Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 21 of 255
Found at i:5648340 original size:6 final size:6
Alignment explanation
Indices: 5648324--5648362 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
5648314 ATATATAATT
5648324 GAAAT- GAAATG GAAATG GAAATG GAAATG GAAAT- GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
5648363 TAGAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (6 bp):
GAAATG
Found at i:5648340 original size:11 final size:10
Alignment explanation
Indices: 5648323--5648421 Score: 81
Period size: 11 Copynumber: 9.1 Consensus size: 10
5648313 AATATATAAT
5648323 TGAAATGAAA
1 TGAAATGAAA
5648333 TGGAAATGGAAA
1 T-GAAAT-GAAA
5648345 TGGAAATGGAAA
1 T-GAAAT-GAAA
*
5648357 TGAAATTAGAA
1 TGAAATGA-AA
5648368 TGAAATGAAA
1 TGAAATGAAA
*
5648378 TTGGAATGAAA
1 -TGAAATGAAA
* *
5648389 TAAAATTAAAA
1 TGAAA-TGAAA
5648400 TGAAATGAAAA
1 TGAAATG-AAA
*
5648411 TGAAAAGAAA
1 TGAAATGAAA
5648421 T
1 T
5648422 AAAAAAAGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.16
11 45 0.61
12 17 0.23
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAAATGAAA
Found at i:5648350 original size:18 final size:16
Alignment explanation
Indices: 5648323--5648415 Score: 75
Period size: 16 Copynumber: 5.6 Consensus size: 16
5648313 AATATATAAT
5648323 TGAAATGAAATGGAAA
1 TGAAATGAAATGGAAA
5648339 TGGAAATGGAAATGGAAA
1 T-GAAAT-GAAATGGAAA
*
5648357 TGAAATTAGAAT-GAAA
1 TGAAATGA-AATGGAAA
*
5648373 TGAAATTGGAAT-GAAA
1 TGAAA-TGAAATGGAAA
* *
5648389 TAAAATTAAAAT-GAAA
1 TGAAA-TGAAATGGAAA
5648405 TGAAAATGAAA
1 TG-AAATGAAA
5648416 AGAAATAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
16 36 0.56
17 17 0.27
18 11 0.17
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (16 bp):
TGAAATGAAATGGAAA
Found at i:5648374 original size:16 final size:16
Alignment explanation
Indices: 5648353--5648409 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
5648343 AATGGAAATG
5648353 GAAATGAAATTAGAAT
1 GAAATGAAATTAGAAT
*
5648369 GAAATGAAATTGGAAT
1 GAAATGAAATTAGAAT
* *
5648385 GAAATAAAATTAAAAT
1 GAAATGAAATTAGAAT
5648401 GAAATGAAA
1 GAAATGAAA
5648410 ATGAAAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.18, T:0.23
Consensus pattern (16 bp):
GAAATGAAATTAGAAT
Found at i:5648420 original size:16 final size:15
Alignment explanation
Indices: 5648385--5648425 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
5648375 AAATTGGAAT
*
5648385 GAAATAAAATTAAAA
1 GAAATAAAATGAAAA
5648400 TGAAATGAAAATGAAAA
1 -GAAAT-AAAATGAAAA
5648417 GAAATAAAA
1 GAAATAAAA
5648426 AAAGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (15 bp):
GAAATAAAATGAAAA
Found at i:5648433 original size:5 final size:6
Alignment explanation
Indices: 5648325--5648420 Score: 55
Period size: 6 Copynumber: 17.3 Consensus size: 6
5648315 TATATAATTG
* * * * * *
5648325 AAATG- AAATGG AAATGG AAATGG AAATGG AAATG- AAATTA GAATG-
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
* * *
5648370 AAATGA AATTG- GAATG- AAAT-A AAATTA AAATG- AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
5648414 AAA-GA AA
1 AAATGA AA
5648421 TAAAAAAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
5 32 0.42
6 44 0.58
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.20
Consensus pattern (6 bp):
AAATGA
Found at i:5648909 original size:14 final size:14
Alignment explanation
Indices: 5648890--5648992 Score: 90
Period size: 14 Copynumber: 7.2 Consensus size: 14
5648880 CATGAATTGA
5648890 AAAAAAATAATATG
1 AAAAAAATAATATG
5648904 AAAAAAATAATATG
1 AAAAAAATAATATG
*
5648918 AGAAAAATAATATG
1 AAAAAAATAATATG
5648932 ----AAATGAAT-TG
1 AAAAAAAT-AATATG
5648942 AAAAAAAATAATATG
1 -AAAAAAATAATATG
*
5648957 AAAAATGATATAAAAAATG
1 AAAAA--A-AT--AATATG
5648976 AAAAAAATAATATG
1 AAAAAAATAATATG
5648990 AAA
1 AAA
5648993 TGAATTGAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 24
0.73 0.03 0.24
Matches are distributed among these distances:
10 6 0.08
11 3 0.04
14 43 0.58
15 6 0.08
16 3 0.04
17 3 0.04
19 10 0.14
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (14 bp):
AAAAAAATAATATG
Found at i:5648948 original size:53 final size:56
Alignment explanation
Indices: 5648873--5649012 Score: 205
Period size: 53 Copynumber: 2.5 Consensus size: 56
5648863 AATTTGATAA
* * *
5648873 AATATGACATGAATTGAAAAAAAATAATATGAAAAA-A-AT-AATATGAGAAAAAT
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAAAGATATAAAAATGAAAAAAAT
5648926 AATATGAAATGAATTGAAAAAAAATAATATGAAAAATGATATAAAAAATGAAAAAAAT
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAAA-GATAT-AAAAATGAAAAAAAT
5648984 AATATGAAATGAATTGAAAAAAAAATAAT
1 AATATGAAATGAATTG-AAAAAAAATAAT
5649013 TAAAATGAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
53 35 0.45
55 1 0.01
56 2 0.03
58 28 0.36
59 12 0.15
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.23
Consensus pattern (56 bp):
AATATGAAATGAATTGAAAAAAAATAATATGAAAAAGATATAAAAATGAAAAAAAT
Found at i:5648958 original size:25 final size:25
Alignment explanation
Indices: 5648873--5648959 Score: 97
Period size: 25 Copynumber: 3.4 Consensus size: 25
5648863 AATTTGATAA
*
5648873 AATATGACATGAATTGAAAAAAAAT
1 AATATGAAATGAATTGAAAAAAAAT
*
5648898 AATATGAAAAAAAT-AATATG-AGAAAAAT
1 AATATG----AAATGAAT-TGAAAAAAAAT
5648926 AATATGAAATGAATTGAAAAAAAAT
1 AATATGAAATGAATTGAAAAAAAAT
5648951 AATATGAAA
1 AATATGAAA
5648960 AATGATATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
24 6 0.12
25 25 0.48
28 16 0.31
29 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.11, T:0.23
Consensus pattern (25 bp):
AATATGAAATGAATTGAAAAAAAAT
Found at i:5648971 original size:25 final size:26
Alignment explanation
Indices: 5648890--5648973 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 26
5648880 CATGAATTGA
*
5648890 AAAAAAATAATATGAAAAAAATAATATG
1 AAAAAAATAATATG--AAAAATGATATG
*
5648918 AGAAAAATAATATG--AAATGA-ATTG
1 AAAAAAATAATATGAAAAATGATA-TG
5648942 AAAAAAAATAATATGAAAAATGATAT-
1 -AAAAAAATAATATGAAAAATGATATG
5648968 AAAAAA
1 AAAAAA
5648974 TGAAAAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
23 1 0.02
24 7 0.15
25 19 0.40
27 7 0.15
28 14 0.29
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (26 bp):
AAAAAAATAATATGAAAAATGATATG
Found at i:5648983 original size:21 final size:23
Alignment explanation
Indices: 5648957--5649010 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
5648947 AAATAATATG
*
5648957 AAAAATGATAT-AAA-AAATGAA
1 AAAAATAATATGAAAGAAATGAA
*
5648978 AAAAATAATATGAAATGAATTGAA
1 AAAAATAATATGAAA-GAAATGAA
5649002 AAAAA-AATA
1 AAAAATAATA
5649011 ATTAAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 3 0.11
23 4 0.14
24 11 0.39
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAAATAATATGAAAGAAATGAA
Found at i:5649006 original size:33 final size:32
Alignment explanation
Indices: 5648901--5648992 Score: 96
Period size: 33 Copynumber: 2.6 Consensus size: 32
5648891 AAAAAATAAT
5648901 ATGAAAAAAATAATATGAGAAAAAT-AATATGAAATGA
1 ATGAAAAAAATAATAT--GAAAAATGAATA--AAA--A
5648938 ATTGAAAAAAAATAATATGAAAAATGATATAAAAA
1 A-TG-AAAAAAATAATATGAAAAATGA-ATAAAAA
5648973 ATGAAAAAAATAATATGAAA
1 ATGAAAAAAATAATATGAAA
5648993 TGAATTGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
33 17 0.33
34 2 0.04
35 2 0.04
37 11 0.22
38 3 0.06
39 16 0.31
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (32 bp):
ATGAAAAAAATAATATGAAAAATGAATAAAAA
Found at i:5651526 original size:25 final size:26
Alignment explanation
Indices: 5651494--5651616 Score: 102
Period size: 25 Copynumber: 5.0 Consensus size: 26
5651484 TTTCATTTTA
*
5651494 ATTT-AATTTCATTTCA-ATTATTTC
1 ATTTCAATTTCTTTTCATATTATTTC
*
5651518 ATTTCAATTTTTTTTCA-ATTCATTTC
1 ATTTCAATTTCTTTTCATATT-ATTTC
5651544 ATATT--ATTT-TTTTCATATTATTAT-
1 AT-TTCAATTTCTTTTCATATTATT-TC
* *
5651568 TTTTC-ATTTCTTTTCATATTATTTT
1 ATTTCAATTTCTTTTCATATTATTTC
* *
5651593 TTTTCAA-TTCATTTCATATTATTT
1 ATTTCAATTTCTTTTCATATTATTT
5651617 TTCTCATATT
Statistics
Matches: 86, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
23 2 0.02
24 19 0.22
25 55 0.64
26 8 0.09
27 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTCAATTTCTTTTCATATTATTTC
Found at i:5651539 original size:16 final size:16
Alignment explanation
Indices: 5651479--5651539 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
5651469 TTTTCAATCT
* *
5651479 TTTTTTTTCATTTTAA
1 TTTTATTTCATTTCAA
*
5651495 TTTAATTTCATTTCAA
1 TTTTATTTCATTTCAA
5651511 --TTATTTCATTTCAA
1 TTTTATTTCATTTCAA
* *
5651525 TTTTTTTTCAATTCA
1 TTTTATTTCATTTCA
5651540 TTTCATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 13 0.35
16 24 0.65
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTCATTTCAA
Found at i:5651559 original size:14 final size:14
Alignment explanation
Indices: 5651540--5651660 Score: 93
Period size: 14 Copynumber: 9.2 Consensus size: 14
5651530 TTTCAATTCA
5651540 TTTCATATTATTTT
1 TTTCATATTATTTT
5651554 TTTCATATTATTATT
1 TTTCATATTATT-TT
*
5651569 TTTC--A-T-TTCT
1 TTTCATATTATTTT
5651579 TTTCATATTATTTTT
1 TTTCATATTA-TTTT
5651594 TTTCA-ATTCA----
1 TTTCATATT-ATTTT
5651604 TTTCATATTATTTT
1 TTTCATATTATTTT
*
5651618 TCTCATATTATTTT
1 TTTCATATTATTTT
* *
5651632 TTTCCTA-T-TGTT
1 TTTCATATTATTTT
*
5651644 TTTCATATTGTTTT
1 TTTCATATTATTTT
5651658 TTT
1 TTT
5651661 TTCAATTTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
10 11 0.13
11 5 0.06
12 11 0.13
13 4 0.05
14 39 0.46
15 15 0.18
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTCATATTATTTT
Found at i:5651590 original size:22 final size:22
Alignment explanation
Indices: 5651515--5651619 Score: 105
Period size: 25 Copynumber: 4.9 Consensus size: 22
5651505 TTTCAATTAT
*
5651515 TTCATTTCA-ATTTTTTTTCAA
1 TTCATTTCATATTATTTTTCAA
5651536 TTCATTTCATATTATTTTT---
1 TTCATTTCATATTATTTTTCAA
* *
5651555 TTCATAT--TATTATTTTTCAT
1 TTCATTTCATATTATTTTTCAA
*
5651575 TTCTTTTCATATTATTTTTTTTCAA
1 TTCATTTCATATTA---TTTTTCAA
5651600 TTCATTTCATATTATTTTTC
1 TTCATTTCATATTATTTTTC
5651620 TCATATTATT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
17 10 0.14
19 6 0.09
20 5 0.07
21 9 0.13
22 19 0.28
25 20 0.29
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (22 bp):
TTCATTTCATATTATTTTTCAA
Found at i:5651597 original size:64 final size:66
Alignment explanation
Indices: 5651524--5651678 Score: 237
Period size: 64 Copynumber: 2.4 Consensus size: 66
5651514 TTTCATTTCA
*
5651524 ATTTTTTTTCAATTCATTTCATATTATTTTTTTCATATTATTATTTTT-C-ATT-TCTTTTCATA
1 ATTTTTTTTCAATTCATTTCATATTATTTTTCTCATATTATT-TTTTTCCTATTGT-TTTTCATA
5651586 TT-
64 TTG
5651588 ATTTTTTTTCAATTCATTTCATATTATTTTTCTCATATTATTTTTTTCCTATTGTTTTTCATATT
1 ATTTTTTTTCAATTCATTTCATATTATTTTTCTCATATTATTTTTTTCCTATTGTTTTTCATATT
5651653 G
66 G
* *
5651654 TTTTTTTTTCAATTTATTTCATATT
1 ATTTTTTTTCAATTCATTTCATATT
5651679 TTATCAAATT
Statistics
Matches: 84, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
63 5 0.06
64 42 0.50
65 13 0.15
66 24 0.29
ACGTcount: A:0.21, C:0.11, G:0.01, T:0.67
Consensus pattern (66 bp):
ATTTTTTTTCAATTCATTTCATATTATTTTTCTCATATTATTTTTTTCCTATTGTTTTTCATATT
G
Found at i:5651640 original size:28 final size:26
Alignment explanation
Indices: 5651604--5651660 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
5651594 TTTCAATTCA
*
5651604 TTTCATATTATTTTTCTCATATTATTTT
1 TTTCATATT-GTTTT-TCATATTATTTT
* *
5651632 TTTCCTATTGTTTTTCATATTGTTTT
1 TTTCATATTGTTTTTCATATTATTTT
5651658 TTT
1 TTT
5651661 TTCAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.54
27 4 0.15
28 8 0.31
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTCATATTGTTTTTCATATTATTTT
Found at i:5651647 original size:12 final size:12
Alignment explanation
Indices: 5651626--5651658 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5651616 TTTCTCATAT
*
5651626 TATT-TTTTTCC
1 TATTGTTTTTCA
5651637 TATTGTTTTTCA
1 TATTGTTTTTCA
5651649 TATTGTTTTT
1 TATTGTTTTT
5651659 TTTTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.73
Consensus pattern (12 bp):
TATTGTTTTTCA
Found at i:5651816 original size:22 final size:22
Alignment explanation
Indices: 5651788--5651872 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 22
5651778 TTAAATTTGA
5651788 TAAAAAAAATCTCATTTCAATT
1 TAAAAAAAATCTCATTTCAATT
*
5651810 T--AAAAAATCTCATTTAAAATTT
1 TAAAAAAAATCTCATTT-CAA-TT
* *
5651832 GTCTAAAAAAATCTCATTTCGATTT
1 -T-AAAAAAAATCTCATTTC-AATT
5651857 TAAAAAAAAT-TCATTT
1 TAAAAAAAATCTCATTT
5651873 AAAAAATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
20 14 0.27
21 2 0.04
22 9 0.17
23 9 0.17
24 1 0.02
25 2 0.04
26 15 0.29
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAAAAAATCTCATTTCAATT
Found at i:5651830 original size:46 final size:47
Alignment explanation
Indices: 5651775--5651876 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 47
5651765 TTCAATTTAA
*
5651775 ATTTTAAATTTGAT-AAAAAAAATCTCATTTC-AATTT-AAAAAATCTC
1 ATTTAAAATTTG-TCAAAAAAAATCTCATTTCGAATTTAAAAAAAT-TC
* *
5651821 ATTTAAAATTTGTCTAAAAAAATCTCATTTCGATTTTAAAAAAAATTC
1 ATTTAAAATTTGTCAAAAAAAATCTCATTTCGAATTT-AAAAAAATTC
5651869 ATTTAAAA
1 ATTTAAAA
5651877 AATTTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
45 1 0.02
46 27 0.55
47 4 0.08
48 10 0.20
49 7 0.14
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (47 bp):
ATTTAAAATTTGTCAAAAAAAATCTCATTTCGAATTTAAAAAAATTC
Found at i:5651924 original size:44 final size:41
Alignment explanation
Indices: 5651869--5651952 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 41
5651859 AAAAAAATTC
5651869 ATTTAAAAAATTTTAT-TTTCATTTTAGTATTTCTTTTCATTTAA
1 ATTTAAAAAATTTTATATTTCA-TTTA--ATTT-TTTTCATTTAA
* *
5651913 ATTTATAAAATTTTATATTTTATTTAATTTTTTTCATTTA
1 ATTTAAAAAATTTTATATTTCATTTAATTTTTTTCATTTA
5651953 TTCCTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 10 0.27
42 4 0.11
44 19 0.51
45 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (41 bp):
ATTTAAAAAATTTTATATTTCATTTAATTTTTTTCATTTAA
Found at i:5652574 original size:105 final size:106
Alignment explanation
Indices: 5652386--5652590 Score: 261
Period size: 105 Copynumber: 1.9 Consensus size: 106
5652376 AATTTTTTTT
* * *
5652386 TTAAAACTCGGTACTCTGGTACCGGCCATTGATAGGCCAGCACAAAAAAATTTTGATTTTTTTTT
1 TTAAAACTCGGTACTCTGGTACCAGCCATTGACAGGCCAGCACAAAAAAATATTGATTTTTTTTT
* *
5652451 GTACTTAGTACCGACCATTGATATGCCAGCACCAAAAAAAA
66 GTACTTAGTACCGACCATTGACAGGCCAGCACCAAAAAAAA
* * * * *
5652492 TTAAAACTC-GTATTTTGGTGCCAGCCATTGACGGGCCAGTACCAAAAAAA-ATTGATTTTTTTT
1 TTAAAACTCGGTACTCTGGTACCAGCCATTGACAGGCCAGCA-CAAAAAAATATTGATTTTTTTT
* * * *
5652555 TGTACTTAGTGCTGGCCATTGACAGGCGAGCACCAA
65 TGTACTTAGTACCGACCATTGACAGGCCAGCACCAA
5652591 TTGTTTTTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
105 67 0.80
106 17 0.20
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TTAAAACTCGGTACTCTGGTACCAGCCATTGACAGGCCAGCACAAAAAAATATTGATTTTTTTTT
GTACTTAGTACCGACCATTGACAGGCCAGCACCAAAAAAAA
Found at i:5652590 original size:54 final size:54
Alignment explanation
Indices: 5652407--5652590 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
5652397 TACTCTGGTA
* * *
5652407 CCGGCCATTGATAGGCCAGCA-CAAAAAAATTTTGATTTTTTTTTGTACTTAGTA
1 CCGGCCATTGACAGGCCAGCACCAAAAAAA-ATTGATTTTTTTTTGTACTTAGTG
* * * * *** ** * *
5652461 CCGACCATTGATATGCCAGCACCAAAAAAAATTAAAACTCGTAT-T--TTGGTG
1 CCGGCCATTGACAGGCCAGCACCAAAAAAAATTGATTTTTTTTTGTACTTAGTG
* * *
5652512 CCAGCCATTGACGGGCCAGTACCAAAAAAAATTGATTTTTTTTTGTACTTAGTG
1 CCGGCCATTGACAGGCCAGCACCAAAAAAAATTGATTTTTTTTTGTACTTAGTG
* *
5652566 CTGGCCATTGACAGGCGAGCACCAA
1 CCGGCCATTGACAGGCCAGCACCAA
5652591 TTGTTTTTTT
Statistics
Matches: 95, Mismatches: 31, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
51 35 0.37
52 1 0.01
53 1 0.01
54 50 0.53
55 8 0.08
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (54 bp):
CCGGCCATTGACAGGCCAGCACCAAAAAAAATTGATTTTTTTTTGTACTTAGTG
Found at i:5656059 original size:58 final size:58
Alignment explanation
Indices: 5655933--5656072 Score: 167
Period size: 59 Copynumber: 2.4 Consensus size: 58
5655923 GTATCCTAAC
* *
5655933 AACTAAAAAATATATATTTTTTTAAATCTACTATTGGATGTCAAAAATTAATGTCCCAAT
1 AACTAAAAAA-ATAT-TTTTTTTAAATATACTATTGGATGTCAAAAATTAATGTCACAAT
* **
5655993 AACCAAAAAAATATTTTTTTTAAATATGA-TATTGAGATGTCAGCAATTAATGTCACAA-
1 AACTAAAAAAATATTTTTTTTAAATAT-ACTATTG-GATGTCAAAAATTAATGTCACAAT
*
5656051 CACTAAAAAAATATTGTTTTTT
1 AACTAAAAAAATATT-TTTTTT
5656073 TTAAATCTAG
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
58 30 0.43
59 31 0.44
60 9 0.13
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (58 bp):
AACTAAAAAAATATTTTTTTTAAATATACTATTGGATGTCAAAAATTAATGTCACAAT
Found at i:5657535 original size:23 final size:23
Alignment explanation
Indices: 5657461--5657535 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
5657451 TATTCATTAC
*
5657461 TTTAAATTACTTTAAATTCCATTTT
1 TTTAAATTACTTT-AATTCC-TATT
* *
5657486 TTTAAAAT-CTATTCATT-C-ATT
1 TTTAAATTACT-TTAATTCCTATT
5657507 AGTTTAAATTACTTTAATTCCTATT
1 --TTTAAATTACTTTAATTCCTATT
5657532 TTTA
1 TTTA
5657536 TCCCTTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
21 2 0.05
23 17 0.44
24 8 0.21
25 12 0.31
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (23 bp):
TTTAAATTACTTTAATTCCTATT
Found at i:5657571 original size:18 final size:19
Alignment explanation
Indices: 5657531--5657571 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
5657521 TAATTCCTAT
5657531 TTTTATCCCTTTAAATTAA
1 TTTTATCCCTTTAAATTAA
5657550 -TTTAT-CC-TTAAATTATA
1 TTTTATCCCTTTAAATTA-A
5657567 TTTTA
1 TTTTA
5657572 ATTAAAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATCCCTTTAAATTAA
Found at i:5657640 original size:13 final size:14
Alignment explanation
Indices: 5657610--5657638 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5657600 AATTTATTTC
5657610 AATTTTTTAATTAA
1 AATTTTTTAATTAA
5657624 AATTTTTTAATTAA
1 AATTTTTTAATTAA
5657638 A
1 A
5657639 TTGATTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTTTTAATTAA
Found at i:5657640 original size:27 final size:28
Alignment explanation
Indices: 5657583--5657640 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
5657573 TTAAAATCGT
* * *
5657583 ATTTTTTTATAAAAATTAATTTATTTCA
1 ATTTTTTAATAAAAATTAATTTAATTAA
* *
5657611 ATTTTTTAATTAAAATT-TTTTAATTAA
1 ATTTTTTAATAAAAATTAATTTAATTAA
5657638 ATT
1 ATT
5657641 GATTTATGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTTTAATAAAAATTAATTTAATTAA
Found at i:5659549 original size:26 final size:26
Alignment explanation
Indices: 5659511--5659575 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
5659501 TCTACTTTCA
* * *
5659511 TTTTAATATTATTT-ATCTATTATTTT
1 TTTTAATAGTATTTCAT-TATAATTAT
*
5659537 TTTTATTAGTATTTCATTATAATTAT
1 TTTTAATAGTATTTCATTATAATTAT
5659563 TTTTAATATGTAT
1 TTTTAATA-GTAT
5659576 ATATATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (26 bp):
TTTTAATAGTATTTCATTATAATTAT
Found at i:5672702 original size:14 final size:14
Alignment explanation
Indices: 5672683--5672717 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5672673 CGCTGAGGTA
* *
5672683 TTTTCAATTTCTGT
1 TTTTCAATTTATAT
5672697 TTTTCAATTTATAT
1 TTTTCAATTTATAT
5672711 TTTTCAA
1 TTTTCAA
5672718 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:5672767 original size:87 final size:87
Alignment explanation
Indices: 5672624--5673275 Score: 734
Period size: 89 Copynumber: 7.5 Consensus size: 87
5672614 ATGTTTTTAT
* * ** *
5672624 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGATACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* *
5672689 ATTTCTGTTTTTCAATTTATAT
66 ATTTCTGTTTTTCAATTTCTAC
* *
5672711 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTC-
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * *
5672775 ATTTTTGCTTTTCAATCTCTAC
66 ATTTCTGTTTTTCAATTTCTAC
* * * *
5672797 TTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTG
1 TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
*
5672861 TTTTC-A-----GTTTTT--ATTTATAC
60 TTTTCAATTTCTGTTTTTCAATTTCTAC
* * * * **
5672881 TTTTCAAAAATCAACTCATATGGCGAGAGGTAAGTTGAGCCTCGGGCCACATGCCAAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTT
*
5672946 CAAATTCTGTTTTT-AATTTCTAC
64 CAATTTCTGTTTTTCAATTTCTAC
* * * *
5672969 TTTTCAAAAACCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* * *
5673034 ATTTTTGTTTATCAATTTCTAT
66 ATTTCTGTTTTTCAATTTCTAC
* *
5673056 TTTTCAAAGAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTC--A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
* *
5673121 TCAATTTCTATTTATCAATTTCTAC
63 TCAATTTCTGTTTTTCAATTTCTAC
* *
5673146 TTTTCAAGAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* **
5673211 CAATTTCTG-TTTTCAATTTATGT
64 CAATTTCTGTTTTTCAATTTCTAC
*
5673234 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5673276 TTTAATTTCT
Statistics
Matches: 489, Mismatches: 58, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
81 50 0.10
82 3 0.01
84 11 0.02
86 85 0.17
87 77 0.16
88 64 0.13
89 103 0.21
90 81 0.17
91 15 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTGTTTTTCAATTTCTAC
Found at i:5673152 original size:14 final size:13
Alignment explanation
Indices: 5673119--5673152 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
5673109 GCTGAGGTAA
5673119 TTTCAATTTCTAT
1 TTTCAATTTCTAT
5673132 TTATCAATTTCTACT
1 TT-TCAATTTCTA-T
5673147 TTTCAA
1 TTTCAA
5673153 GAAAATCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTCAATTTCTAT
Found at i:5673290 original size:54 final size:56
Alignment explanation
Indices: 5673220--5673331 Score: 174
Period size: 55 Copynumber: 2.0 Consensus size: 56
5673210 TCAATTTCTG
* *
5673220 TTTTCAATTTATG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
1 TTTTCAATTTATGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTAAGCC
* *
5673275 TTTT-AATTTCTGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTATGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTAAGCC
5673330 TT
1 TT
5673332 GGCTCACATG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 7 0.13
55 45 0.87
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (56 bp):
TTTTCAATTTATGTTTTTTCAAAAATCAACCCATATCGCGAGAGGTGAGTTAAGCC
Found at i:5677497 original size:44 final size:44
Alignment explanation
Indices: 5677448--5677593 Score: 220
Period size: 44 Copynumber: 3.3 Consensus size: 44
5677438 TTCTTATTCC
** * *
5677448 TAATTTAAAACATGTTAAATTATAATACAATACACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
5677492 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
5677536 TATTTTAAAACACATTAAATTATAATACAATATACATATATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
5677580 TATTTTAAAACACA
1 TAATTTAAAACACA
5677594 ATAATAAAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:5677672 original size:27 final size:24
Alignment explanation
Indices: 5677642--5677869 Score: 106
Period size: 22 Copynumber: 9.6 Consensus size: 24
5677632 AAAAAAACGA
5677642 AAATTAAAATAGAAAGAAAGATAATTT
1 AAATTAAAAT-GAAA-AAA-ATAATTT
*
5677669 AAA-TGAAATGAGAAAAAA-AA--T
1 AAATTAAAATGA-AAAAAATAATTT
5677690 AAATTAAAATGAAAAAAATAATTT
1 AAATTAAAATGAAAAAAATAATTT
* * * *
5677714 AAA-TGATATGAGAAAAA-AACTT
1 AAATTAAAATGAAAAAAATAATTT
5677736 AAATTAAAATGAAAAAAAAAGATAATTT
1 AAATTAAAATG---AAAAAA-ATAATTT
* * *
5677764 AAA-TGAAATGAGAACAA-AA--T
1 AAATTAAAATGAAAAAAATAATTT
* *
5677784 AAATTTAAATGGAAAAAATTAATTT
1 AAATTAAAAT-GAAAAAAATAATTT
* * ** *
5677809 -CAGTGGAATGAGAAAAA-AA-TT
1 AAATTAAAATGAAAAAAATAATTT
5677830 AAATTAAAATGAGAAAAAAGATAATTT
1 AAATTAAAAT--GAAAAAA-ATAATTT
*
5677857 AAA-TGAAATGAAA
1 AAATTAAAATGAAA
5677870 TGGAAATACA
Statistics
Matches: 150, Mismatches: 29, Indels: 47
0.66 0.13 0.21
Matches are distributed among these distances:
20 4 0.03
21 17 0.11
22 30 0.20
23 27 0.18
24 24 0.16
25 7 0.05
26 19 0.13
27 15 0.10
28 7 0.05
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (24 bp):
AAATTAAAATGAAAAAAATAATTT
Found at i:5677717 original size:18 final size:19
Alignment explanation
Indices: 5677682--5677753 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 19
5677672 TGAAATGAGA
5677682 AAAAAAATAAATTAAAATG
1 AAAAAAATAAATTAAAATG
*
5677701 AAAAAAATAATTTAAATGATATGAG
1 AAAAAAATAAATT-AA--A-AT--G
5677726 AAAAAAACTTAAATTAAAATG
1 AAAAAAA--TAAATTAAAATG
5677747 AAAAAAA
1 AAAAAAA
5677754 AAGATAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
19 12 0.28
20 2 0.05
21 8 0.19
22 1 0.02
23 4 0.09
24 1 0.02
25 8 0.19
26 2 0.05
27 5 0.12
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAAAAATAAATTAAAATG
Found at i:5677725 original size:45 final size:47
Alignment explanation
Indices: 5677642--5677867 Score: 280
Period size: 45 Copynumber: 4.8 Consensus size: 47
5677632 AAAAAAACGA
5677642 AAATTAAAATAGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAAT
1 AAATTAAAATAGAAA-AAAGATAATTTAAATGAAATGAGAAAAAAAAT
* *
5677690 AAATTAAAAT-GAAAAAA-ATAATTTAAATGATATGAGAAAAAAACTT
1 AAATTAAAATAGAAAAAAGATAATTTAAATGAAATGAGAAAAAAA-AT
* *
5677736 AAATTAAAATGAAAAAAAAAGATAATTTAAATGAAATGAG-AACAAAAT
1 AAATTAAAAT--AGAAAAAAGATAATTTAAATGAAATGAGAAAAAAAAT
* * * * * * *
5677784 AAATTTAAATGGAAAAAA-TTAATTTCAGTGGAATGAGAAAAAAATT
1 AAATTAAAATAGAAAAAAGATAATTTAAATGAAATGAGAAAAAAAAT
5677830 AAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGA
1 AAATTAAAAT-AGAAAAAAGATAATTTAAATGAAATGA
5677868 AATGGAAATA
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 40 0.27
46 35 0.23
47 11 0.07
48 34 0.23
49 11 0.07
50 18 0.12
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (47 bp):
AAATTAAAATAGAAAAAAGATAATTTAAATGAAATGAGAAAAAAAAT
Found at i:5677729 original size:94 final size:94
Alignment explanation
Indices: 5677631--5677867 Score: 338
Period size: 95 Copynumber: 2.5 Consensus size: 94
5677621 AAATTATTAT
**
5677631 GAAAAAAACGAAAATTAAAAT-AGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATAAATT
1 GAAAAAAACTTAAATTAAAATGAGAAA-AAAGATAATTTAAATGAAATGAG-AAAAAAATAAATT
5677695 AAAAT-GAAAAAAATAATTTAAAT-GATATGA
64 AAAATGGAAAAAAATAATTTAAATGGA-ATGA
* * *
5677725 GAAAAAAACTTAAATTAAAATGAAAAAAAAAGATAATTTAAATGAAATGAGAACAAAATAAATTT
1 GAAAAAAACTTAAATTAAAATG-AGAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTA
* * *
5677790 AAATGGAAAAAATTAATTTCAGTGGAATGA
65 AAATGGAAAAAAATAATTTAAATGGAATGA
5677820 GAAAAAAA-TTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAACTTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGA
5677868 AATGGAAATA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
93 26 0.20
94 48 0.37
95 50 0.38
96 6 0.05
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (94 bp):
GAAAAAAACTTAAATTAAAATGAGAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAA
AATGGAAAAAAATAATTTAAATGGAATGA
Found at i:5677807 original size:19 final size:21
Alignment explanation
Indices: 5677769--5677862 Score: 68
Period size: 21 Copynumber: 4.3 Consensus size: 21
5677759 AATTTAAATG
5677769 AAATGAGAACAAAATAAATTT
1 AAATGAGAACAAAATAAATTT
*
5677790 AAATG-GAA-AAAATTAATTT
1 AAATGAGAACAAAATAAATTT
* *
5677809 CAGTGGAATGAGAAAAAAATTAAATTA
1 -A----AATGAGAACAAAA-TAAATTT
*
5677836 AAATGAGAA-AAAAGATAATTT
1 AAATGAGAACAAAATA-AATTT
5677857 AAATGA
1 AAATGA
5677863 AATGAAATGG
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
19 10 0.17
20 5 0.08
21 19 0.32
22 8 0.14
24 4 0.07
25 3 0.05
26 5 0.08
27 5 0.08
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGAGAACAAAATAAATTT
Found at i:5677867 original size:5 final size:5
Alignment explanation
Indices: 5677857--5677913 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
5677847 AAGATAATTT
* *
5677857 AAATG AAATG AAATGG AAATAC AAATG AAATA AAATAG AAATAG AAATG
1 AAATG AAATG AAAT-G AAAT-G AAATG AAATG AAAT-G AAAT-G AAATG
5677906 AAATG AAA
1 AAATG AAA
5677914 AAAAAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 26 0.58
6 19 0.42
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:5677882 original size:22 final size:22
Alignment explanation
Indices: 5677857--5677913 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
5677847 AAGATAATTT
*
5677857 AAATGAAATGAAATGGAAATAC
1 AAATGAAATGAAATAGAAATAC
* *
5677879 AAATGAAATAAAATAGAAATAG
1 AAATGAAATGAAATAGAAATAC
5677901 AAATGAAATGAAA
1 AAATGAAATGAAA
5677914 AAAAAAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.18
Consensus pattern (22 bp):
AAATGAAATGAAATAGAAATAC
Found at i:5677886 original size:11 final size:11
Alignment explanation
Indices: 5677857--5677913 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
5677847 AAGATAATTT
5677857 AAATGAAAT-G
1 AAATGAAATAG
*
5677867 AAATGGAAATAC
1 AAAT-GAAATAG
5677879 AAATGAAATA-
1 AAATGAAATAG
5677889 AAATAGAAATAG
1 AAAT-GAAATAG
5677901 AAATGAAAT-G
1 AAATGAAATAG
5677911 AAA
1 AAA
5677914 AAAAAAATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 12 0.29
11 22 0.52
12 8 0.19
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.18
Consensus pattern (11 bp):
AAATGAAATAG
Found at i:5677925 original size:22 final size:22
Alignment explanation
Indices: 5677873--5677925 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
5677863 AATGAAATGG
* * *
5677873 AAATACAAATGAAATAAAATAG
1 AAATAGAAATGAAATAAAAAAA
5677895 AAATAGAAATGAAATGAAAAAAA
1 AAATAGAAATGAAAT-AAAAAAA
5677918 AAAT-GAAA
1 AAATAGAAA
5677926 GGACATGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AAATAGAAATGAAATAAAAAAA
Found at i:5679431 original size:49 final size:48
Alignment explanation
Indices: 5679334--5679441 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 48
5679324 TTGGGTACAG
* *
5679334 ACCATGTAATGGTCGGCACCAGAGATGTAAAAAAAAATTTTGAGTGCTA
1 ACCATGTAATGGCCGGCACCAAAGATGTAAAAAAAAATTTT-AGTGCTA
* * * *
5679383 ATCATGTAATTGCCGGTACCAAAGATGTAAAAAAAATAATTTT-TTGCTA
1 ACCATGTAATGGCCGGCACCAAAGATGT-AAAAAAA-AATTTTAGTGCTA
*
5679432 GCCATGTAAT
1 ACCATGTAAT
5679442 AATAGGCACT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
49 36 0.73
50 7 0.14
51 6 0.12
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (48 bp):
ACCATGTAATGGCCGGCACCAAAGATGTAAAAAAAAATTTTAGTGCTA
Found at i:5679826 original size:24 final size:24
Alignment explanation
Indices: 5679805--5679860 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
5679795 TTCAATTTTT
*
5679805 ATTTTTATTTTCATTTTCATTTAA
1 ATTTATATTTTCATTTTCATTTAA
*
5679829 ATTTATAATTTC-TTTTCATTTAA
1 ATTTATATTTTCATTTTCATTTAA
5679852 ACTTT-TATT
1 A-TTTATATT
5679861 CTATTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTATATTTTCATTTTCATTTAA
Found at i:5680829 original size:28 final size:25
Alignment explanation
Indices: 5680798--5680853 Score: 82
Period size: 22 Copynumber: 2.4 Consensus size: 25
5680788 AATAATAGGT
5680798 ATAATAATAAATATAATGATATACG
1 ATAATAATAAATATAATGATATACG
5680823 --AA-AATAAATATAATGATATACG
1 ATAATAATAAATATAATGATATACG
*
5680845 AAAATAATA
1 ATAATAATA
5680854 CTATATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 20 0.71
23 2 0.07
24 2 0.07
25 4 0.14
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (25 bp):
ATAATAATAAATATAATGATATACG
Found at i:5680830 original size:22 final size:22
Alignment explanation
Indices: 5680803--5680851 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
5680793 TAGGTATAAT
5680803 AATAAATATAATGATATACGAA
1 AATAAATATAATGATATACGAA
5680825 AATAAATATAATGATATACGAA
1 AATAAATATAATGATATACGAA
5680847 AATAA
1 AATAA
5680852 TACTATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAAATATAATGATATACGAA
Found at i:5681355 original size:26 final size:24
Alignment explanation
Indices: 5681301--5681452 Score: 107
Period size: 25 Copynumber: 6.1 Consensus size: 24
5681291 TATATACATG
*
5681301 ATATACATAATATGGTACTAAGAAT
1 ATATACATAATATGGTA-TAAAAAT
* *
5681326 ATATATATAATATAGTATTTAAAAAT
1 ATATACATAATATGGTA--TAAAAAT
5681352 ATATACATAATATGGTATAAAAAT
1 ATATACATAATATGGTATAAAAAT
*
5681376 ATGTACATGGAA-AT-GTATAAGAAAT
1 ATATACAT--AATATGGTATAA-AAAT
**
5681401 ATAT--ATAACTAGTAATATTAAAAAT
1 ATATACATAA-TA-TGGTA-TAAAAAT
* *
5681426 ATATACATAACAT-ATATAAAACAT
1 ATATACATAATATGGTATAAAA-AT
5681450 ATA
1 ATA
5681453 CAATATATAC
Statistics
Matches: 105, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.02
23 8 0.08
24 29 0.28
25 35 0.33
26 27 0.26
27 4 0.04
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (24 bp):
ATATACATAATATGGTATAAAAAT
Found at i:5681595 original size:17 final size:17
Alignment explanation
Indices: 5681573--5681612 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5681563 ATAACATTAA
5681573 AAATATATGAT-ATATAT
1 AAATATAT-ATAATATAT
5681590 AAATATATATAATATAT
1 AAATATATATAATATAT
*
5681607 ACATAT
1 AAATAT
5681613 CTTAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATATATATAATATAT
Found at i:5681597 original size:19 final size:19
Alignment explanation
Indices: 5681570--5681607 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5681560 TAAATAACAT
*
5681570 TAAAAATATATGATATATA
1 TAAAAATATATAATATATA
*
5681589 TAAATATATATAATATATA
1 TAAAAATATATAATATATA
5681608 CATATCTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAAAATATATAATATATA
Found at i:5681738 original size:21 final size:20
Alignment explanation
Indices: 5681714--5681780 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
5681704 TACTAGTACT
* *
5681714 AATAATATTAATAATAGATAC
1 AATAATAATAATAATAG-TAA
5681735 AATAATAATAATAATAGTAA
1 AATAATAATAATAATAGTAA
*
5681755 AATAATTAATTGA-AATAGTAA
1 AATAA-TAA-TAATAATAGTAA
5681776 AATAA
1 AATAA
5681781 CTAAAAAAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 7 0.17
21 32 0.78
22 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATAATAATAATAGTAA
Found at i:5684447 original size:111 final size:109
Alignment explanation
Indices: 5684241--5684446 Score: 281
Period size: 108 Copynumber: 1.9 Consensus size: 109
5684231 TTGTGTTAGC
* *
5684241 CAGTAGATGGCCGGCACCAAGTACAATTTTCAGTTCCCAAGGCATTTTTTTTTTTACTTTGGGAC
1 CAGTAGATGGCCGGCACCAAGTACAATTTTCACTTCCCAAGGCA--TTTTTTTTTACTTTGGAAC
* * *
5684306 ACTGATGGCCGGCATCAGTGTATTTAAAAAAAATTTGGGTGCTGGT
64 ACTGATGGCAGGCACCAATGTATTTAAAAAAAATTTGGGTGCTGGT
* * * * *
5684352 CAGTAGATGGCCTGCACCAAGTACAATTTTCGACTT-TCAATGCA-TTTTTTTTATTTTGGAATA
1 CAGTAGATGGCCGGCACCAAGTACAATTTTC-ACTTCCCAAGGCATTTTTTTTTACTTTGGAACA
5684415 CTGATGGCAGGCACCAATGTATTTAAAAAAAA
65 CTGATGGCAGGCACCAATGTATTTAAAAAAAA
5684447 ATAAGTGCTG
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
108 45 0.54
111 36 0.43
112 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (109 bp):
CAGTAGATGGCCGGCACCAAGTACAATTTTCACTTCCCAAGGCATTTTTTTTTACTTTGGAACAC
TGATGGCAGGCACCAATGTATTTAAAAAAAATTTGGGTGCTGGT
Found at i:5684592 original size:44 final size:44
Alignment explanation
Indices: 5684530--5684675 Score: 229
Period size: 44 Copynumber: 3.3 Consensus size: 44
5684520 TTCTTATTCC
* ** * *
5684530 TAATTCAAAACATGTTAAATTATAATACAATACACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
5684574 TAATTTAAAGCACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
5684618 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
5684662 TAATTTAAAACACA
1 TAATTTAAAACACA
5684676 ATAATGAAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:5684807 original size:45 final size:45
Alignment explanation
Indices: 5684713--5684992 Score: 291
Period size: 46 Copynumber: 6.0 Consensus size: 45
5684703 AAATTATTAT
* *
5684713 GAAAAAAATGAAAATTAAAATGGAAAGAAAGATAATTAAAATGAAATGA
1 GAAAAAAAT-TAAATTAAAAT-GAAA-AAA-ATAATTTAAATGAAATGA
*
5684762 GAAAAAAATTAAATTAAAAT-AAAATAAATAATTTAAATGATATGA
1 GAAAAAAATTAAATTAAAATGAAAA-AAATAATTTAAATGAAATGA
**
5684807 GAAAAAAACTTAAATTAAAAT-AAAATAAATAATTTAAATGGTATGA
1 GAAAAAAA-TTAAATTAAAATGAAAA-AAATAATTTAAATGAAATGA
* * * * *
5684853 GGAAAAAA-TAAATTTAAATGGAAAAAATTAATTTAAGTGGAAT-A
1 GAAAAAAATTAAATTAAAAT-GAAAAAAATAATTTAAATGAAATGA
*
5684897 GGAAAAAATTAAATTAAAATTGGAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAATTAAATTAAAA-T-GAAAAAA-ATAATTTAAATGAAATGA
5684945 GAAAAAAA-TAAATTAAAATGAAAAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAATTAAATTAAAATG---AAAAAA-ATAATTTAAATGAAATGA
5684993 AATAGAAATA
Statistics
Matches: 206, Mismatches: 14, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
44 19 0.09
45 50 0.24
46 62 0.30
47 23 0.11
48 43 0.21
49 9 0.04
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (45 bp):
GAAAAAAATTAAATTAAAATGAAAAAAATAATTTAAATGAAATGA
Found at i:5684877 original size:19 final size:19
Alignment explanation
Indices: 5684853--5684894 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
5684843 AATGGTATGA
5684853 GGAAAAAATAAATTTAAAT
1 GGAAAAAATAAATTTAAAT
* *
5684872 GGAAAAAATTAATTTAAGT
1 GGAAAAAATAAATTTAAAT
5684891 GGAA
1 GGAA
5684895 TAGGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (19 bp):
GGAAAAAATAAATTTAAAT
Found at i:5684932 original size:26 final size:25
Alignment explanation
Indices: 5684902--5684961 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
5684892 GAATAGGAAA
5684902 AAATTAAATTAAAATTG-GAAAAAAGAT
1 AAATTAAA-TAAAA-TGAGAAAAAA-AT
* *
5684929 AATTTAAATGAAATGAGAAAAAAAT
1 AAATTAAATAAAATGAGAAAAAAAT
5684954 AAATTAAA
1 AAATTAAA
5684962 ATGAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.38
26 11 0.38
27 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (25 bp):
AAATTAAATAAAATGAGAAAAAAAT
Found at i:5684963 original size:26 final size:25
Alignment explanation
Indices: 5684730--5684992 Score: 99
Period size: 22 Copynumber: 11.2 Consensus size: 25
5684720 ATGAAAATTA
5684730 AAATG-GAAAGAAAGATAATTAAAATG
1 AAATGAGAAA-AAA-ATAATTAAAATG
* *
5684756 AAATGAG--AAAAA-AATTAAATTA
1 AAATGAGAAAAAAATAATTAAAATG
* *
5684778 AAAT-A-AAATAAATAATTTAAATG
1 AAATGAGAAAAAAATAATTAAAATG
* * * *
5684801 ATATGAG-AAAAAA-ACTTAAATTA
1 AAATGAGAAAAAAATAATTAAAATG
* *
5684824 AAAT-A-AAATAAATAATTTAAATG
1 AAATGAGAAAAAAATAATTAAAATG
** *
5684847 GTATGAGGAAAAAATAAATT----T-
1 AAATGAGAAAAAAAT-AATTAAAATG
* * *
5684868 AAATG-GAAAAAATTAATTTAAGTG
1 AAATGAGAAAAAAATAATTAAAATG
* *
5684892 GAAT-AGGAAAAAATTAAATTAAAAT-
1 AAATGA-GAAAAAAAT-AATTAAAATG
*
5684917 ---TG-GAAAAAAGATAATTTAAATG
1 AAATGAGAAAAAA-ATAATTAAAATG
5684939 AAATGAGAAAAAAATAAATTAAAATG
1 AAATGAGAAAAAAAT-AATTAAAATG
* *
5684965 AAA--A-AAAAAGATAATTTAAATG
1 AAATGAGAAAAAAATAATTAAAATG
5684987 AAATGA
1 AAATGA
5684993 AATAGAAATA
Statistics
Matches: 174, Mismatches: 34, Indels: 60
0.65 0.13 0.22
Matches are distributed among these distances:
19 4 0.02
20 7 0.04
21 19 0.11
22 37 0.21
23 36 0.21
24 15 0.09
25 20 0.11
26 35 0.20
27 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (25 bp):
AAATGAGAAAAAAATAATTAAAATG
Found at i:5685002 original size:6 final size:6
Alignment explanation
Indices: 5684982--5685029 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
5684972 AAGATAATTT
* *
5684982 AAAT-G AAAT-G AAATAG AAATAC AAATA- AAATA- AAATAA AAATAG
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG
5685026 AAAT
1 AAAT
5685030 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
5 19 0.49
6 20 0.51
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (6 bp):
AAATAG
Found at i:5685007 original size:22 final size:22
Alignment explanation
Indices: 5684982--5685044 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
5684972 AAGATAATTT
* * *
5684982 AAATGAAATGAAATAGAAATAC
1 AAATAAAATAAAATAAAAATAC
*
5685004 AAATAAAATAAAATAAAAATAG
1 AAATAAAATAAAATAAAAATAC
*
5685026 AAATTAAAA-AAAATGAAAA
1 AAA-TAAAATAAAATAAAAA
5685045 GACATGTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (22 bp):
AAATAAAATAAAATAAAAATAC
Found at i:5685012 original size:5 final size:5
Alignment explanation
Indices: 5684949--5685044 Score: 50
Period size: 5 Copynumber: 17.8 Consensus size: 5
5684939 AAATGAGAAA
* * * * * * *
5684949 AAAAT AAATT AAAAT GAAAAA AAAAG ATAATT TAAAT GAAAT GAAAT AGAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT A-AAAT
5685002 ACAAAT AAAAT AAAAT AAAAAT AGAAATT AAAA- AAAAT GAAAA
1 A-AAAT AAAAT AAAAT -AAAAT A-AAA-T AAAAT AAAAT -AAAA
5685045 GACATGTCAA
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
4 4 0.06
5 35 0.49
6 31 0.43
7 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:5685310 original size:18 final size:18
Alignment explanation
Indices: 5685283--5685328 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
5685273 CTAACTAATA
*
5685283 TGAAAAAAAATGAATTGAAT
1 TGAAAAAAAA--AATCGAAT
5685303 TGAAAAAAAAAATCGAAT
1 TGAAAAAAAAAATCGAAT
5685321 TGAAAAAA
1 TGAAAAAA
5685329 GATTAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (18 bp):
TGAAAAAAAAAATCGAAT
Found at i:5686542 original size:49 final size:48
Alignment explanation
Indices: 5686439--5686546 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
5686429 TTGGGTACAG
* *
5686439 GCCATGTAATGGTCGACACCAGAGATGTAAAAAAAAATTTAGGTGCTA
1 GCCATGTAATAGTCGACACCAGAGATATAAAAAAAAATTTAGGTGCTA
* * * **
5686487 GTCATGTAATAGTTGATACCAGAGATATAAAAAAAATAATTT-TTTGCTA
1 GCCATGTAATAGTCGACACCAGAGATAT-AAAAAAA-AATTTAGGTGCTA
5686536 GCCATGTAATA
1 GCCATGTAATA
5686547 ACCGGCACTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 23 0.46
49 22 0.44
50 5 0.10
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCATGTAATAGTCGACACCAGAGATATAAAAAAAAATTTAGGTGCTA
Found at i:5686825 original size:6 final size:6
Alignment explanation
Indices: 5686805--5686854 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
5686795 TTAACTTTTT
* *
5686805 TTTTCA TTTCCA TTTTAA TTTTCA TTTTCA TTTTCA -TTTCA -TTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
5686851 TTTT
1 TTTT
5686855 AACTTCATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTTCA
Found at i:5686876 original size:21 final size:21
Alignment explanation
Indices: 5686837--5686876 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5686827 CATTTTCATT
** *
5686837 TTCATTTCATTTCATTTTAAC
1 TTCATTTCATTGAAATTTAAC
5686858 TTCATTTCATTGAAATTTA
1 TTCATTTCATTGAAATTTA
5686877 TTTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.55
Consensus pattern (21 bp):
TTCATTTCATTGAAATTTAAC
Found at i:5686976 original size:93 final size:93
Alignment explanation
Indices: 5686801--5686977 Score: 216
Period size: 93 Copynumber: 1.9 Consensus size: 93
5686791 CATTTTAACT
* ** * *
5686801 TTTTTTTTCATTTCCATTTTAATTTTCATTTTCATTTTCATTTCATTTCATTTTAACTTCATTTC
1 TTTTTTTTCATTTCAATTTTAATTTTCATTTTCATTTTCATTTCATAACAGTATAACTTCATTTC
5686866 ATTGAAATTTATTTATTTATTGTTTCAA
66 ATTGAAATTTATTTATTTATTGTTTCAA
* * * *
5686894 TTTTTTTTCATTTCAATTTTTATTTTTATTTTCATTTTCATTT-A-AAC-GTATAATTTCTTTTC
1 TTTTTTTTCATTTCAATTTTAATTTTCATTTTCATTTTCATTTCATAACAGTATAACTTCATTTC
*
5686956 ATTTAAACTTTTATTCTATTTA
66 ATTGAAA--TTTATT-TATTTA
5686978 ATAATCATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
90 17 0.24
91 1 0.01
92 7 0.10
93 46 0.65
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (93 bp):
TTTTTTTTCATTTCAATTTTAATTTTCATTTTCATTTTCATTTCATAACAGTATAACTTCATTTC
ATTGAAATTTATTTATTTATTGTTTCAA
Found at i:5687040 original size:23 final size:23
Alignment explanation
Indices: 5686973--5687043 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
5686963 CTTTTATTCT
* *
5686973 ATTTAATAATCATCATTTCATTTC
1 ATTTAATATTCAT-ATTTCATTTA
* * * *
5686997 ATATTCAT-TACAAATTACATTTA
1 AT-TTAATATTCATATTTCATTTA
5687020 ATTTAATATTCATATTTCATTTA
1 ATTTAATATTCATATTTCATTTA
5687043 A
1 A
5687044 CATTTCATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
22 4 0.11
23 23 0.66
24 4 0.11
25 4 0.11
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAATATTCATATTTCATTTA
Found at i:5687201 original size:27 final size:27
Alignment explanation
Indices: 5687156--5687211 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
5687146 TCCATTTTAT
* *
5687156 TTTAATTTTTTCCTTATTTCATTTAAA
1 TTTAATTTTTTCATCATTTCATTTAAA
*
5687183 TTTAATTTTTTTATCATTTCATTTAAA
1 TTTAATTTTTTCATCATTTCATTTAAA
5687210 TT
1 TT
5687212 ATCTATCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTAATTTTTTCATCATTTCATTTAAA
Found at i:5687226 original size:75 final size:71
Alignment explanation
Indices: 5687125--5687264 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 71
5687115 ACAACTAGTA
* * * *
5687125 TCATTTCAAGTTATACTTCTTTCCATTTTATTTTAATTTTTTCCTTATTTCATTTAAATTTAATT
1 TCATTTCAAATTATACTTCTTCCCATTTTAATTT-ATTTTTT--TCATTTCATTTAAA-TT-ATT
5687190 TTTTTATCATT
61 TTTTTATCATT
5687201 TCATTT-AAATTAT-CTATCTTCCCATTTTAATTTATTTTTTTCATTTCATTTAAATTATTTTTT
1 TCATTTCAAATTATACT-TCTTCCCATTTTAATTTATTTTTTTCATTTCATTTAAATTATTTTTT
5687264 T
65 T
5687265 CCATGTAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
70 8 0.14
71 2 0.03
72 13 0.22
74 9 0.15
75 21 0.36
76 6 0.10
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.62
Consensus pattern (71 bp):
TCATTTCAAATTATACTTCTTCCCATTTTAATTTATTTTTTTCATTTCATTTAAATTATTTTTTT
ATCATT
Found at i:5687230 original size:49 final size:46
Alignment explanation
Indices: 5687179--5687329 Score: 191
Period size: 48 Copynumber: 3.2 Consensus size: 46
5687169 TTATTTCATT
* * *
5687179 TAAATTTAATTTTTTTATCATTTCATTTAAATTATCTATCTTCCCATT
1 TAAATTTAATTTTTTT-TCATTTCATTTAAATTATCT-TTTTTCCATG
*
5687227 TTAATTT-A-TTTTTTTCATTTCATTTAAATTAT-TTTTTTCCATG
1 TAAATTTAATTTTTTTTCATTTCATTTAAATTATCTTTTTTCCATG
*
5687270 TAAATTTAATTTTTTTTTCTTATTTCATTTAAATTGTCTTTTTTCCATG
1 TAAATTTAA-TTTTTTTTC--ATTTCATTTAAATTATCTTTTTTCCATG
5687319 TAAATTTAATT
1 TAAATTTAATT
5687330 ATTTATTCCA
Statistics
Matches: 91, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
43 13 0.14
44 2 0.02
45 18 0.20
46 14 0.15
47 1 0.01
48 23 0.25
49 20 0.22
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (46 bp):
TAAATTTAATTTTTTTTCATTTCATTTAAATTATCTTTTTTCCATG
Found at i:5687253 original size:23 final size:23
Alignment explanation
Indices: 5687226--5687301 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
5687216 ATCTTCCCAT
5687226 TTTAATTTATTTTTTTCATTTCA
1 TTTAATTTATTTTTTTCATTTCA
* **
5687249 TTTAAATTATTTTTTTCCATGTAAA
1 TTTAATTTATTTTTTT-CAT-TTCA
*
5687274 TTTAATTT-TTTTTTCTTATTTCA
1 TTTAATTTATTTTTT-TCATTTCA
5687297 TTTAA
1 TTTAA
5687302 ATTGTCTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 22 0.51
24 11 0.26
25 10 0.23
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.66
Consensus pattern (23 bp):
TTTAATTTATTTTTTTCATTTCA
Found at i:5687299 original size:72 final size:73
Alignment explanation
Indices: 5687223--5687357 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 73
5687213 TCTATCTTCC
* * ** *
5687223 CATTTTAATT-TATTTTTTTCAT-TTCATTTAAATTATTTTTTTCCATGTAAATTTA-ATTTTTT
1 CATTTAAATTGTATTTTTTCCATGTAAATTT-AATTA-TTTATTCCATGTAAATTTACATTTTTT
5687285 TTTCTTATTT
64 TTTCTTATTT
*
5687295 CATTTAAATTGTCTTTTTTCCATGTAAATTTAATTATTTATTCCATGTAAATTTACATTTTTT
1 CATTTAAATTGTATTTTTTCCATGTAAATTTAATTATTTATTCCATGTAAATTTACATTTTTT
5687358 CATATTAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
72 27 0.50
73 22 0.41
74 5 0.09
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (73 bp):
CATTTAAATTGTATTTTTTCCATGTAAATTTAATTATTTATTCCATGTAAATTTACATTTTTTTT
TCTTATTT
Found at i:5687314 original size:19 final size:20
Alignment explanation
Indices: 5687287--5687324 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5687277 AATTTTTTTT
*
5687287 TCTTATTT-CATTTAAATTG
1 TCTTATTTCCATGTAAATTG
*
5687306 TCTTTTTTCCATGTAAATT
1 TCTTATTTCCATGTAAATT
5687325 TAATTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (20 bp):
TCTTATTTCCATGTAAATTG
Found at i:5687349 original size:49 final size:48
Alignment explanation
Indices: 5687226--5687357 Score: 126
Period size: 49 Copynumber: 2.8 Consensus size: 48
5687216 ATCTTCCCAT
* **
5687226 TTTAATTTATTT-TTTTCATTTCATTTAAATTATTTTTTTCCATGTAAA
1 TTTAA-TTATTTATTCTCATTAAATTTAAATTATTTTTTTCCATGTAAA
* * * ** *
5687274 TTTAATTTTTTTTTCTTATTTCATTTAAATTGTCTTTTTTCCATGTAAA
1 TTTAATTATTTATTCTCATTAAATTTAAATTAT-TTTTTTCCATGTAAA
*
5687323 TTTAATTATTTATTC-CATGTAAATTTACATT-TTTT
1 TTTAATTATTTATTCTCAT-TAAATTTAAATTATTTT
5687358 CATATTAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
47 8 0.11
48 26 0.37
49 37 0.52
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (48 bp):
TTTAATTATTTATTCTCATTAAATTTAAATTATTTTTTTCCATGTAAA
Found at i:5689364 original size:24 final size:24
Alignment explanation
Indices: 5689310--5689372 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
5689300 TAATTTAAAT
* **
5689310 TATTATTCATTTTAAAATTTTATA
1 TATTATTTATTTTAAAATACTATA
5689334 TACATTATTTATTTTAAAATACTATA
1 T--ATTATTTATTTTAAAATACTATA
5689360 TATTATTTATTTT
1 TATTATTTATTTT
5689373 GAAGTCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.38
26 21 0.62
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATTTATTTTAAAATACTATA
Found at i:5689571 original size:14 final size:14
Alignment explanation
Indices: 5689545--5689577 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5689535 TACATTGAAC
5689545 TATTTTGTATATAT
1 TATTTTGTATATAT
5689559 ATATTTT-TATATAT
1 -TATTTTGTATATAT
5689573 TATTT
1 TATTT
5689578 ATTTCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 7 0.39
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTGTATATAT
Found at i:5698693 original size:49 final size:49
Alignment explanation
Indices: 5698637--5698760 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
5698627 TTGGGTACAG
* *
5698637 GCCATGTAATGGTCGGCACCAGAGATGT-AAAAAAA-AATTTTAGGTGCTG
1 GCCATGTAATAGTCGGCACCAGAGATGTAAAAAAAATAATTTT--GTGCTA
* * * *
5698686 GTCATGTAATAGCCGGTACCAGAGATGTAAAAAAAATAATTTTTTGCTA
1 GCCATGTAATAGTCGGCACCAGAGATGTAAAAAAAATAATTTTGTGCTA
*
5698735 GCCATGTAATAGTCGGCACTAGAGAT
1 GCCATGTAATAGTCGGCACCAGAGAT
5698761 ATAAGTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 50 0.79
50 7 0.11
51 6 0.10
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCATGTAATAGTCGGCACCAGAGATGTAAAAAAAATAATTTTGTGCTA
Found at i:5699042 original size:24 final size:23
Alignment explanation
Indices: 5699000--5699058 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
5698990 ACAAGCCCTA
* *
5699000 TCATTTTAACTTTTTTTTTTATT
1 TCATTTTAACTTTTATTTTCATT
5699023 TCCATTTTAA-TTTTAATTTTCATT
1 T-CATTTTAACTTTT-ATTTTCATT
5699047 TCATTTTAACTT
1 TCATTTTAACTT
5699059 CGTTTCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (23 bp):
TCATTTTAACTTTTATTTTCATT
Found at i:5699126 original size:24 final size:24
Alignment explanation
Indices: 5699093--5699169 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
5699083 ATCATTTCAA
* **
5699093 TTTATGTTCATTTCAATTTTTATT
1 TTTATTTTCATTTCAATTTAAATT
5699117 TTTATTTTCATTTTC-ATTTAAATT
1 TTTATTTTCA-TTTCAATTTAAATT
* * *
5699141 TTTAATTTCTTTTC-ATTTAAACT
1 TTTATTTTCATTTCAATTTAAATT
5699164 TTTATT
1 TTTATT
5699170 CTATTTAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 17 0.38
24 24 0.53
25 4 0.09
ACGTcount: A:0.23, C:0.09, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTATTTTCATTTCAATTTAAATT
Found at i:5699135 original size:30 final size:29
Alignment explanation
Indices: 5699099--5699158 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
5699089 TCAATTTATG
* *
5699099 TTCATTTCAATTTTTATTTTTATTTTCATT
1 TTCATTTAAATTTTTA-ATTTATTTTCATT
*
5699129 TTCATTTAAATTTTTAATTTCTTTTCATT
1 TTCATTTAAATTTTTAATTTATTTTCATT
5699158 T
1 T
5699159 AAACTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (29 bp):
TTCATTTAAATTTTTAATTTATTTTCATT
Found at i:5699153 original size:23 final size:24
Alignment explanation
Indices: 5699114--5699167 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
5699104 TTCAATTTTT
*
5699114 ATTTTTATTTTCATTTTCATTTAA
1 ATTTTTAATTTCATTTTCATTTAA
5699138 ATTTTTAATTTC-TTTTCATTTAA
1 ATTTTTAATTTCATTTTCATTTAA
*
5699161 ACTTTTA
1 ATTTTTA
5699168 TTCTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTTAATTTCATTTTCATTTAA
Found at i:5700672 original size:7 final size:7
Alignment explanation
Indices: 5700651--5700692 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
5700641 ATTAAATAAC
5700651 AATAATA
1 AATAATA
5700658 AGATAATA
1 A-ATAATA
5700666 AATAAT-
1 AATAATA
5700672 AATAATA
1 AATAATA
5700679 AAGT-ATA
1 AA-TAATA
5700686 AATAATA
1 AATAATA
5700693 GTGATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:5700692 original size:3 final size:3
Alignment explanation
Indices: 5700538--5700679 Score: 87
Period size: 3 Copynumber: 47.0 Consensus size: 3
5700528 AATAAGGAGG
*
5700538 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * * * *
5700587 -AA CAA -AA GTAT TAA GTTA CAA TTAG TAA -AA TAA TAA TAG TGA TAA
1 TAA TAA TAA -TAA TAA -TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
5700632 TCA TAA T-A TAT TAAA TAA CAA TAA TAA -GA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
5700677 TAA
1 TAA
5700680 AGTATAAATA
Statistics
Matches: 106, Mismatches: 22, Indels: 22
0.71 0.15 0.15
Matches are distributed among these distances:
2 9 0.08
3 86 0.81
4 11 0.10
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5700899 original size:3 final size:3
Alignment explanation
Indices: 5700893--5701121 Score: 71
Period size: 3 Copynumber: 76.0 Consensus size: 3
5700883 AATATTTTAA
* * * *
5700893 AAT AAT AAT AAT AAT AGT AAC AAT AATT AA- AA- AAT GAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * * * *
5700937 AAT AAA AAT AAA AAT AAT AGT AAT GAT AAT ACATT AAG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT
** * * * *
5700984 -AT GTT AAT AAT AA- ATT AAT GAATT AAT AAC AA- AAC AGT AAGT AAAT
1 AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT AAT AAT AA-T -AAT
* * * * * * * *
5701030 CAAC ACA- AAA AAT AA- AAT -AT AGT CAT AAT AGT AGT ATT AAC AA-
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
5701073 AAT AAT AAT GAT AAT AAT AAC AAT AAT AAT AAT AAG AGAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
5701119 AAT
1 AAT
5701122 TAATTTAATT
Statistics
Matches: 165, Mismatches: 44, Indels: 34
0.68 0.18 0.14
Matches are distributed among these distances:
2 16 0.10
3 128 0.78
4 16 0.10
5 5 0.03
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:5702173 original size:16 final size:16
Alignment explanation
Indices: 5702152--5702185 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5702142 AAGGCTAGGG
5702152 TTTTTTTAGTTTTGTT
1 TTTTTTTAGTTTTGTT
*
5702168 TTTTTTTTGTTTTGTT
1 TTTTTTTAGTTTTGTT
5702184 TT
1 TT
5702186 GTGTTTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (16 bp):
TTTTTTTAGTTTTGTT
Found at i:5702554 original size:21 final size:21
Alignment explanation
Indices: 5702530--5702606 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 21
5702520 ATTTAAATAT
5702530 AATTTTTTATCATTTCATTTA
1 AATTTTTTATCATTTCATTTA
* *
5702551 AATTATCTATC-TTCTCATTTTAA
1 AATTTTTTATCATT-TCA-TTT-A
*
5702574 TTTAATTTTTTTTCATTTCATTTA
1 ---AATTTTTTATCATTTCATTTA
5702598 AATTATTTT
1 AATT-TTTT
5702607 TTTCCATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
20 2 0.05
21 16 0.37
22 7 0.16
23 1 0.02
24 1 0.02
25 3 0.07
26 11 0.26
27 2 0.05
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTTTATCATTTCATTTA
Found at i:5702568 original size:26 final size:22
Alignment explanation
Indices: 5702515--5702656 Score: 94
Period size: 26 Copynumber: 6.0 Consensus size: 22
5702505 TTTTTTCCTT
5702515 ATTTCATTTAAATATAATTTTTTATC
1 ATTTCATTTAAAT-T-A-TTTTT-TC
5702541 ATTTCATTTAAATTATCTATCTTCTC
1 ATTTCATTTAAATTAT-T-T-TT-TC
*
5702567 ATTTTAATTT-AATT-TTTTTTC
1 A-TTTCATTTAAATTATTTTTTC
5702588 ATTTCATTTAAATTATTTTTTTCC
1 ATTTCATTTAAATTA-TTTTTT-C
**
5702612 ATGTAAATTT-AATT-TTTTTTC
1 AT-TTCATTTAAATTATTTTTTC
5702633 TTATTTCATTTAAATTATCTTTTT
1 --ATTTCATTTAAATTAT-TTTTT
5702657 TTCCATGTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
20 7 0.07
21 8 0.08
22 13 0.14
23 14 0.15
24 11 0.12
25 13 0.14
26 22 0.23
27 7 0.07
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.62
Consensus pattern (22 bp):
ATTTCATTTAAATTATTTTTTC
Found at i:5702569 original size:47 final size:47
Alignment explanation
Indices: 5702518--5702681 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
5702508 TTTCCTTATT
* *
5702518 TCATTTAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTC
1 TCATTTAAATTTAATTTTTTTTCATTTCATTTAAATTATCTATCTTC
* * *
5702565 TCATTTTAATTTAATTTTTTTTCATTTCATTTAAATTAT-TTTTTTC
1 TCATTTAAATTTAATTTTTTTTCATTTCATTTAAATTATCTATCTTC
* * *
5702611 -CATGTAAATTTAATTTTTTTTCTTATTTCATTTAAATTATCT-TTTTT
1 TCATTTAAATTTAATTTTTTTTC--ATTTCATTTAAATTATCTATCTTC
*
5702658 TCCATGTAAATTTAATTATTTTTT
1 T-CATTTAAATTTAATT-TTTTTT
5702682 TCCATGTAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
45 20 0.19
46 5 0.05
47 56 0.54
48 1 0.01
49 15 0.15
50 6 0.06
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.62
Consensus pattern (47 bp):
TCATTTAAATTTAATTTTTTTTCATTTCATTTAAATTATCTATCTTC
Found at i:5702625 original size:24 final size:24
Alignment explanation
Indices: 5702593--5702705 Score: 119
Period size: 22 Copynumber: 4.7 Consensus size: 24
5702583 TTTTCATTTC
5702593 ATTTAAATTATTTTTTTCCATGTAA
1 ATTT-AATTATTTTTTTCCATGTAA
* **
5702618 ATTTAA-T-TTTTTTTCTTAT-TTC
1 ATTTAATTATTTTTTTC-CATGTAA
5702640 ATTTAAATTATCTTTTTTTCCATGTAA
1 ATTT-AATTA--TTTTTTTCCATGTAA
5702667 ATTTAATTATTTTTTTCCATGTAA
1 ATTTAATTATTTTTTTCCATGTAA
5702691 ATTT-A-TATTTTTTTC
1 ATTTAATTATTTTTTTC
5702706 ATATTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
22 23 0.31
23 6 0.08
24 22 0.29
25 4 0.05
26 7 0.09
27 13 0.17
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTTAATTATTTTTTTCCATGTAA
Found at i:5702702 original size:94 final size:91
Alignment explanation
Indices: 5702523--5702703 Score: 213
Period size: 94 Copynumber: 1.9 Consensus size: 91
5702513 TTATTTCATT
* * *
5702523 TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTCTCATTTTAATTTAATTTTTTTTC
1 TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTCTCATGTAAATTTAATTATTTTT-
* *
5702588 ATTTCATTTAAATTATTTTTTTCCATG
65 ATTCCATGTAAATTATTTTTTTCCATG
* * * *
5702615 TAAATTTAATTTTTTTTCTTATTTCATTTAAATTATCT-TTTTTTCCATGTAAATTTAATTATTT
1 TAAATATAATTTTTTATC--ATTTCATTTAAATTATCTATCTTCT-CATGTAAATTTAATTATTT
5702679 TT-TTCCATGTAAATTTATATTTTTT
63 TTATTCCATGTAAA-TTAT-TTTTTT
5702704 TCATATTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
92 25 0.33
93 8 0.11
94 42 0.56
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (91 bp):
TAAATATAATTTTTTATCATTTCATTTAAATTATCTATCTTCTCATGTAAATTTAATTATTTTTA
TTCCATGTAAATTATTTTTTTCCATG
Found at i:5704441 original size:22 final size:22
Alignment explanation
Indices: 5704410--5704451 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5704400 AATTTAATTA
*
5704410 AAATCGGCCATTAAGAGGCCTG
1 AAATCAGCCATTAAGAGGCCTG
5704432 AAATCAGCCATTAAGAGGCC
1 AAATCAGCCATTAAGAGGCC
5704452 ATCCGAAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
AAATCAGCCATTAAGAGGCCTG
Found at i:5704622 original size:43 final size:44
Alignment explanation
Indices: 5704540--5704622 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
5704530 TAATTTAAAG
* ****
5704540 CCTATTCTATTACTTCAAATTACTTTAAATCTTTTTTTTTAATT
1 CCTATTCTATTACTTCAAATTACTTAAAATCCCACTTTTTAATT
*
5704584 CCTATTC-ATTACTTTAAATTACTTAAAATCCCACTTTTT
1 CCTATTCTATTACTTCAAATTACTTAAAATCCCACTTTTT
5704623 TTATTTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 26 0.79
44 7 0.21
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (44 bp):
CCTATTCTATTACTTCAAATTACTTAAAATCCCACTTTTTAATT
Found at i:5704735 original size:21 final size:18
Alignment explanation
Indices: 5704701--5704750 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 18
5704691 ATTTATCCTT
5704701 AAATTATATATTTTTTAATTAA
1 AAATTAT-T-TTTTTTAA--AA
5704723 AATATTATTTTTTTTAAAA
1 AA-ATTATTTTTTTTAAAA
5704742 AAATTATTT
1 AAATTATTT
5704751 CAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
21 8 0.30
22 3 0.11
23 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTATTTTTTTTAAAA
Found at i:5708629 original size:20 final size:20
Alignment explanation
Indices: 5708604--5708650 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
5708594 TAACTTATCC
5708604 TTCTTTTTCTTTGCT-TTCCT
1 TTCTTTTTCTTTGCTCTT-CT
* *
5708624 TTCTTTCTCTTTTCTCTTCT
1 TTCTTTTTCTTTGCTCTTCT
5708644 TTCTTTT
1 TTCTTTT
5708651 CCTCTCTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (20 bp):
TTCTTTTTCTTTGCTCTTCT
Found at i:5708683 original size:17 final size:18
Alignment explanation
Indices: 5708618--5708701 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 18
5708608 TTTTCTTTGC
*
5708618 TTTCCTT-TCT-TTCTCT
1 TTTCCTTCTCTCTTTTCT
*
5708634 TTTCTCTTCTTTCTTTTCCT
1 TTTC-CTTCTCTCTTTT-CT
*
5708654 CTCTTCGTCTCTCTCTTTTC-
1 -T-TTCCT-TCTCTCTTTTCT
5708674 TTTCCTTCTC-CTTTTCT
1 TTTCCTTCTCTCTTTTCT
5708691 TTTCCTTCTCT
1 TTTCCTTCTCT
5708702 TTCTTCCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
16 10 0.19
17 17 0.31
18 6 0.11
19 4 0.07
20 2 0.04
21 3 0.06
22 12 0.22
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTCCTTCTCTCTTTTCT
Found at i:5708729 original size:27 final size:27
Alignment explanation
Indices: 5708670--5708753 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
5708660 GTCTCTCTCT
* *
5708670 TTTCTTTCCTT-CTCCT-TTTCTTTTCC
1 TTTCTTT-CTTCCTCCTCTTCCTTTCCC
5708696 TTCTCTTTCTTCCTCCTCTTCCTTTCCC
1 TT-TCTTTCTTCCTCCTCTTCCTTTCCC
*
5708724 TTTCTTCTCTCTCCCTTCTCTTCCTCTTCC
1 TTTCTT-TCT-T-CCTCCTCTTCCT-TTCC
5708754 TCCTCCTCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 5 0.10
27 14 0.29
28 13 0.27
29 1 0.02
30 11 0.23
31 4 0.08
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTCTTTCTTCCTCCTCTTCCTTTCCC
Found at i:5710320 original size:28 final size:28
Alignment explanation
Indices: 5710278--5710332 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
5710268 CCGATTTGCT
*
5710278 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
5710306 CCCTCTGTTTATTTTCTTTTCTTTTCT
1 CCCTCCGTTTATTTTCTTTTCTTTTCT
5710333 ACCGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:5710353 original size:38 final size:39
Alignment explanation
Indices: 5710306--5710379 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
5710296 TTCTTTTCTG
*
5710306 CCCTCTGTTTATTTTC-TTTTCTTTTCTACCGATTTGCT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
* * * *
5710344 CCCTTTGTTTCTTCTCATTTTCTTTTTTGCCGATTT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTT
5710380 CTGAGTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 13 0.43
39 17 0.57
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (39 bp):
CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
Found at i:5713587 original size:16 final size:16
Alignment explanation
Indices: 5713544--5713578 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5713534 TGGTTCCTTA
*
5713544 TTAATTATAA-TATAT
1 TTAATAATAATTATAT
5713559 TTAATAATAATTATAT
1 TTAATAATAATTATAT
5713575 TTAA
1 TTAA
5713579 ATATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATAATTATAT
Found at i:5713709 original size:18 final size:17
Alignment explanation
Indices: 5713681--5713715 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5713671 ATTATTAAGA
*
5713681 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5713698 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5713716 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5713972 original size:16 final size:16
Alignment explanation
Indices: 5713951--5714018 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
5713941 GATTTGCTAT
5713951 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5713967 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
5713983 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
5713999 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5714015 TACA
1 TACA
5714019 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5722127 original size:20 final size:20
Alignment explanation
Indices: 5722104--5722144 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5722094 TTAATTTTAG
*
5722104 TAAAAGTATATTAAATATGA
1 TAAAAATATATTAAATATGA
* *
5722124 TAAAAATATTTTAATTATGA
1 TAAAAATATATTAAATATGA
5722144 T
1 T
5722145 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TAAAAATATATTAAATATGA
Found at i:5726186 original size:21 final size:21
Alignment explanation
Indices: 5726138--5726187 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
5726128 TAACCTGACC
*
5726138 CAAAAGTATCGGTACTCTTAA
1 CAAAAGTATCAGTACTCTTAA
*
5726159 C-AAAGTATCAGTAC-CTTTCA
1 CAAAAGTATCAGTACTC-TTAA
5726179 CAAAAGTAT
1 CAAAAGTAT
5726188 TGTTGATACC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 16 0.64
21 8 0.32
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (21 bp):
CAAAAGTATCAGTACTCTTAA
Found at i:5730988 original size:14 final size:14
Alignment explanation
Indices: 5730969--5730997 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5730959 AATTTTAAAT
5730969 TTTATTATTTTATG
1 TTTATTATTTTATG
5730983 TTTATTATTTTATG
1 TTTATTATTTTATG
5730997 T
1 T
5730998 AAATTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTTATTATTTTATG
Found at i:5732966 original size:20 final size:20
Alignment explanation
Indices: 5732928--5732975 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
5732918 TAAATTCTAA
* **
5732928 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
5732948 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
5732968 AAA-ATAAA
1 AAAGATAAA
5732976 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:5739952 original size:24 final size:24
Alignment explanation
Indices: 5739925--5739985 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
5739915 ATCTTTTATC
*
5739925 ATATATTATTTTCCTAA-ATATATT
1 ATATATTATTTT-ATAACATATATT
* *
5739949 ATATTTTATTATATAACATATATT
1 ATATATTATTTTATAACATATATT
5739973 ATATA-TATTTTAT
1 ATATATTATTTTAT
5739986 GTTATGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTATTTTATAACATATATT
Found at i:5749977 original size:15 final size:15
Alignment explanation
Indices: 5749957--5749987 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5749947 GGGGACTACC
*
5749957 AAGTTGATTCTAAGA
1 AAGTTGATTCCAAGA
5749972 AAGTTGATTCCAAGA
1 AAGTTGATTCCAAGA
5749987 A
1 A
5749988 TCAAACTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
AAGTTGATTCCAAGA
Found at i:5750287 original size:18 final size:19
Alignment explanation
Indices: 5750264--5750309 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
5750254 TATATATATT
5750264 TATATTTTAG-ATAA-TTAA
1 TATATTTTAGTA-AACTTAA
5750282 TATATTATTAGTAAACTTAA
1 TATATT-TTAGTAAACTTAA
5750302 TATATTTT
1 TATATTTT
5750310 GTTCCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.24
19 8 0.32
20 11 0.44
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
TATATTTTAGTAAACTTAA
Found at i:5755293 original size:74 final size:74
Alignment explanation
Indices: 5755213--5755360 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
5755203 TATACCAGAC
**
5755213 AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTAGTTAACACCACTAAATTACATTGAA
1 AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATTGAA
5755278 ACTTGCTAA
66 ACTTGCTAA
*
5755287 AAGTTGGTTAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATTGAA
1 AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATTGAA
5755352 ACTTGCTAA
66 ACTTGCTAA
5755361 TTTAACTTGC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (74 bp):
AAGTTGGTCAATACAAACAAGTTTTTCACCTAATCAACTACCTAACACCACTAAATTACATTGAA
ACTTGCTAA
Found at i:5764874 original size:21 final size:21
Alignment explanation
Indices: 5764845--5764887 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5764835 TGTCCTAAGA
*
5764845 CGATGATGGGAAAATATCATG
1 CGATAATGGGAAAATATCATG
* *
5764866 CGATAATGGGTAAATCTCATG
1 CGATAATGGGAAAATATCATG
5764887 C
1 C
5764888 AATGATGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (21 bp):
CGATAATGGGAAAATATCATG
Found at i:5765021 original size:23 final size:23
Alignment explanation
Indices: 5764959--5765072 Score: 102
Period size: 23 Copynumber: 5.0 Consensus size: 23
5764949 ATCCAAGCAA
* *
5764959 AACCTTTGTGGCATATTTTGTAT
1 AACCTTTGTGGCGTATTCTGTAT
* * ** *
5764982 AGCATTTGTGATGTATTCTGAAT
1 AACCTTTGTGGCGTATTCTGTAT
* *
5765005 AACCTTTGTGGCATATTCTGTCT
1 AACCTTTGTGGCGTATTCTGTAT
** *
5765028 GGCCTTTGTGGCGTATTTTGTAT
1 AACCTTTGTGGCGTATTCTGTAT
* *
5765051 ACCCTTTGTGGTGTATTCTGTA
1 AACCTTTGTGGCGTATTCTGTA
5765073 AGGCTTTTAT
Statistics
Matches: 68, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.46
Consensus pattern (23 bp):
AACCTTTGTGGCGTATTCTGTAT
Found at i:5765036 original size:46 final size:46
Alignment explanation
Indices: 5764959--5765072 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
5764949 ATCCAAGCAA
* *
5764959 AACCTTTGTGGCATATTTTGTATAGCATTTGTGATGTATTCTGAAT
1 AACCTTTGTGGCATATTCTGTATAGCATTTGTGACGTATTCTGAAT
* * * * * *
5765005 AACCTTTGTGGCATATTCTGTCTGGCCTTTGTGGCGTATTTTGTAT
1 AACCTTTGTGGCATATTCTGTATAGCATTTGTGACGTATTCTGAAT
* **
5765051 ACCCTTTGTGGTGTATTCTGTA
1 AACCTTTGTGGCATATTCTGTA
5765073 AGGCTTTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.46
Consensus pattern (46 bp):
AACCTTTGTGGCATATTCTGTATAGCATTTGTGACGTATTCTGAAT
Found at i:5768428 original size:20 final size:19
Alignment explanation
Indices: 5768392--5768435 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
5768382 ATCCTTTTAT
* *
5768392 ATTTTTTCTTTATTTATTC
1 ATTTTTTATATATTTATTC
*
5768411 ATTTTTTATATATATTATTT
1 ATTTTTTATATAT-TTATTC
5768431 ATTTT
1 ATTTT
5768436 AATGGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTTTATATATTTATTC
Found at i:5775780 original size:15 final size:15
Alignment explanation
Indices: 5775760--5775789 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5775750 CATGTTATTT
*
5775760 ATATTAGGATAATTA
1 ATATTAAGATAATTA
5775775 ATATTAAGATAATTA
1 ATATTAAGATAATTA
5775790 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:5779973 original size:54 final size:53
Alignment explanation
Indices: 5779906--5780100 Score: 207
Period size: 53 Copynumber: 3.7 Consensus size: 53
5779896 TGATAAGCGT
5779906 TATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAACAAGTAATAAGTGA
1 TATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA-AAGTAATAAGTGA
* * * ** *
5779960 TATTCGTATAAGACCGTAGCTGGGCTATGGCTTCGGATTAAAGTGATACAAGTGA
1 TATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGT-A-ATAAGTGA
* * * *
5780015 -A-CCGTATAAGAACATAGCTGGGCTATGGCATCGGAGAAAAGTGATAAGTGC
1 TATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTAATAAGTGA
* * * * *
5780066 T-CCCGTGTAAGACCATATCTGGGATATGACATCGG
1 TATCCGTATAAGACCATAGCTGGGCTATGGCATCGG
5780101 TATGATATAT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
51 6 0.05
52 28 0.24
53 39 0.33
54 37 0.32
55 7 0.06
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (53 bp):
TATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTAATAAGTGA
Found at i:5787652 original size:54 final size:51
Alignment explanation
Indices: 5787573--5787740 Score: 185
Period size: 54 Copynumber: 3.2 Consensus size: 51
5787563 CTATGACAAC
* *
5787573 AAGTGATAATCGATATCCGTATAAGACTATAGCTGGGCTATGGCCTCAGAAAA
1 AAGTGAT-A-CGATATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAAAA
* **
5787626 CAAGTGATGAGCGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCAGATTA
1 -AAGTGAT-A-CGATATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAAAA
* * *
5787680 AAGTGATACAAGTGATTCGTATAAGACCATAACTGGGCTATGGCATC-GAAGAA
1 AAGTGATACGA-T-ATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAA-AA
5787733 AAGTGATA
1 AAGTGATA
5787741 ATTGCTCCCG
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.02
52 4 0.04
53 46 0.46
54 47 0.47
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (51 bp):
AAGTGATACGATATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAAAA
Found at i:5787740 original size:53 final size:52
Alignment explanation
Indices: 5787585--5787740 Score: 167
Period size: 53 Copynumber: 2.9 Consensus size: 52
5787575 GTGATAATCG
* * *
5787585 ATATCCGTATAAGACTATAGCTGGGCTATGGCCTCAGAA-AACAAGTGATGAGCG
1 ATATCCGTATAAGACCATAGCTGGGCTATGGCATC-GAAGAA-AAGTGAT-AGCA
*
5787639 ATATCCGTATAAGACCATAGCTGGGCTATGGCTTC--AGATTAAAGTGATA-CA
1 ATATCCGTATAAGACCATAGCTGGGCTATGGCATCGAAGA--AAAGTGATAGCA
* *
5787690 AGTGATTCGTATAAGACCATAACTGGGCTATGGCATCGAAGAAAAGTGATA
1 A-T-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGAAGAAAAGTGATA
5787741 ATTGCTCCCG
Statistics
Matches: 89, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
51 3 0.03
52 3 0.03
53 46 0.52
54 34 0.38
55 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (52 bp):
ATATCCGTATAAGACCATAGCTGGGCTATGGCATCGAAGAAAAGTGATAGCA
Found at i:5787814 original size:13 final size:13
Alignment explanation
Indices: 5787796--5787822 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5787786 TATATGACTC
5787796 GTGTAAGACCATG
1 GTGTAAGACCATG
5787809 GTGTAAGACCATG
1 GTGTAAGACCATG
5787822 G
1 G
5787823 CTGGGCCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (13 bp):
GTGTAAGACCATG
Found at i:5793252 original size:20 final size:20
Alignment explanation
Indices: 5793224--5793264 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5793214 AGGGGCACAC
* *
5793224 GCCCGTGTGGCCTGGGACAT
1 GCCCATGTGGCCTGGAACAT
5793244 GCCCATGTGGCCTGGAACAT
1 GCCCATGTGGCCTGGAACAT
5793264 G
1 G
5793265 GCAGTGGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCATGTGGCCTGGAACAT
Found at i:5795055 original size:16 final size:16
Alignment explanation
Indices: 5795034--5795065 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5795024 CCTAAATTTT
*
5795034 CCTTTTTTTTTCTTTC
1 CCTTTTTCTTTCTTTC
5795050 CCTTTTTCTTTCTTTC
1 CCTTTTTCTTTCTTTC
5795066 TTTCCCTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
CCTTTTTCTTTCTTTC
Done.