 Consensus size: 43
39267270 AGATAAGCAT
* * * *
39267280 CGCTAAAGGTCATATTCTTTAGCGGTGCTTCTATAGAAAATGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
*
39267323 CACTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* *
39267366 CGTTAAATGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
*
39267409 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACAC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* * * *
39267452 CGCTAAAGGTCATGTTCTTTAGTGGTGCTTCTATAGAAAATGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
39267495 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* *
39267538 CGTTAAAGGTCACGTTCTTTAG
1 CGCTAAAGGTCATGTTCTTTAG
39267560 TGGCACTTTT
Statistics
Matches: 215, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 215 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (43 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
Found at i:39267390 original size:86 final size:86
Alignment explanation
Indices: 39267283--39267607 Score: 465
Period size: 86 Copynumber: 3.8 Consensus size: 86
39267273 TAAGCATCGC
* *
39267283 TAAAGGTCATATTCTTTAGCGGTGCTTCTATAGAAAATGCCACTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG
39267348 CGCTTCTATAGCAAACGCCGT
66 CGCTTCTATAGCAAACGCCGT
* * * *
39267369 TAAATGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGCCGCTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG
* *
39267434 CGCTTCTATAGCAAACACCGC
66 CGCTTCTATAGCAAACGCCGT
*
39267455 TAAAGGTCATGTTCTTTAGTGGTGCTTCTATAGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG
39267520 CGCTTCTATAGCAAACGCCGT
66 CGCTTCTATAGCAAACGCCGT
* * ** * * *
39267541 TAAAGGTCACGTTCTTTAGTGGCACTTTTTATCA-AAAATGCCGCTAAAAG-CACCGTTCTTTAG
1 TAAAGGTCATGTTCTTTAGCGGTGC-TTCTAT-AGAAAATGCCGCTAAAGGTCA-TGTTCTTTAG
39267604 CGGC
63 CGGC
39267608 ATTTTACGGA
Statistics
Matches: 215, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
86 181 0.84
87 33 0.15
88 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (86 bp):
TAAAGGTCATGTTCTTTAGCGGTGCTTCTATAGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG
CGCTTCTATAGCAAACGCCGT
Found at i:39267620 original size:129 final size:129
Alignment explanation
Indices: 39267280--39267629 Score: 352
Period size: 129 Copynumber: 2.7 Consensus size: 129
39267270 AGATAAGCAT
** ** * * * *
39267280 CGCTAAAGGTCATATTCTTTAGCGGTGCTTCTATAG-AAAATGCCACTAAAGGTCATGTTCTTTA
1 CGCTAAAGGTCACGTTCTTTAGCGGCACTTCTATAGCAAAA-ACCGCTAAAAGTCACGTTCTTTA
* * * * *
39267344 G-CGGCGCTTCTATAGCAAACGCCGTTAAATGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACG
65 GTC-GTGCTTCTACAGAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACG
39267408 C
129 C
* * * * *
39267409 CGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACACCGCTAAAGGTCATGTTCTTTAG
1 CGCTAAAGGTCACGTTCTTTAGCGGCACTTCTATAGCAAAAACCGCTAAAAGTCACGTTCTTTAG
* * *
39267474 TGGTGCTTCTATAGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
66 TCGTGCTTCTACAGAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
* * * *
39267538 CGTTAAAGGTCACGTTCTTTAGTGGCACTT-TTTATCAAAAATGCCGCTAAAAG-CACCGTTCTT
1 CGCTAAAGGTCACGTTCTTTAGCGGCACTTCTATAGCAAAAA--CCGCTAAAAGTCA-CGTTCTT
* * *
39267601 TAG-CG-GCATTTTACGGAAAACGCCACTAA
63 TAGTCGTGC-TTCTACAGAAAACGCCGCTAA
39267630 CTTTGGTAGA
Statistics
Matches: 189, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
128 10 0.05
129 158 0.84
130 21 0.11
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (129 bp):
CGCTAAAGGTCACGTTCTTTAGCGGCACTTCTATAGCAAAAACCGCTAAAAGTCACGTTCTTTAG
TCGTGCTTCTACAGAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCTATAGCAAACGC
Found at i:39267948 original size:21 final size:21
Alignment explanation
Indices: 39267922--39267967 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
39267912 TTCTACTCTG
39267922 CTCTGCTTCCCTCGCTGCTAC
1 CTCTGCTTCCCTCGCTGCTAC
* *
39267943 CTCTGCTTCCCTTGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTAC
39267964 CTCT
1 CTCT
39267968 ACTTTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.46, G:0.15, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTAC
Found at i:39270410 original size:22 final size:23
Alignment explanation
Indices: 39270357--39270411 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
39270347 ATGCAATCGT
* *
39270357 AGATTTGA-TATGTAATCTTAGA
1 AGATTTGATTTTGCAATCTTAGA
**
39270379 AGATACGATTTTGCAATCTTAG-
1 AGATTTGATTTTGCAATCTTAGA
39270401 AGATTTGATTT
1 AGATTTGATTT
39270412 GTAGATACCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (23 bp):
AGATTTGATTTTGCAATCTTAGA
Found at i:39275519 original size:22 final size:21
Alignment explanation
Indices: 39275494--39275551 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
39275484 TATGCATCAT
*
39275494 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
** *
39275515 AAGATACGATTTTGCAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
39275538 AGATTTGATTTGTA
1 AGATTTGATTTGTA
39275552 GATACCTTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 5 0.18
22 12 0.43
23 11 0.39
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:39280945 original size:84 final size:83
Alignment explanation
Indices: 39280658--39281178 Score: 501
Period size: 84 Copynumber: 6.2 Consensus size: 83
39280648 CTATTGCTTT
* * * * *
39280658 CATAGTTGCGGTGTTTTCCGCAAAAAACGCTAGTACAAAATTAAATTCCTGTACTGAAACGACGC
1 CATAGTTGCGGCGTTTTCCG-AAAAAACGCCACTA-AAAATTAAATTCCTGTAGTGAAACGGCGC
39280723 CG-TTTGAAGAAACTTTAATA
64 CGTTTTG-AGAAACTTTAATA
* * * * *
39280743 TATAGTTGCGGCGTTTTTC-ATAAAAACGCCACTAAAAATTAAATTCCTGAAGAGAAACGGCGAC
1 CATAGTTGCGGCGTTTTCCGA-AAAAACGCCACTAAAAATTAAATTCCTGTAGTGAAACGGCGCC
*
39280807 GTTTTGAGAAACATTAATA
65 GTTTTGAGAAACTTTAATA
** * * * *
39280826 CATTTTTGCAGCGTTTTCAAC-AAAAAACGCCACTAAAAGATTACATTCTTGTAGTGAAACGGAG
1 CATAGTTGCGGCGTTTTC--CGAAAAAACGCCACTAAAA-ATTAAATTCCTGTAGTGAAACGGCG
* *
39280890 CCGTTTTGATAAATTTTAATA
63 CCGTTTTGAGAAACTTTAATA
* * * ** **
39280911 CATATTTACGTCGTTTTCCGAAAAAACGCCACTAAAAATTTAAATTCCTAAACAGAAACGGCGCC
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAAAAA-TTAAATTCCTGTAGTGAAACGGCGCC
* * *
39280976 GTTTAGAAAAACTTGAATA
65 GTTTTGAGAAACTTTAATA
* * * * * * *
39280995 CATAGTTCCGGCATTTTCAGTAAAAACGCCACTAAAAAATTTAATTCTTGTGGTGAAACGGCGCC
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACT-AAAAATTAAATTCCTGTAGTGAAACGGCGCC
*
39281060 GTTTTGAGAAATTTTAATA
65 GTTTTGAGAAACTTTAATA
** * * * * *
39281079 CATAGTTGCGGCGTTTT-TAAAAAAACGCCACTAAGAAATTAAATTCTTATAGCGAAACAGCGCT
1 CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAA-AAATTAAATTCCTGTAGTGAAACGGCGCC
* * *
39281143 GTTTTGGGGAATTTTAATA
65 GTTTTGAGAAACTTTAATA
39281162 CATAGTTGCGGCGTTTT
1 CATAGTTGCGGCGTTTT
39281179 TTTTCTGAAA
Statistics
Matches: 357, Mismatches: 70, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
82 2 0.01
83 123 0.34
84 158 0.44
85 74 0.21
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (83 bp):
CATAGTTGCGGCGTTTTCCGAAAAAACGCCACTAAAAATTAAATTCCTGTAGTGAAACGGCGCCG
TTTTGAGAAACTTTAATA
Found at i:39281731 original size:7 final size:7
Alignment explanation
Indices: 39281721--39281798 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
39281711 ATCCCCTATC
39281721 CCCTAAA
1 CCCTAAA
*
39281728 CCCTGAA
1 CCCTAAA
*
39281735 TCCTAAA
1 CCCTAAA
*
39281742 CCCTTAAC
1 CCC-TAAA
*
39281750 CCCTAAC
1 CCCTAAA
39281757 CCCTAAA
1 CCCTAAA
*
39281764 CCTTAAA
1 CCCTAAA
39281771 TCCC--AA
1 -CCCTAAA
39281777 CCCTTAAA
1 CCC-TAAA
*
39281785 CCATAAA
1 CCCTAAA
*
39281792 CCTTAAA
1 CCCTAAA
39281799 ATAGTAACTC
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 39 0.70
8 12 0.21
ACGTcount: A:0.38, C:0.40, G:0.01, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:39281767 original size:21 final size:21
Alignment explanation
Indices: 39281736--39281793 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
39281726 AACCCTGAAT
39281736 CCTAAACCCTT-AACCCCTAACC
1 CCTAAA-CCTTAAACCCC-AACC
*
39281758 CCTAAACCTTAAATCCCAACC
1 CCTAAACCTTAAACCCCAACC
* *
39281779 CTTAAACCATAAACC
1 CCTAAACCTTAAACC
39281794 TTAAAATAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (21 bp):
CCTAAACCTTAAACCCCAACC
Found at i:39282231 original size:40 final size:40
Alignment explanation
Indices: 39282184--39282280 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
39282174 CGTTTTTGAC
39282184 AAAGCGCCGCTAATGCTCGATATATAGCGACATTTTTTAT
1 AAAGCGCCGCTAATGCTCGATATATAGCGACATTTTTTAT
* * *
39282224 AAAGCGCCGCTAATACTCGATATATAGCGGCGTTTTTTAT
1 AAAGCGCCGCTAATGCTCGATATATAGCGACATTTTTTAT
* *
39282264 GAAGCGCCAACTAATGC
1 AAAGCGCC-GCTAATGC
39282281 CACTAAAGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 44 0.88
41 6 0.12
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGATATATAGCGACATTTTTTAT
Found at i:39282369 original size:40 final size:40
Alignment explanation
Indices: 39282325--39282417 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
39282315 ATAAATTTTT
39282325 GCGGCATTTTTTAAAAAGCGCCGCTAATACTCGATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATACTCGATCTATA
* * * *
39282365 GCGGCATTTCTCAAAATGCGCCGCTAATGCTCGATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATACTCGATCTATA
*
39282405 GCGGCGTTTTTTA
1 GCGGCATTTTTTA
39282418 TCCAAACGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (40 bp):
GCGGCATTTTTTAAAAAGCGCCGCTAATACTCGATCTATA
Found at i:39284793 original size:12 final size:11
Alignment explanation
Indices: 39284778--39284870 Score: 60
Period size: 12 Copynumber: 7.4 Consensus size: 11
39284768 TTAATGATTA
39284778 AAAACTTGATGG
1 AAAACTTGAT-G
*
39284790 AAAACTTGATT
1 AAAACTTGATG
*
39284801 AATGACTTGATG
1 AA-AACTTGATG
39284813 AAAAACACTTGATG
1 --AAA-ACTTGATG
39284827 AAAGACTTGATG
1 AAA-ACTTGATG
39284839 AAAAAAACACTTGATG
1 ----AAA-ACTTGATG
39284855 AAAGACTTGATG
1 AAA-ACTTGATG
39284867 AAAA
1 AAAA
39284871 AAACACTTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
11 3 0.05
12 42 0.64
14 10 0.15
16 11 0.17
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (11 bp):
AAAACTTGATG
Found at i:39284833 original size:26 final size:26
Alignment explanation
Indices: 39284772--39284896 Score: 137
Period size: 28 Copynumber: 4.7 Consensus size: 26
39284762 AAAAACTTAA
* * *
39284772 TGATTAAAAACTTGATG-GAAA-ACT
1 TGATGAAAGACTTGATGAAAAACACT
* *
39284796 TGATTAATGACTTGATGAAAAACACT
1 TGATGAAAGACTTGATGAAAAACACT
39284822 TGATGAAAGACTTGATGAAAAAAACACT
1 TGATGAAAGACTTGATG--AAAAACACT
39284850 TGATGAAAGACTTGATGAAAAAAACACT
1 TGATGAAAGACTTGATG--AAAAACACT
* *
39284878 TGATGAATGACTTAATGAA
1 TGATGAAAGACTTGATGAA
39284897 TGACTTGATC
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
24 15 0.17
25 3 0.03
26 20 0.22
28 52 0.58
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (26 bp):
TGATGAAAGACTTGATGAAAAACACT
Found at i:39284852 original size:16 final size:14
Alignment explanation
Indices: 39284805--39284884 Score: 78
Period size: 12 Copynumber: 5.7 Consensus size: 14
39284795 TTGATTAATG
39284805 ACTTGATGAAAAAC
1 ACTTGATGAAAAAC
*
39284819 ACTTGATG--AAAG
1 ACTTGATGAAAAAC
39284831 ACTTGATGAAAAAAAC
1 ACTTGATG--AAAAAC
*
39284847 ACTTGATG--AAAG
1 ACTTGATGAAAAAC
39284859 ACTTGATGAAAAAAAC
1 ACTTGATG--AAAAAC
39284875 ACTTGATGAA
1 ACTTGATGAA
39284885 TGACTTAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
12 22 0.41
14 10 0.19
16 22 0.41
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (14 bp):
ACTTGATGAAAAAC
Found at i:39284853 original size:28 final size:28
Alignment explanation
Indices: 39284793--39284896 Score: 158
Period size: 28 Copynumber: 3.8 Consensus size: 28
39284783 TTGATGGAAA
* *
39284793 ACTTGATTAATGACTTGATG--AAAAAC
1 ACTTGATGAAAGACTTGATGAAAAAAAC
39284819 ACTTGATGAAAGACTTGATGAAAAAAAC
1 ACTTGATGAAAGACTTGATGAAAAAAAC
39284847 ACTTGATGAAAGACTTGATGAAAAAAAC
1 ACTTGATGAAAGACTTGATGAAAAAAAC
* *
39284875 ACTTGATGAATGACTTAATGAA
1 ACTTGATGAAAGACTTGATGAA
39284897 TGACTTGATC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 18 0.25
28 54 0.75
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (28 bp):
ACTTGATGAAAGACTTGATGAAAAAAAC
Found at i:39285385 original size:10 final size:9
Alignment explanation
Indices: 39285368--39285392 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39285358 GCATAATAAA
39285368 TATTTTTTT
1 TATTTTTTT
39285377 TATTTTTTT
1 TATTTTTTT
39285386 TATTTTT
1 TATTTTT
39285393 AAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:39285421 original size:21 final size:21
Alignment explanation
Indices: 39285397--39285437 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39285387 ATTTTTAAAA
*
39285397 TATTTTTAAAATACATTTTTT
1 TATTTTTAAAATAAATTTTTT
39285418 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
39285438 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTT
Found at i:39287634 original size:16 final size:17
Alignment explanation
Indices: 39287613--39287653 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
39287603 TTTTTTTTTG
39287613 TTTTTATAAAATATA-A
1 TTTTTATAAAATATATA
*
39287629 TTTTTAAAAAATATATA
1 TTTTTATAAAATATATA
*
39287646 TATTTATA
1 TTTTTATA
39287654 TAGGTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTATAAAATATATA
Found at i:39287870 original size:98 final size:98
Alignment explanation
Indices: 39287762--39288529 Score: 657
Period size: 98 Copynumber: 7.8 Consensus size: 98
39287752 TAATGTAAAA
* * *
39287762 TTATTTTGTTAGTAATTTATGATTAGCTTATAAATTGTTAGTGTTTTGTGTTTTATGAAGTTTTA
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGAATTTTTA
39287827 GTAATGTAAATTCTTTTTAAAAAAATGTTATAG
66 GTAATGTAAATTCTTTTTAAAAAAATGTTATAG
39287860 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTG-ATTTATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGAATTT-TT
*
39287924 AGTAATGTAAATTCTTTTT-TAAAAATGTTATAG
65 AGTAATGTAAATTCTTTTTAAAAAAATGTTATAG
*** * *
39287957 TTATTTTGTTAGTAATTTATGATTAGTTTA-GGGTT-TT-GTGATTTTTTAGTAATT-T-AATTT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG-TTTTGT-GT-TTTGTGAATTT
** ** * * **
39288017 TTTTTAA---AAA-TAATTGTATAATTATG-T-T-G
63 TTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAG
** * *
39288046 TTAGTAAT-TTA-TGA-TTA-GGTTA---TATAAATTGTTAGTGTTTTGTGTTTTGTG-ATTTAT
1 TTA-TTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGAATTT-T
*
39288103 TAGTAATGTAAATTCTTTTTTAAAAAATGTTATAG
64 TAGTAATGTAAATTCTTTTTAAAAAAATGTTATAG
* *
39288138 TTATTTTGTTAGTAATTTATAATTAGTTTATAAATTGTTAGTGTTTAGTTTAAGATTTTGTGAAT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTT--TGT--G-TTTTGTGAAT
**
39288203 TTTTAGTAATGT-AA-----TTTAAAAGAAAAATTATAG
61 TTTTAGTAATGTAAATTCTTTTTAAAA-AAATGTTATAG
*
39288236 TTGTTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTG-ATTTA
1 TTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTTGTGTTTTGTGAATTT-
*
39288300 TTAGTAATGT-AATTCTTTTTAAAAAAATGTTATAA
63 TTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAG
* * * * *
39288335 TTATTTTTTTACTAATTTATGATTAGTTTATAAATTATTAGTGTTTAGTTTAGGGTTTTGTGATT
1 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG--T--TTT-GTGTTTTGTGAAT
* * *
39288400 TTTTAGTAATGT-AATT-TTAAATATATATATATAATTTTATAG
61 TTTTAGTAATGTAAATTCTT---T-T-TA-AAAAAATGTTATAG
*
39288442 TTATTTTGTTAGTAATTTATGATTAAGTTATATAAACTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATT-AGTT-TATAAATTGTTAGTG--T--TTT-GTGTTTTGTGA
* *
39288507 TTTTTTATTAATGTAAATT-TTTT
59 ATTTTTAGTAATGTAAATTCTTTT
39288530 ATAATATAAT
Statistics
Matches: 548, Mismatches: 65, Indels: 106
0.76 0.09 0.15
Matches are distributed among these distances:
83 4 0.01
84 9 0.02
85 12 0.02
86 7 0.01
87 3 0.01
88 5 0.01
89 16 0.03
90 4 0.01
91 8 0.01
92 16 0.03
93 2 0.00
94 10 0.02
95 34 0.06
96 10 0.02
97 68 0.12
98 131 0.24
99 34 0.06
100 27 0.05
101 5 0.01
102 26 0.05
103 20 0.04
104 5 0.01
105 1 0.00
106 3 0.01
107 33 0.06
108 4 0.01
109 45 0.08
110 6 0.01
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (98 bp):
TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGAATTTTTA
GTAATGTAAATTCTTTTTAAAAAAATGTTATAG
Found at i:39288062 original size:81 final size:80
Alignment explanation
Indices: 39287909--39288063 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 80
39287899 AGTGTTTTGT
* *
39287909 GTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAAATGTTATAGTTATTTTGTTAGTAATT
1 GTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAAATGTTATAATTATGTTGTTAGTAATT
39287974 TATGATTAGTTTAGG
66 TATGATTAGTTTAGG
* * *
39287989 GTTTTGTGATTTTTTAGTAAT-TTAATT-TTTTTTAAAAATAATTGTATAATTATGTTGTTAGTA
1 GTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAAAT--GT-TATAATTATGTTGTTAGTA
39288052 ATTTATGATTAG
63 ATTTATGATTAG
39288064 GTTATATAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
78 12 0.18
79 5 0.07
80 21 0.31
81 29 0.43
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.55
Consensus pattern (80 bp):
GTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAAATGTTATAATTATGTTGTTAGTAATT
TATGATTAGTTTAGG
Found at i:39288113 original size:278 final size:275
Alignment explanation
Indices: 39287753--39288530 Score: 809
Period size: 278 Copynumber: 2.7 Consensus size: 275
39287743 AATTTTTATT
* * *
39287753 AATGTAAAATTATTTTGTTAGTAATTTATGATTAGCTTATAAATTGTTAGTGTTTTGTGTTTTAT
1 AATGTATAATTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGT
*
39287818 GAAGTTTTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGAT
66 G-ATTTTTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGAT
**
39287883 TAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAA
130 TAGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTT-TTAGTAATGTAAATT-TTTTAGAAAA
*
39287948 ATGTTATAGTTATTTTGTTAGTAATTTATGATTA-G-T-TTA-G-G-GTTTTGTGATTTTTTAGT
193 A--TTATAGTTATTTTGTTAGTAATTTATGATTAGGATGTTAGGTGTGTTTTGTGATTTATTAGT
* *
39288007 AATTTAATTTTTTTTAAAAA
256 AATGTAATTCTTTTTAAAAA
*
39288027 TAATTGTATAATTATGTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTT
1 -AA-TGTATAATTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTTGTGTT
*
39288092 TTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAAAATGTTATAGTTATTTTGTTAGTAATTTA
62 TTGTGATTT-TTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTA
* * *
39288157 TAATTAGTTTATAAATTGTTAGTGTTTAGTTTAAGATTTTGTGAATTTTTAGTAATGT-AATTTA
126 TGATTAGTTTATAAATTGTTAGTGTTT--TGT--G-TTTTGTG-ATTTTTAGTAATGTAAATTTT
** *
39288221 AAAGAAAAATTATAGTTGTTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTG
185 TTAGAAAAATTATAGTTATTTTGTTAGTAATTTATGATTAGG--------A-TGTTAG-G---TG
39288286 TGTTTTGTGATTTATTAGTAATGTAATTCTTTTTAAAAA
237 TGTTTTGTGATTTATTAGTAATGTAATTCTTTTTAAAAA
* * * *
39288325 AATGTTATAATTATTTTTTTACTAATTTATGATTAGTTTATAAATTATTAGTGTTTAGTTTAGGG
1 AATG-TATAATTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG--T--TTT-GTG
* * *
39288390 TTTTGTGATTTTTTAGTAATGT-AATT-TTAAATATATATATATAATTTTATAGTTATTTTGTTA
60 TTTTGTGA-TTTTTAGTAATGTAAATTCTT---T-T-TA-AAAAAATGTTATAGTTATTTTGTTA
* *
39288453 GTAATTTATGATTAAGTTATATAAACTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAA
118 GTAATTTATGATT-AGTT-TATAAATTGTTAGTG--T--TTT-GTGTTTTGTGA-TTTTTAGTAA
39288518 TGTAAATTTTTTA
175 TGTAAATTTTTTA
39288531 TAATATAATT
Statistics
Matches: 419, Mismatches: 33, Indels: 70
0.80 0.06 0.13
Matches are distributed among these distances:
275 2 0.00
276 30 0.07
277 5 0.01
278 108 0.26
279 30 0.07
280 3 0.01
281 6 0.01
282 5 0.01
283 17 0.04
284 4 0.01
290 1 0.00
291 3 0.01
293 1 0.00
295 14 0.03
296 5 0.01
297 31 0.07
298 37 0.09
299 7 0.02
300 20 0.05
301 4 0.01
302 1 0.00
303 1 0.00
304 34 0.08
305 5 0.01
306 33 0.08
307 7 0.02
308 2 0.00
309 1 0.00
310 2 0.00
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (275 bp):
AATGTATAATTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTGTGTTTTGT
GATTTTTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATT
AGTTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTAGTAATGTAAATTTTTTAGAAAAATT
ATAGTTATTTTGTTAGTAATTTATGATTAGGATGTTAGGTGTGTTTTGTGATTTATTAGTAATGT
AATTCTTTTTAAAAA
Found at i:39288405 original size:197 final size:197
Alignment explanation
Indices: 39287979--39288530 Score: 721
Period size: 197 Copynumber: 2.7 Consensus size: 197
39287969 TAATTTATGA
* * * * *
39287979 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATTTAATTTTTTTTAAAAATAATTGTATAATTATGT
1 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAA----TTTTAAAAAAAAAT-TATAGTTATTT
39288044 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAA
61 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAA
* * *
39288109 TGTAAATTCTTTTTTAAAAAATGTTATAGTTATTTTGTTAGTAATTTATAATTAGTTTATAAATT
126 TGT-AATTCTTTTTAAAAAAATGTTATAATTATTTTGTTACTAATTTATAATTAGTTTATAAATT
*
39288174 GTTAGTGT
190 ATTAGTGT
* * * *
39288182 TTAGTTTAAGATTTTGTGAATTTTTAGTAATGTAA-TTTAAAAGAAAAATTATAGTTGTTTTGTT
1 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTAAAA-AAAAATTATAGTTATTTTGTT
39288246 AGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTA
65 AGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTA
* *
39288311 ATTCTTTTTAAAAAAATGTTATAATTATTTTTTTACTAATTTATGATTAGTTTATAAATTATTAG
130 ATTCTTTTTAAAAAAATGTTATAATTATTTTGTTACTAATTTATAATTAGTTTATAAATTATTAG
39288376 TGT
195 TGT
39288379 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTAAATATATATATATAATTTTATAGTT
1 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTT-AA-A-A-A-A-A-AA--TTATAGTT
* *
39288444 ATTTTGTTAGTAATTTATGATTAAGTTATATAAACTGTTAGTGTTTAGTTTAGTGTTTTGTGATT
57 ATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG--T--TTT-GTGTTTTGTGATT
* * *
39288509 TTTTATTAATGTAAAT-TTTTTA
117 TATTAGTAATGTAATTCTTTTTA
39288531 TAATATAATT
Statistics
Matches: 309, Mismatches: 25, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
197 95 0.31
198 86 0.28
199 6 0.02
200 1 0.00
201 2 0.01
202 1 0.00
203 32 0.10
204 2 0.01
206 48 0.16
208 1 0.00
210 9 0.03
211 26 0.08
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (197 bp):
TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAAAATTATAGTTATTTTGTTA
GTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGTGATTTATTAGTAATGTAA
TTCTTTTTAAAAAAATGTTATAATTATTTTGTTACTAATTTATAATTAGTTTATAAATTATTAGT
GT
Found at i:39288502 original size:109 final size:103
Alignment explanation
Indices: 39287979--39288530 Score: 604
Period size: 100 Copynumber: 5.4 Consensus size: 103
39287969 TAATTTATGA
* * * *
39287979 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATTTAATTTTTTTTAAAAATAAT-TGTATAATTATG
1 TTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAA-TTTTTTTAAAAA-AATGT-TATAGTTATT
*
39288043 TTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG-
63 TTGTTAGTAATTTATGATTAAGTTATATAAATTGTTAGTGT
* *
39288083 -T--TTT-GTGTTTTGTGATTTATTAGTAATGTAAATTCTTTTTTAAAAAATGTTATAGTTATTT
1 TTAGTTTAGTGTTTTGTGATTTTTTAGTAATGT-AATT-TTTTTAAAAAAATGTTATAGTTATTT
*
39288144 TGTTAGTAATTTATAATT-AGTT-TATAAATTGTTAGTGT
64 TGTTAGTAATTTATGATTAAGTTATATAAATTGTTAGTGT
* * ** *
39288182 TTAGTTTAAG-ATTTTGTGAATTTTTAGTAATGTAA----TTTAAAAGAAAAATTATAGTTGTTT
1 TTAGTTT-AGTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTAAAA-AAATGTTATAGTTATTT
*
39288242 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG-
64 TGTTAGTAATTTATGATTAAGTTATATAAATTGTTAGTGT
* *
39288281 -T--TTT-GTGTTTTGTGATTTATTAGTAATGTAATTCTTTTTAAAAAAATGTTATAATTATTTT
1 TTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAATT-TTTTTAAAAAAATGTTATAGTTATTTT
* * *
39288342 TTTACTAATTTATGATT-AGTT-TATAAATTATTAGTGT
65 GTTAGTAATTTATGATTAAGTTATATAAATTGTTAGTGT
* * * *
39288379 TTAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAATTTTAAATATATATATATAATTTTATAGTT
1 TTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAATTTT---T-T-TA-AAAAAATGTTATAGTT
*
39288444 ATTTTGTTAGTAATTTATGATTAAGTTATATAAACTGTTAGTGT
60 ATTTTGTTAGTAATTTATGATTAAGTTATATAAATTGTTAGTGT
* *
39288488 TTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAATTTTTTA
1 TTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTA
39288531 TAATATAATT
Statistics
Matches: 376, Mismatches: 41, Indels: 62
0.78 0.09 0.13
Matches are distributed among these distances:
94 1 0.00
95 22 0.06
96 3 0.01
97 20 0.05
98 50 0.13
99 36 0.10
100 76 0.20
101 20 0.05
102 32 0.09
103 21 0.06
104 4 0.01
105 2 0.01
106 3 0.01
107 32 0.09
108 4 0.01
109 50 0.13
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (103 bp):
TTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTTTAAAAAAATGTTATAGTTATTTTG
TTAGTAATTTATGATTAAGTTATATAAATTGTTAGTGT
Found at i:39292605 original size:17 final size:17
Alignment explanation
Indices: 39292583--39292621 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
39292573 ATTTTTTTTA
39292583 TCAAAAACAGAATAATT
1 TCAAAAACAGAATAATT
** *
39292600 TCAAAATTAGAATATTT
1 TCAAAAACAGAATAATT
39292617 TCAAA
1 TCAAA
39292622 CTTTCGATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (17 bp):
TCAAAAACAGAATAATT
Found at i:39293545 original size:42 final size:41
Alignment explanation
Indices: 39293434--39293573 Score: 244
Period size: 41 Copynumber: 3.4 Consensus size: 41
39293424 CCTTGTGGGT
*
39293434 CTTTAGCAGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
*
39293475 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGTGCAGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
*
39293516 CTTTAGCGGCGTTTTTTCAAGAAGCGCCGCTAATGCGCAAAC
1 CTTTAGCGGCG-TTTTTCAAGAAGCGCCGCTAATGCGCAGAC
39293558 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
39293574 GGTAAAGCGT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
41 55 0.59
42 39 0.41
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
Found at i:39294260 original size:8 final size:7
Alignment explanation
Indices: 39294245--39294301 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
39294235 GGGGGTTATG
39294245 GGTTTAA
1 GGTTTAA
39294252 GGTTTTAA
1 GG-TTTAA
*
39294260 GGTTTAT
1 GGTTTAA
39294267 GG-TTAA
1 GGTTTAA
39294273 GGGTTTAA
1 -GGTTTAA
39294281 GGTTT-A
1 GGTTTAA
39294287 GGATTTAA
1 GG-TTTAA
*
39294295 GGGTTAA
1 GGTTTAA
39294302 AGGTCGGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
6 6 0.14
7 22 0.52
8 14 0.33
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (7 bp):
GGTTTAA
Found at i:39294301 original size:21 final size:21
Alignment explanation
Indices: 39294240--39294301 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
39294230 GGACTGGGGG
*
39294240 TTATGGGTTTAAGGTTTTAAGGT
1 TTAT-GGTTTAAGG-GTTAAGGT
39294263 TTATGG-TTAAGGGTTTAAGGT
1 TTATGGTTTAAGGG-TTAAGGT
39294284 TTA-GGATTTAAGGGTTAA
1 TTATGG-TTTAAGGGTTAA
39294302 AGGTCGGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 2 0.06
21 20 0.57
22 9 0.26
23 4 0.11
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAAGGT
Found at i:39294431 original size:21 final size:21
Alignment explanation
Indices: 39294397--39294458 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
39294387 ATTGGTGTAA
39294397 TTAGGG-TTATGAGTTTGGGA-
1 TTAGGGTTTA-GAGTTTGGGAT
* *
39294417 TTAGAGGTTTAGAGTTAGAGAT
1 TTAG-GGTTTAGAGTTTGGGAT
39294439 TTAGGGTTTAGAGATTTGGG
1 TTAGGGTTTAGAG-TTTGGG
39294459 GTCAAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 19 0.56
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTGGGAT
Found at i:39295228 original size:20 final size:20
Alignment explanation
Indices: 39295203--39295261 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
39295193 TATATTTTTC
39295203 GAATTTTAAAATTTTAAAAT
1 GAATTTTAAAATTTTAAAAT
39295223 GAATTTTAAAAGATTTTAAAAT
1 GAATTTT-AAA-ATTTTAAAAT
* *
39295245 --TTTTTAAAAATTTAAAA
1 GAATTTTAAAATTTTAAAA
39295262 AAGATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.23
19 3 0.09
20 11 0.31
21 3 0.09
22 10 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
GAATTTTAAAATTTTAAAAT
Found at i:39295229 original size:12 final size:12
Alignment explanation
Indices: 39295212--39295244 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
39295202 CGAATTTTAA
39295212 AATTTTAAAATG
1 AATTTTAAAATG
39295224 AATTTTAAAA-G
1 AATTTTAAAATG
39295235 -ATTTTAAAAT
1 AATTTTAAAAT
39295245 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (12 bp):
AATTTTAAAATG
Found at i:39295239 original size:30 final size:29
Alignment explanation
Indices: 39295205--39295278 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
39295195 TATTTTTCGA
*
39295205 ATTTTAAAATTTTAAAATGAATTT-TAAAAG
1 ATTTTAAAATTTTAAAA--AATTTAAAAAAG
*
39295235 ATTTTAAAATTTTTTAAAAATTTAAAAAAG
1 ATTTTAAAA-TTTTAAAAAATTTAAAAAAG
*
39295265 ATTTTAAACTTTTA
1 ATTTTAAAATTTTA
39295279 TTTTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
29 9 0.24
30 22 0.58
31 7 0.18
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (29 bp):
ATTTTAAAATTTTAAAAAATTTAAAAAAG
Found at i:39295269 original size:20 final size:19
Alignment explanation
Indices: 39295205--39295272 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
39295195 TATTTTTCGA
* *
39295205 ATTTTAAAATTTTAAAATG
1 ATTTTAAAAATTTAAAAAG
* *
39295224 AATTTTAAAAGATTTTAAAAT
1 -ATTTTAAAA-ATTTAAAAAG
*
39295245 TTTTTAAAAATTTAAAAAAG
1 ATTTTAAAAATTT-AAAAAG
39295265 ATTTTAAA
1 ATTTTAAA
39295273 CTTTTATTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.11
20 28 0.74
21 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTTTAAAAATTTAAAAAG
Found at i:39296885 original size:59 final size:57
Alignment explanation
Indices: 39296793--39296910 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 57
39296783 TTTTGAATGT
*
39296793 CTCATAGCTTTTTCTCCTCATTAGTTGTGCTTTTTTTTATATAACTACTATAATTGGCA
1 CTCATAGCTTTTTCTCATCATTAGTTGTGC-TTTTTTT-TATAACTACTATAATTGGCA
*
39296852 CTCATGGCTTTTTCTCATCATTAGTTGTGCTTTTTTTTATAACTACTATAATTGGCA
1 CTCATAGCTTTTTCTCATCATTAGTTGTGCTTTTTTTTATAACTACTATAATTGGCA
39296909 CT
1 CT
39296911 TTTTAGATTA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
57 22 0.39
58 7 0.12
59 28 0.49
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (57 bp):
CTCATAGCTTTTTCTCATCATTAGTTGTGCTTTTTTTTATAACTACTATAATTGGCA
Found at i:39300097 original size:43 final size:43
Alignment explanation
Indices: 39300036--39300260 Score: 265
Period size: 43 Copynumber: 5.2 Consensus size: 43
39300026 TGCTAGAAGT
* * *
39300036 GCCGCTAAATGTCATGGTCTATAGCAGCGTTTGTGGGATAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGC
* *
39300079 GCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGGA-AAGT
1 GCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGT-GGGATAAGC
* * *
39300122 GTCGCTAAAGGCCTTGGTCTTTAGCAGCGTTTGTGCGATAAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGC
* * ** * * *
39300165 GCCACTAAAGGTCTTAGTCTTTAGTGGCTTTTGTGGGGTAAAC
1 GCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGC
* *
39300208 GCTGCTAAAGGTCTTGGTCTTTAGCAGTGTTTGTGGGGA-AAGC
1 GCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGT-GGGATAAGC
39300251 GCCGCTAAAG
1 GCCGCTAAAG
39300261 TTAGCGACGC
Statistics
Matches: 149, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.02
43 139 0.93
44 7 0.05
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
GCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGC
Found at i:39300162 original size:86 final size:86
Alignment explanation
Indices: 39300032--39300260 Score: 302
Period size: 86 Copynumber: 2.7 Consensus size: 86
39300022 TTTTTGCTAG
* * * *
39300032 AAGTGCCGCTAAATGTCATGGTCTATAGCAGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTGGT
1 AAGTG-CGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTAGT
39300097 CTTTAGCGGCGTTTGTGGGG-A
65 CTTTAGCGGCGTTTGTGGGGTA
* * *
39300118 AAGTGTCGCTAAAGGCCTTGGTCTTTAGCAGCGTTTGTGCGATAAGCGCCACTAAAGGTCTTAGT
1 AAGTG-CGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTAGT
* *
39300183 CTTTAGTGGCTTTTGTGGGGTA
65 CTTTAGCGGCGTTTGTGGGGTA
* *
39300205 AA-CGCTGCTAAAGGTCTTGGTCTTTAGCAGTGTTTGTGGGGA-AAGCGCCGCTAAAG
1 AAGTGC-GCTAAAGGTCTTGGTCTTTAGCAGCGTTTGT-GGGATAAGCGCCGCTAAAG
39300261 TTAGCGACGC
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 118 0.94
87 6 0.05
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (86 bp):
AAGTGCGCTAAAGGTCTTGGTCTTTAGCAGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTAGTC
TTTAGCGGCGTTTGTGGGGTA
Found at i:39303197 original size:20 final size:20
Alignment explanation
Indices: 39303155--39303213 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
39303145 GACTTGTTTG
*
39303155 AAAATCATTTTGA-TGTG-TT
1 AAAATCATTTTAACT-TGATT
*
39303174 AAAATGATTTTAACTTGATT
1 AAAATCATTTTAACTTGATT
*
39303194 AAAATCATTTTCACTTGATT
1 AAAATCATTTTAACTTGATT
39303214 TTAAAATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
AAAATCATTTTAACTTGATT
Found at i:39306686 original size:21 final size:21
Alignment explanation
Indices: 39306639--39306714 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
39306629 TACGGAACAT
* **
39306639 AAGTGCCTGAAACGACAAACG
1 AAGTGCCTGATACGACAAATA
*
39306660 AGGTGCCTGATACGACAAATA
1 AAGTGCCTGATACGACAAATA
*
39306681 AAGTGCCTGAGATACGACACATA
1 AAGTGCCT--GATACGACAAATA
*
39306704 AAGTACCTGAT
1 AAGTGCCTGAT
39306715 CGGCAAAGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 27 0.59
23 19 0.41
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.17
Consensus pattern (21 bp):
AAGTGCCTGATACGACAAATA
Found at i:39307833 original size:30 final size:28
Alignment explanation
Indices: 39307790--39307847 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
39307780 TTTTCTTCCC
39307790 CTGTTTTCATCTCTTTCTCTATTTCTTTT
1 CTGTTTTCATCTCTTTCTCTA-TTCTTTT
* *
39307819 CTGTTCTTCTTCTCTTTTTCTATTCTTTT
1 CTGTT-TTCATCTCTTTCTCTATTCTTTT
39307848 ATTTCATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.67
Consensus pattern (28 bp):
CTGTTTTCATCTCTTTCTCTATTCTTTT
Found at i:39309230 original size:23 final size:24
Alignment explanation
Indices: 39309204--39309274 Score: 101
Period size: 23 Copynumber: 3.0 Consensus size: 24
39309194 GGCTTTGCCG
*
39309204 ATTAGGCACTTTACGTGTCGTA-C
1 ATTAGGCACTTTATGTGTCGTATC
*
39309227 ATTAGGCACTTTATGTGACGTATC
1 ATTAGGCACTTTATGTGTCGTATC
*
39309251 -TCAGGCACTTTATGTGTCGTATC
1 ATTAGGCACTTTATGTGTCGTATC
39309274 A
1 A
39309275 GGCACCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 41 0.98
24 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (24 bp):
ATTAGGCACTTTATGTGTCGTATC
Found at i:39309277 original size:21 final size:21
Alignment explanation
Indices: 39309207--39309313 Score: 99
Period size: 23 Copynumber: 5.0 Consensus size: 21
39309197 TTTGCCGATT
* *
39309207 AGGCACTTTACGTGTCGTACATT
1 AGGCACTTTATGTGTCGT--ATC
*
39309230 AGGCACTTTATGTGACGTATCTC
1 AGGCACTTTATGTGTCGTA--TC
39309253 AGGCACTTTATGTGTCGTATC
1 AGGCACTTTATGTGTCGTATC
* ** * *
39309274 AGGCACCTCGTGTGTTGTTTC
1 AGGCACTTTATGTGTCGTATC
39309295 AGGCAC-TTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
39309314 GCTGATCAGG
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
20 9 0.13
21 25 0.36
23 35 0.51
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTATC
Found at i:39315812 original size:137 final size:138
Alignment explanation
Indices: 39315582--39315856 Score: 489
Period size: 137 Copynumber: 2.0 Consensus size: 138
39315572 TTCTTCTACT
*
39315582 ACTAAAGTTCTTTTGTTAAAAACTTGATAAGCTTTAGAATTTAAAAAAATAACCAAGAAAATTTT
1 ACTAAAGTTCTTTTGTTAAAAACTCGATAAGCTTTAGAATTTAAAAAAATAACCAAGAAAATTTT
* *
39315647 CTTTATAACTTTTTACATCATATTTACCAAGATTATCTTTGTCATTGTTTAAAACAAAATATTTT
66 CTTTATAACTTTTTACATCAAATTTACCAAGATTATCTTTGTCATTGTTTAAAACAAAACATTTT
39315712 CATCCAAA
131 CATCCAAA
39315720 ACTAAAGTTCTTTTGTTAAAAACTCGATAAGCTTTAGAATTT-AAAAAATAACCAAGAAAATTTT
1 ACTAAAGTTCTTTTGTTAAAAACTCGATAAGCTTTAGAATTTAAAAAAATAACCAAGAAAATTTT
* * *
39315784 CTTTATCATTTTTTACATCAAATTTACCAAGATTATCTTTTTCATTGTTTAAAACAAAACATTTT
66 CTTTATAACTTTTTACATCAAATTTACCAAGATTATCTTTGTCATTGTTTAAAACAAAACATTTT
39315849 CATCCAAA
131 CATCCAAA
39315857 GGGATGAAAA
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
137 90 0.69
138 41 0.31
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (138 bp):
ACTAAAGTTCTTTTGTTAAAAACTCGATAAGCTTTAGAATTTAAAAAAATAACCAAGAAAATTTT
CTTTATAACTTTTTACATCAAATTTACCAAGATTATCTTTGTCATTGTTTAAAACAAAACATTTT
CATCCAAA
Found at i:39319542 original size:16 final size:16
Alignment explanation
Indices: 39319521--39319551 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39319511 TTATTTATAG
*
39319521 TGTTTCTTTTTCCCAT
1 TGTTTCTTTTCCCCAT
39319537 TGTTTCTTTTCCCCA
1 TGTTTCTTTTCCCCA
39319552 CCTTCATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.58
Consensus pattern (16 bp):
TGTTTCTTTTCCCCAT
Found at i:39328853 original size:13 final size:13
Alignment explanation
Indices: 39328835--39328875 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
39328825 AGATTTTTTT
39328835 CTAAATATTATCA
1 CTAAATATTATCA
*
39328848 CTAAATA--AT-T
1 CTAAATATTATCA
39328858 CTAAATATTATCA
1 CTAAATATTATCA
39328871 CTAAA
1 CTAAA
39328876 CAATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 7 0.30
11 2 0.09
12 2 0.09
13 12 0.52
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:39328859 original size:23 final size:23
Alignment explanation
Indices: 39328833--39328884 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
39328823 TTAGATTTTT
*
39328833 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAACAA
39328856 TTCTAAATATTATCACTAAACAA
1 TTCTAAATATTATCACTAAACAA
39328879 TT-TAAA
1 TTCTAAA
39328885 AATCAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAACAA
Found at i:39332065 original size:12 final size:12
Alignment explanation
Indices: 39332048--39332072 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39332038 TTTAAAGGTG
39332048 TGGGGTGGTCTT
1 TGGGGTGGTCTT
39332060 TGGGGTGGTCTT
1 TGGGGTGGTCTT
39332072 T
1 T
39332073 TTCTATTTTT
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:0.08, G:0.48, T:0.44
Consensus pattern (12 bp):
TGGGGTGGTCTT
Found at i:39332289 original size:23 final size:22
Alignment explanation
Indices: 39332254--39332298 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
39332244 GTTTAAAAAA
39332254 TTTATTCTTATTT-TCTTTCTTT
1 TTTATTCTTATTTCTC-TTCTTT
39332276 TTTATTCCTTATTTCTCTTCTTT
1 TTTATT-CTTATTTCTCTTCTTT
39332299 GGCCATTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 13 0.62
24 2 0.10
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTCTTATTTCTCTTCTTT
Found at i:39336080 original size:24 final size:22
Alignment explanation
Indices: 39336038--39336083 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
39336028 CAATTATCCA
*
39336038 CATTTCATATACATGTATCATT
1 CATTTCATATACATATATCATT
39336060 CATTTCATATATCAATATATCATT
1 CATTTCATATA-C-ATATATCATT
39336084 TAACATCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 1 0.05
24 9 0.43
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (22 bp):
CATTTCATATACATATATCATT
Found at i:39336371 original size:25 final size:23
Alignment explanation
Indices: 39336318--39336398 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 23
39336308 TGAGCTAACG
* *
39336318 GTAAGCTCATGCGAGCTGAATATCG
1 GTAACCTCAT-CGAGCTGAA-ATCA
39336343 GTAACCTCATACGAGCTGAGAATCA
1 GTAACCTCAT-CGAGCTGA-AATCA
*
39336368 GTAAGCTCTCAT-GAGCTGAAATTA
1 GTAA-C-CTCATCGAGCTGAAATCA
39336392 GTAACCT
1 GTAACCT
39336399 TAATGACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 8 0.16
25 31 0.63
26 2 0.04
27 5 0.10
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAACCTCATCGAGCTGAAATCA
Found at i:39351421 original size:17 final size:18
Alignment explanation
Indices: 39351394--39351429 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39351384 AGGCAGCAAT
39351394 AGAAGAAAAACATGGAGA
1 AGAAGAAAAACATGGAGA
*
39351412 AGAA-AAAAACATTGAGA
1 AGAAGAAAAACATGGAGA
39351429 A
1 A
39351430 AATGAGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.06, G:0.22, T:0.08
Consensus pattern (18 bp):
AGAAGAAAAACATGGAGA
Found at i:39354435 original size:11 final size:11
Alignment explanation
Indices: 39354419--39354448 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
39354409 ATTGTTTACA
39354419 TGTTTAATTAG
1 TGTTTAATTAG
39354430 TGTTTAATTAG
1 TGTTTAATTAG
39354441 TGTTTAAT
1 TGTTTAAT
39354449 AAGTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (11 bp):
TGTTTAATTAG
Found at i:39356908 original size:18 final size:18
Alignment explanation
Indices: 39356859--39356908 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
39356849 AACTGAACTT
*
39356859 TTATTTTTATTTTTTGGA
1 TTATTTTTAATTTTTGGA
* *
39356877 TTA-TATTAGTTTTTGGA
1 TTATTTTTAATTTTTGGA
39356894 TTATTTTTAAATTTT
1 TTATTTTT-AATTTT
39356909 AATTTGTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 15 0.58
18 6 0.23
19 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (18 bp):
TTATTTTTAATTTTTGGA
Found at i:39375237 original size:54 final size:54
Alignment explanation
Indices: 39375144--39375248 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 54
39375134 CGAGGTCAAT
39375144 AAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTG
1 AAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTG
* * * *
39375198 AAATGACCGAAATACCCCCAT-AGGATGAAATGAAC-GAAATACCCTCATAGG
1 AAATAACCAAAATACCCCCATAAGG-TAAAATG-ACTGAAATACCCCCATAGG
39375249 TCCATAATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
53 3 0.07
54 40 0.89
55 2 0.04
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (54 bp):
AAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTG
Found at i:39375247 original size:27 final size:26
Alignment explanation
Indices: 39375153--39375249 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 26
39375143 TAAATAACCA
*
39375153 AAATACCCCCATAAGGTAAAATG-ACTG
1 AAATACCCCCAT-AGGTGAAATGAAC-G
*
39375180 AAATACCCCCATAGGGTGAAATGACCG
1 AAATACCCCCATA-GGTGAAATGAACG
39375207 AAATACCCCCATAGGATGAAATGAACG
1 AAATACCCCCATAGG-TGAAATGAACG
*
39375234 AAATACCCTCATAGGT
1 AAATACCCCCATAGGT
39375250 CCATAATGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
26 4 0.06
27 58 0.92
28 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AAATACCCCCATAGGTGAAATGAACG
Found at i:39375561 original size:370 final size:369
Alignment explanation
Indices: 39374876--39375574 Score: 1137
Period size: 370 Copynumber: 1.9 Consensus size: 369
39374866 TTCATGGGCT
* *
39374876 TAGGCCATAATGGGTAAGATAGGGCTGAAATGGGCCGTGTGGGGTCAAAGGGCTTGTAGGCCCCA
1 TAGGCCATAATGGGCAAGATAGGGCTGAAATGGGCCGTGTGGGCTCAAAGGGCTTGTAGGCCCCA
* * * *
39374941 CGCAAATGAAATCTACGAATTATGGAAAATACAGGACTAGGCGATATAGATCGCATAGCCGTGGT
66 CACAAATGAAATCCACGAATTATGGAAAATACAGGACTAGGCGATATAGATCCCATAGCCGTGGC
* * * * *
39375006 AAATTCTGGGCTGAATAGGCCACACGAATATGTGGGCCCAATTGGGCCGAGTAATGGTCCTTGGG
131 AAATTCTAGGCTGAATAGGCCACACGAATATGTGGGCCCAATTGGGCCGAGAAAAGGGCATTGGG
** * *
39375071 CCTGTTTACACTATTTTACCATTAAGGTTATCTGAGTCACTCGAGGCGACTACGAACCTTTTGCG
196 CCCATTTACACTATTTTACCATTAAGGTTACCTGAGTCACTCGAGGCGACTACGAACCTTTTGAG
*
39375136 AGGTCAATAAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTGAAA
261 AGGTCAATAAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTAAAA
39375201 TGACCGAAATACCCCCATAGGATGAAATGAACGAAATACCCTCA
326 TGACCGAAATACCCCCATAGGATGAAATGAACGAAATACCCTCA
* *
39375245 TAGGTCCATAATGGGCCAGATAGGGTTGAAATGGGCCGTGTGGGCTCAAAGGGCTTGTAGGCCCC
1 TAGG-CCATAATGGGCAAGATAGGGCTGAAATGGGCCGTGTGGGCTCAAAGGGCTTGTAGGCCCC
** *
39375310 ACACGGATGAAATCCACGAATTATGGAAAATATAGGACTAGGCGATATAGATCCCATAGCCGTGG
65 ACACAAATGAAATCCACGAATTATGGAAAATACAGGACTAGGCGATATAGATCCCATAGCCGTGG
* * *
39375375 CAAATTCTATGCTGAATGGGCCGCACGAATATGTGGGCCCAATTGGGCCGAGAAAAGGGCATTGG
130 CAAATTCTAGGCTGAATAGGCCACACGAATATGTGGGCCCAATTGGGCCGAGAAAAGGGCATTGG
* * * *
39375440 GCCCATTTACACTATTTTACCATTTAGGTTACCTGAGTCGCTCGAGGTGACTACGGACCTTTTGA
195 GCCCATTTACACTATTTTACCATTAAGGTTACCTGAGTCACTCGAGGCGACTACGAACCTTTTGA
39375505 GAGGTCAATAAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTAAA
260 GAGGTCAATAAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTAAA
39375570 ATGAC
325 ATGAC
39375575 TGTTTACCCC
Statistics
Matches: 301, Mismatches: 28, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
369 4 0.01
370 297 0.99
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (369 bp):
TAGGCCATAATGGGCAAGATAGGGCTGAAATGGGCCGTGTGGGCTCAAAGGGCTTGTAGGCCCCA
CACAAATGAAATCCACGAATTATGGAAAATACAGGACTAGGCGATATAGATCCCATAGCCGTGGC
AAATTCTAGGCTGAATAGGCCACACGAATATGTGGGCCCAATTGGGCCGAGAAAAGGGCATTGGG
CCCATTTACACTATTTTACCATTAAGGTTACCTGAGTCACTCGAGGCGACTACGAACCTTTTGAG
AGGTCAATAAATAACCAAAATACCCCCATAAGGTAAAATGACTGAAATACCCCCATAGGGTAAAA
TGACCGAAATACCCCCATAGGATGAAATGAACGAAATACCCTCA
Found at i:39375583 original size:26 final size:27
Alignment explanation
Indices: 39375523--39375576 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39375513 TAAATAACCA
39375523 AAATACCCCCATAAGGTAAAATGACTG
1 AAATACCCCCATAAGGTAAAATGACTG
*
39375550 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAAGGTAAAATGACTG
39375577 TTTACCCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAAGGTAAAATGACTG
Found at i:39375770 original size:26 final size:26
Alignment explanation
Indices: 39375740--39375816 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 26
39375730 GGAAATATAT
* *
39375740 TGTTACTGGCAGCTTTGCTGCGATGC
1 TGTTACTGGAAGCTTTGCTGCGATAC
*
39375766 TGTTACT-GATAGGTTTGCTGCGATAC
1 TGTTACTGGA-AGCTTTGCTGCGATAC
*
39375792 TATTACTGGAAGCTTTGCTGCGATA
1 TGTTACTGGAAGCTTTGCTGCGATA
39375817 TTGGTGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.02
26 41 0.93
27 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (26 bp):
TGTTACTGGAAGCTTTGCTGCGATAC
Found at i:39383324 original size:27 final size:27
Alignment explanation
Indices: 39383260--39383357 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
39383250 AGAGGTCAGT
* *
39383260 AAATGACCGAAATACCCTCATA-GGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
39383286 AAATGA-TCGAAATACCCCCATAGGGTG
1 AAATGACT-GAAATACCCCCATAGGGTA
*
39383313 AAATGACTGAAATACCCCAATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* **
39383340 AAATAACTGTTATACCCC
1 AAATGACTGAAATACCCC
39383358 TAGGAGATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
26 19 0.31
27 41 0.67
28 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:39383864 original size:22 final size:20
Alignment explanation
Indices: 39383819--39383867 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
39383809 CCTAAAGGGG
* *
39383819 ACACATGGCTATGTCGCCTA
1 ACACACGGCCATGTCGCCTA
39383839 ACACACGGCCATGTCGCCTA
1 ACACACGGCCATGTCGCCTA
39383859 ACACACGGC
1 ACACACGGC
39383868 TGAGTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.16
Consensus pattern (20 bp):
ACACACGGCCATGTCGCCTA
Found at i:39385087 original size:12 final size:12
Alignment explanation
Indices: 39385064--39385098 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
39385054 TTTCCATTTT
*
39385064 TTTAAGTCAATA
1 TTTAATTCAATA
*
39385076 TTTCATTCAATA
1 TTTAATTCAATA
39385088 TTTAATTCAAT
1 TTTAATTCAAT
39385099 TCCACACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (12 bp):
TTTAATTCAATA
Found at i:39395251 original size:104 final size:103
Alignment explanation
Indices: 39395071--39395293 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
39395061 TTGTATATAA
** * *
39395071 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
39395136 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
39395175 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
39395239 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
39395278 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
39395294 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Done.