Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold99
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: 1377724
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 13826 characters in sequence are not A, C, G, or T
File 3 of 10
Found at i:265813 original size:52 final size:52
Alignment explanation
Indices: 265735--265883 Score: 271
Period size: 52 Copynumber: 2.9 Consensus size: 52
265725 CGAAATATGA
* *
265735 AAATTTGCCTGCATGTATCAATACATTTCATGGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCCTGGTGTATCGATACATCTAGGC
*
265787 AAATTTGCCTGCATGTATCGATACATTTCCTGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCCTGGTGTATCGATACATCTAGGC
265839 AAATTTGCCTGCATGTATCGATACATTTCCTGGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTCCTGGTGTATCGATACA
265884 CTCTTTCCAA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 94 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCCTGGTGTATCGATACATCTAGGC
Found at i:265825 original size:20 final size:20
Alignment explanation
Indices: 265800--265883 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 20
265790 TTTGCCTGCA
265800 TGTATCGATACATTTCCTGG
1 TGTATCGATACATTTCCTGG
265820 TGTATCGATACA--T-CTGG
1 TGTATCGATACATTTCCTGG
*
265837 -G---C-A-A-ATTTGCCTGCA
1 TGTATCGATACATTT-CCTG-G
265852 TGTATCGATACATTTCCTGG
1 TGTATCGATACATTTCCTGG
265872 TGTATCGATACA
1 TGTATCGATACA
265884 CTCTTTCCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 24
0.66 0.03 0.32
Matches are distributed among these distances:
10 1 0.02
11 1 0.02
12 2 0.04
13 1 0.02
14 3 0.06
16 2 0.04
17 4 0.08
18 1 0.02
19 1 0.02
20 25 0.50
21 5 0.10
22 4 0.08
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTCCTGG
Found at i:267168 original size:13 final size:13
Alignment explanation
Indices: 267150--267175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
267140 CAATTTTTTG
267150 TGTATCGATACAT
1 TGTATCGATACAT
267163 TGTATCGATACAT
1 TGTATCGATACAT
267176 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:269748 original size:13 final size:13
Alignment explanation
Indices: 269730--269768 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
269720 ATAATCACCT
*
269730 TGTATCTATACAA
1 TGTATCGATACAA
269743 TGTATCGATACAA
1 TGTATCGATACAA
269756 TGTATCGATACAA
1 TGTATCGATACAA
269769 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:271867 original size:15 final size:15
Alignment explanation
Indices: 271847--271877 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
271837 ATTTCGTTTG
*
271847 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
271862 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
271877 G
1 G
271878 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:275961 original size:13 final size:13
Alignment explanation
Indices: 275943--275968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
275933 CAATTTTTTG
275943 TGTATCGATACAT
1 TGTATCGATACAT
275956 TGTATCGATACAT
1 TGTATCGATACAT
275969 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:280074 original size:14 final size:14
Alignment explanation
Indices: 280041--280083 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
280031 AAAACGAAAC
* *
280041 AAAAAAGAACAACAA
1 AAAAAAGAA-AAGAG
280056 AAAAAATGAAAAGAG
1 AAAAAA-GAAAAGAG
280071 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
280084 ACTTGCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.28
15 15 0.60
16 3 0.12
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAGAG
Found at i:281145 original size:61 final size:61
Alignment explanation
Indices: 281028--281595 Score: 604
Period size: 61 Copynumber: 9.4 Consensus size: 61
281018 AACCTTTTAT
* * * * *
281028 CCTTTCAGTCCTCGAAGAGCATGATGCCTTTTCCTTTTAACGCCCATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
281089 -CTTTTGAGTCTTCACAA-AGTAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTT-AGTCCTCA-AAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
281150 CCTTTCAGTTCTCAAAGAGCTA-G--GCAC-TTTCCTTACAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGC-AGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
281209 CCTTCTAGTCTTCAAAGAGCAGGACT-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGA-TGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
281270 CCTTCCAATCCTCAAAGAGCAGGAAG-C-TTT-CTTTCAAAGCCCACACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
281328 CCTTCTAGTCCTCAAAGAGCATGATATCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * *
281389 CCTTTCAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
281450 CCTGTTAGTCCTCAAAGAGGAGGA--CACTTTTCCTTTTTAAAGCCTACACAAACTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
281511 CCTTTTAGTCCTCAAAGAGTAGGATG-CTTTCTCCTTGCAAAGCCCACACAAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
281572 CCTTCTAGTCCTCAAAGAGCAGGA
1 CCTTTTAGTCCTCAAAGAGCAGGA
281596 CACACTTTCT
Statistics
Matches: 425, Mismatches: 62, Indels: 40
0.81 0.12 0.08
Matches are distributed among these distances:
58 48 0.11
59 53 0.12
60 18 0.04
61 296 0.70
62 10 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:281624 original size:41 final size:41
Alignment explanation
Indices: 281579--281743 Score: 163
Period size: 41 Copynumber: 3.9 Consensus size: 41
281569 ACACCTTCTA
*
281579 GTCCTCAAAGAGCAGGACACACTTTCTTTCCTTTTCCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCTTTTCCTTTT
* ** *
281620 GTCCTCAAAGAGTAGGATGCACTTTATTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCTTTTC-CTTTT
* * *
281662 GTCCTCAAAGAGCAAGATACA-TTTAATTTCCTTCTTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTCC-T-TTTCCTTTT
* * *
281705 GTCTTCGAAGAGCAGGACATACTCTT-TTTCCTTTGTCCT
1 GTCCTCAAAGAGCAGGACACACT-TTATTTCCTTT-TCCT
281744 CAAAGAGCAA
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 37 0.37
42 32 0.32
43 26 0.26
44 4 0.04
45 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTCCTTTTCCTTTT
Found at i:281716 original size:43 final size:43
Alignment explanation
Indices: 281579--281718 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 43
281569 ACACCTTCTA
* * * *
281579 GTCCTCAAAGAGCAGGACACACTTTCTTTCC-T-TTTCCTTTT
1 GTCCTCAAAGAGCAAGATACACTTTATTTCCTTCTTTTCTTTT
* * * * *
281620 GTCCTCAAAGAGTAGGATGCACTTTATTTCCTT-TTCTCCTTT
1 GTCCTCAAAGAGCAAGATACACTTTATTTCCTTCTTTTCTTTT
281662 GTCCTCAAAGAGCAAGATACA-TTTAATTTCCTTCTTTTCTTTT
1 GTCCTCAAAGAGCAAGATACACTTT-ATTTCCTTCTTTTCTTTT
* *
281705 GTCTTCGAAGAGCA
1 GTCCTCAAAGAGCA
281719 GGACATACTC
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 30 0.37
42 33 0.40
43 19 0.23
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (43 bp):
GTCCTCAAAGAGCAAGATACACTTTATTTCCTTCTTTTCTTTT
Found at i:286722 original size:20 final size:22
Alignment explanation
Indices: 286692--286735 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
286682 TGATTTCCCG
286692 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
286713 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
286734 TG
1 TG
286736 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:286808 original size:13 final size:13
Alignment explanation
Indices: 286790--286815 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
286780 AATTTTTTGG
286790 TGTATCGATACAT
1 TGTATCGATACAT
286803 TGTATCGATACAT
1 TGTATCGATACAT
286816 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:286830 original size:32 final size:34
Alignment explanation
Indices: 286769--286833 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
286759 TACAAGCCAA
**
286769 TGTATCGATACAATTTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTTGGTGTATCGATACAT
286803 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAATACTTTGGTGTATCGATACA
286834 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 5 0.17
34 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTGTATCGATACAT
Found at i:289401 original size:13 final size:13
Alignment explanation
Indices: 289383--289421 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
289373 ATAATCCCCC
*
289383 TGTATCGATACAG
1 TGTATCGATACAA
289396 TGTATCGATACAA
1 TGTATCGATACAA
*
289409 TGTATTGATACAA
1 TGTATCGATACAA
289422 AGAAAGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:295492 original size:20 final size:22
Alignment explanation
Indices: 295462--295505 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
295452 TGATTTCCCG
*
295462 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCAATACATATT
295483 TGTG-ATGTATCAATACATATT
1 TGTGAATGTATCAATACATATT
295504 TG
1 TG
295506 AAAATATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCAATACATATT
Found at i:295578 original size:13 final size:13
Alignment explanation
Indices: 295560--295585 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
295550 AATTTTTTGG
295560 TGTATCGATACAT
1 TGTATCGATACAT
295573 TGTATCGATACAT
1 TGTATCGATACAT
295586 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:295600 original size:32 final size:34
Alignment explanation
Indices: 295539--295603 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
295529 TACAAGCCAA
**
295539 TGTATCGATACAATTTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTTGGTGTATCGATACAT
295573 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAATACTTTGGTGTATCGATACA
295604 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 5 0.17
34 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTGTATCGATACAT
Found at i:296493 original size:19 final size:18
Alignment explanation
Indices: 296469--296519 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
296459 AAGGTCTTTT
296469 TTTTTTGTAAAATATCAC
1 TTTTTTGTAAAATATCAC
* *
296487 ATTTTTTGAAAAATATCGC
1 -TTTTTTGTAAAATATCAC
296506 -TTTTTGTAAAATAT
1 TTTTTTGTAAAATAT
296520 TTTATTTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 13 0.45
19 16 0.55
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (18 bp):
TTTTTTGTAAAATATCAC
Found at i:299989 original size:88 final size:89
Alignment explanation
Indices: 299785--300043 Score: 312
Period size: 88 Copynumber: 2.9 Consensus size: 89
299775 GGGTATAGCT
* * *
299785 CACACATTTCTAATCATATC-CCATTCA-CTCAACCACTAGATGGTATTAATGTATCACAAAGCC
1 CACACATTCCTAATCATATCTCC-TTCATC-CAACCACTAGATGGTATTGATGTATCACAAAACC
* *
299848 TGATTTCCATGGGGCAAGGTGCATAC
64 TGATTTCCATGAGGCAAGGTGCAGAC
* * *
299874 CACATATTCCCAATCATATCTCCTTCATCCAACCACTAGATGGTATTGGTGTATCACAAAACCT-
1 CACACATTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGTATCACAAAACCTG
* *
299938 AGTTTTC-TTAGG-AAGGGTGCAGAC
66 A-TTTCCATGAGGCAA-GGTGCAGAC
* * *
299962 CACACAATCCTAATCATATCTCCTTCATCCAATCGCTAGATGGTATTGATGTATCACAAAACCTG
1 CACACATTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGTATCACAAAACCTG
* *
300027 ATTTCCTTGGGGCAAGG
66 ATTTCCATGAGGCAAGG
300044 ATACCCCTAC
Statistics
Matches: 144, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
87 2 0.01
88 74 0.51
89 63 0.44
90 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (89 bp):
CACACATTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGTATCACAAAACCTG
ATTTCCATGAGGCAAGGTGCAGAC
Found at i:300595 original size:13 final size:13
Alignment explanation
Indices: 300577--300601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
300567 ATATTGCTTG
300577 GTATCGATACATT
1 GTATCGATACATT
300590 GTATCGATACAT
1 GTATCGATACAT
300602 GTTCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:300788 original size:63 final size:63
Alignment explanation
Indices: 300684--300840 Score: 199
Period size: 63 Copynumber: 2.5 Consensus size: 63
300674 AATTGAATTA
* * * * * *
300684 TATCGATACATGGTAAATTGTATCGATACTTTGAGCCTAACGGCTATAATTTTAAATGCATTG
1 TATCAATACATAGTAAATTGTATCGATACATTGAGCCTAACGGCTAGAATTTCAAATGCACTG
*
300747 TATCAATACATAGTAAATTGTATTGATACATTGAGCCTAACGGCTAGAATTTCAAATGCACTG
1 TATCAATACATAGTAAATTGTATCGATACATTGAGCCTAACGGCTAGAATTTCAAATGCACTG
** * *
300810 TATTGATACATTA-TGAATTATATCGATACAT
1 TATCAATACA-TAGTAAATTGTATCGATACAT
300841 AAGAGCGTGT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 79 0.98
64 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (63 bp):
TATCAATACATAGTAAATTGTATCGATACATTGAGCCTAACGGCTAGAATTTCAAATGCACTG
Found at i:301298 original size:31 final size:30
Alignment explanation
Indices: 301220--301309 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 30
301210 AAGTGATTGA
* *
301220 GAGGTTCTATCTTAGCCTGTGAAAAGATAGG
1 GAGGTTCTA-CTTAGCTTGTGAAAAGATAAG
* * * *
301251 GAAGTTTTATTATAGCTTGTGCAAAGATAAG
1 GAGGTTCTACT-TAGCTTGTGAAAAGATAAG
*
301282 GAGGTTCTAGCTTAGCTT-TTAAAAGATA
1 GAGGTTCTA-CTTAGCTTGTGAAAAGATA
301310 GCGTTGTAAG
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
30 9 0.20
31 36 0.78
32 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.33
Consensus pattern (30 bp):
GAGGTTCTACTTAGCTTGTGAAAAGATAAG
Found at i:304130 original size:31 final size:32
Alignment explanation
Indices: 304092--304164 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
304082 TTTTCAGATC
304092 ATCGATACA-AAGAAATTATA-TGATACAATGT
1 ATCGATACATAA-AAATTATATTGATACAATGT
* * *
304123 ATCGATACATTAACATTGTATTGATACAATGT
1 ATCGATACATAAAAATTATATTGATACAATGT
304155 ATCGATACAT
1 ATCGATACAT
304165 TAACATTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 15 0.41
32 22 0.59
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (32 bp):
ATCGATACATAAAAATTATATTGATACAATGT
Found at i:304152 original size:32 final size:32
Alignment explanation
Indices: 304112--304175 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
304102 AGAAATTATA
304112 TGATACAATGTATCGATACATTAACATTGTAT
1 TGATACAATGTATCGATACATTAACATTGTAT
304144 TGATACAATGTATCGATACATTAACATTGTAT
1 TGATACAATGTATCGATACATTAACATTGTAT
304176 CAATACATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
TGATACAATGTATCGATACATTAACATTGTAT
Found at i:304176 original size:19 final size:19
Alignment explanation
Indices: 304120--304184 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
304110 TATGATACAA
304120 TGTATCGATACATTAACAT
1 TGTATCGATACATTAACAT
*
304139 TGTATTGATAC----A-A-
1 TGTATCGATACATTAACAT
304152 TGTATCGATACATTAACAT
1 TGTATCGATACATTAACAT
*
304171 TGTATCAATACATT
1 TGTATCGATACATT
304185 TTGACTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.62
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATTAACAT
Found at i:304182 original size:32 final size:32
Alignment explanation
Indices: 304114--304182 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
304104 AAATTATATG
**
304114 ATACAATGTATCGATACATTAACATTGTATTG
1 ATACAATGTATCGATACATTAACATTGTATCA
304146 ATACAATGTATCGATACATTAACATTGTATCA
1 ATACAATGTATCGATACATTAACATTGTATCA
304178 ATACA
1 ATACA
304183 TTTTGACTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (32 bp):
ATACAATGTATCGATACATTAACATTGTATCA
Found at i:307373 original size:36 final size:34
Alignment explanation
Indices: 307326--307423 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
307316 AGTGATTGAG
* * *
307326 AGGTTCTATCTTAGCTTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCTGTG-AAAAGATAGGCA-AA
*
307362 AGGTTCTATCTTAGCCTGTGAAAAGATAGGCAAG
1 AGGTTCTATCTTAGCCTGTGAAAAGATAGGCAAA
*
307396 AGGTTCTATCTTAGCCT-TCAAAAGATAG
1 AGGTTCTATCTTAGCCTGTGAAAAGATAG
307424 TGTTGTAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
33 10 0.18
34 18 0.32
35 11 0.19
36 18 0.32
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (34 bp):
AGGTTCTATCTTAGCCTGTGAAAAGATAGGCAAA
Found at i:307405 original size:34 final size:34
Alignment explanation
Indices: 307323--307423 Score: 132
Period size: 36 Copynumber: 2.9 Consensus size: 34
307313 CGAAGTGATT
* *
307323 GAGAGGTTCTATCTTAGCTTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGC-CTTG-AAAAGATAGGCA
*
307359 GAAAGGTTCTATCTTAGCCTGTGAAAAGATAGGCA
1 GAGAGGTTCTATCTTAGCCT-TGAAAAGATAGGCA
*
307394 -AGAGGTTCTATCTTAGCCTTCAAAAGATAG
1 GAGAGGTTCTATCTTAGCCTTGAAAAGATAG
307424 TGTTGTAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
33 10 0.17
34 18 0.31
35 12 0.20
36 19 0.32
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAGATAGGCA
Found at i:307993 original size:35 final size:35
Alignment explanation
Indices: 307943--308192 Score: 315
Period size: 35 Copynumber: 7.1 Consensus size: 35
307933 ATAGTTTGAT
* * *
307943 TGTATATGGTCAAACTCTTTCCATCATCGTTTGAC
1 TGTATCTGGTCAAACTCTTTTCATCATCGTTTGGC
* * * * *
307978 TATATTTGGTTAAACTCTTTTCATCATTGTTTGGT
1 TGTATCTGGTCAAACTCTTTTCATCATCGTTTGGC
**
308013 TGTATCTGGTCAAACTCTTTTCATCATCGTTTGAT
1 TGTATCTGGTCAAACTCTTTTCATCATCGTTTGGC
* *
308048 TGTATCTAGTCAAACCCTTTTCATCATCGTTTGGC
1 TGTATCTGGTCAAACTCTTTTCATCATCGTTTGGC
*
308083 TGTATCTGGTCAAACT-TTCTTCATCATCATTTGGC
1 TGTATCTGGTCAAACTCTT-TTCATCATCGTTTGGC
* *
308118 TTTATCTGGTCAAACTCTCTTCATCATCGTTTGGC
1 TGTATCTGGTCAAACTCTTTTCATCATCGTTTGGC
* *
308153 TGTATCTGGTCAAACTCTCTTT-ATCATTGTTTGGT
1 TGTATCTGGTCAAACTCT-TTTCATCATCGTTTGGC
308188 TGTAT
1 TGTAT
308193 TTGTTACCAC
Statistics
Matches: 186, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
34 2 0.01
35 181 0.97
36 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (35 bp):
TGTATCTGGTCAAACTCTTTTCATCATCGTTTGGC
Found at i:308245 original size:46 final size:46
Alignment explanation
Indices: 308195--308282 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
308185 GGTTGTATTT
* *
308195 GTTACCACCCTGGTCAAACCCTTTTCATTTTCATTCGACTGTGTCA
1 GTTACCACCCTAGTCAAACCCTTTTCATTCTCATTCGACTGTGTCA
*
308241 GTTACCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTGT
1 GTTACCACCCTAGTCAAACCCTTTTCATTCTCATTCGACTGT
308283 ATTTTTCCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (46 bp):
GTTACCACCCTAGTCAAACCCTTTTCATTCTCATTCGACTGTGTCA
Found at i:308419 original size:41 final size:41
Alignment explanation
Indices: 308344--308461 Score: 98
Period size: 41 Copynumber: 2.9 Consensus size: 41
308334 TTCAATCCTG
308344 ATTGACTTTATCAGTTTCACCTTGGTACAACCTTTTAGCCC
1 ATTGACTTTATCAGTTTCACCTTGGTACAACCTTTTAGCCC
* * * ****
308385 ATTGGCTTTATC-GATTTCGCCTTGG-CCAACCCTTTTAATTG
1 ATTGACTTTATCAG-TTTCACCTTGGTACAA-CCTTTTAGCCC
* * * *
308426 GTTGACTTTATCGGTTTCACCTTTG-CCAACCTTTTA
1 ATTGACTTTATCAGTTTCACCTTGGTACAACCTTTTA
308462 TTTGGTTAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
40 11 0.17
41 51 0.81
42 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (41 bp):
ATTGACTTTATCAGTTTCACCTTGGTACAACCTTTTAGCCC
Found at i:308474 original size:40 final size:41
Alignment explanation
Indices: 308390--308898 Score: 251
Period size: 41 Copynumber: 12.1 Consensus size: 41
308380 AGCCCATTGG
* * *
308390 CTTTATCGATTTCGCCTTGGCCAACCCTTTTAATTGGTTGA
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
* * *
308431 CTTTATCGGTTTCACCTTTGCCAA-CCTTTTATTTGGTTAA
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
* *
308471 CTTTATCGGTTTCGCCCTAGTCAACCTTTTAACCCTTTTAATTGGTTGA
1 CTTTATCGGTTTC-ACCT--T-AGCC----AACCCTTTTAATTGGTTGA
*
308520 CTTTATCGGTTTCACCTTAGCTAA-CCTTTTAATTGGTTGA
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
** ** * * * **** *
308560 CTTTATCAATTTTGTCC-TGGTCAACCCTTATAACCCATTGG
1 CTTTATC-GGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
* * * *
308601 CTTTATCGATTTTACCCTAGCAAACCCTTTTAATTGGTTGA
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
* * *
308642 CTTTATCGGTTTCACCCTAGTCAACCCTTCAACCATTTTAATTGGTTAA
1 CTTTATCGGTTTCA-CCT--T--A-GC--CAACCCTTTTAATTGGTTGA
* * **
308691 CTTTATCGGTTTCACCCTGGTTAA-CCTTTTAATTGGTTGA
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
* *** * * **** *
308731 CTTTATCGATTTTGTC-TAGGTCAACCCTTATAACCCATTGG
1 CTTTATCGGTTTCACCTTA-GCCAACCCTTTTAATTGGTTGA
* ** * *
308772 CTTTATTGGTTTTGCCCTAGCAAACCCTTTTAATTGGTTGA
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
** * ** * ** *
308813 CTTTATCGGTTTTGCCCTAGTTAACCCTTCTAA-CCGTTGG
1 CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
* **
308853 CTTTATCAGTTTTGTCC-TAGCCAA-CCTTTTAATTGGTTGA
1 CTTTATC-GGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
308893 CTTTAT
1 CTTTAT
308899 TAGTTTCCCC
Statistics
Matches: 351, Mismatches: 92, Indels: 51
0.71 0.19 0.10
Matches are distributed among these distances:
39 8 0.02
40 115 0.33
41 149 0.42
42 4 0.01
43 1 0.00
44 3 0.01
45 2 0.01
46 3 0.01
47 1 0.00
48 7 0.02
49 58 0.17
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (41 bp):
CTTTATCGGTTTCACCTTAGCCAACCCTTTTAATTGGTTGA
Found at i:308517 original size:49 final size:49
Alignment explanation
Indices: 308455--308722 Score: 174
Period size: 49 Copynumber: 6.0 Consensus size: 49
308445 CCTTTGCCAA
* * *
308455 CCTTTTATTTGGTTAACTTTATCGGTTTCGCCCTAGTCAACCTTTTAAC
1 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTTTAAC
*
308504 CCTTTTAATTGGTTGACTTTATCGGTTTCA-CCT--T--AGC---TAA-
1 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTTTAAC
** *** * *
308544 CCTTTTAATTGGTTGACTTTATCAATTTTGTCCTGGTCAACCCTTATAAC
1 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAA-CCTTTTAAC
* *
308594 CC-----ATT-G--G-CTTTATCGATTTTACCCTAG-C-A------AAC
1 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTTTAAC
* *
308626 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCCTTCAAC
1 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTTTAAC
* * * *
308675 CATTTTAATTGGTTAACTTTATCGGTTTCACCCTGGTTAACCTTTTAA
1 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTTTAA
308723 TTGGTTGACT
Statistics
Matches: 171, Mismatches: 21, Indels: 54
0.70 0.09 0.22
Matches are distributed among these distances:
32 5 0.03
37 3 0.02
38 1 0.01
39 1 0.01
40 28 0.16
41 40 0.23
42 2 0.01
43 2 0.01
44 3 0.02
45 4 0.02
46 2 0.01
48 3 0.02
49 75 0.44
50 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (49 bp):
CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCTTTTAAC
Found at i:308563 original size:89 final size:89
Alignment explanation
Indices: 308412--308738 Score: 375
Period size: 89 Copynumber: 3.8 Consensus size: 89
308402 CGCCTTGGCC
* * * * *
308412 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCTTTGCCAACCTTTTATTTGGTTAACTTTAT
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTAT
308477 CGGTTTCGCCCTAGTCAACCTTTT
66 CGGTTTCGCCCTAGTCAACCTTTT
*
308501 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCTTAGCTAACCTTTTAATTGGTTGACTTTAT
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTAT
** * * * *
308566 CAATTTTGTCCTGGTCAACCCTTAT
66 CGGTTTCGCCCTAGTCAA-CCTTTT
* * *
308591 AACCC-----ATT-G--G-CTTTATCGATTTTACCCTAGCAAACCCTTTTAATTGGTTGACTTTA
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGCTAA-CCTTTTAATTGGTTGACTTTA
* * *
308647 TCGGTTTCACCCTAGTCAACCCTTC
65 TCGGTTTCGCCCTAGTCAACCTTTT
* * * *
308672 AACCATTTTAATTGGTTAACTTTATCGGTTTCACCCTGGTTAACCTTTTAATTGGTTGACTTTAT
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTAT
308737 CG
66 CG
308739 ATTTTGTCTA
Statistics
Matches: 197, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
81 27 0.14
82 35 0.18
84 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
89 98 0.50
90 29 0.15
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (89 bp):
AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTAT
CGGTTTCGCCCTAGTCAACCTTTT
Found at i:308646 original size:41 final size:41
Alignment explanation
Indices: 308501--308898 Score: 252
Period size: 41 Copynumber: 9.6 Consensus size: 41
308491 TCAACCTTTT
* * *
308501 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCTTAGCT
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
** ** *
308542 AA-CCTTTTAATTGGTTGACTTTATCAATTTTGTCCTGGTC-
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAG-CA
* **** * *
308582 AACCCTTATAACCCATTGGCTTTATCGATTTTACCCTAGCA
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
*
308623 AACCCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAA
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAG-C-A
* * * * **
308666 CCCTTCAACCATTTTAATTGGTTAACTTTATCGGTTTCACCCTGGTT
1 ------AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
* **
308713 AA-CCTTTTAATTGGTTGACTTTATCGATTTT-GTCTAGGTC-
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTA-G-CA
* **** * * *
308753 AACCCTTATAACCCATTGGCTTTATTGGTTTTGCCCTAGCA
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
* **
308794 AACCCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTAGTT
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
* ** * * ** *
308835 AACCCTTCTAA-CCGTTGGCTTTATCAGTTTTGTCCTAGCC
1 AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
308875 AA-CCTTTTAATTGGTTGACTTTAT
1 AACCCTTTTAATTGGTTGACTTTAT
308899 TAGTTTCCCC
Statistics
Matches: 271, Mismatches: 69, Indels: 35
0.72 0.18 0.09
Matches are distributed among these distances:
39 9 0.03
40 95 0.35
41 126 0.46
42 4 0.01
43 1 0.00
49 36 0.13
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (41 bp):
AACCCTTTTAATTGGTTGACTTTATCGGTTTTACCCTAGCA
Found at i:308647 original size:171 final size:171
Alignment explanation
Indices: 308455--308847 Score: 608
Period size: 171 Copynumber: 2.3 Consensus size: 171
308445 CCTTTGCCAA
* * * *
308455 CCTTTTATTTGGTTAACTTTATCGGTTTCGCCCTAGTCAACCTTTTAACCCTTTTAATTGGTTGA
1 CCTTTTAATTGGTTGACTTTATCGGTTTCGCCCTAGTCAACCTTTTAACCATTTTAATTGGTTAA
*
308520 CTTTATCGGTTTCACCTTAGCTAACCTTTTAATTGGTTGACTTTATCAATTTTGTCCT-GGTCAA
66 CTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTATCAATTTTGT-CTAGGTCAA
308584 CCCTTATAACCCATTGGCTTTATCGATTTTACCCTAGCAAAC
130 CCCTTATAACCCATTGGCTTTATCGATTTTACCCTAGCAAAC
* * *
308626 CCTTTTAATTGGTTGACTTTATCGGTTTCACCCTAGTCAACCCTTCAACCATTTTAATTGGTTAA
1 CCTTTTAATTGGTTGACTTTATCGGTTTCGCCCTAGTCAACCTTTTAACCATTTTAATTGGTTAA
* * *
308691 CTTTATCGGTTTCACCCTGGTTAACCTTTTAATTGGTTGACTTTATCGATTTTGTCTAGGTCAAC
66 CTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTATCAATTTTGTCTAGGTCAAC
* * *
308756 CCTTATAACCCATTGGCTTTATTGGTTTTGCCCTAGCAAAC
131 CCTTATAACCCATTGGCTTTATCGATTTTACCCTAGCAAAC
* * *
308797 CCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTAGTTAACCCTTCTAACC
1 CCTTTTAATTGGTTGACTTTATCGGTTTCGCCCTAGTCAA-CCTTTTAACC
308848 GTTGGCTTTA
Statistics
Matches: 200, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
170 2 0.01
171 191 0.95
172 7 0.04
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (171 bp):
CCTTTTAATTGGTTGACTTTATCGGTTTCGCCCTAGTCAACCTTTTAACCATTTTAATTGGTTAA
CTTTATCGGTTTCACCCTAGCTAACCTTTTAATTGGTTGACTTTATCAATTTTGTCTAGGTCAAC
CCTTATAACCCATTGGCTTTATCGATTTTACCCTAGCAAAC
Found at i:308904 original size:40 final size:41
Alignment explanation
Indices: 308671--308904 Score: 145
Period size: 40 Copynumber: 5.8 Consensus size: 41
308661 GTCAACCCTT
* * ** ** * *
308671 CAACCATTTTAATTGGTTAACTTTATCGGTTTCACCCTGGT
1 CAACCCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGC
* * * *
308712 TAA-CCTTTTAATTGGTTGACTTTA-TCGATTTTG-TCTAGGT
1 CAACCCTTTTAATTGGTTGACTTTATTAG-TTTTGCCCTA-GC
* **** * *
308752 CAACCCTTATAACCCATTGGCTTTATTGGTTTTGCCCTAGC
1 CAACCCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGC
* ** *
308793 AAACCCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTAGT
1 CAACCCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGC
* * ** * * *
308834 TAACCCTTCTAA-CCGTTGGCTTTATCAGTTTTGTCCTAGC
1 CAACCCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGC
308874 CAA-CCTTTTAATTGGTTGACTTTATTAGTTT
1 CAACCCTTTTAATTGGTTGACTTTATTAGTTT
308905 CCCCATGGTC
Statistics
Matches: 145, Mismatches: 42, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
39 10 0.07
40 65 0.45
41 65 0.45
42 5 0.03
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (41 bp):
CAACCCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGC
Found at i:309246 original size:51 final size:51
Alignment explanation
Indices: 309191--309314 Score: 185
Period size: 51 Copynumber: 2.4 Consensus size: 51
309181 TCTGGAAAGA
* * * * *
309191 AAATGTATCGATATATTTTTTATTGTATCGATATATTTTAGGTTTTAACCT
1 AAATGTATTGATACATTTTTTATTGTATCGATACATTCTAGGTTTTAACCC
* *
309242 AAATGTATTGATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCC
1 AAATGTATTGATACATTTTTTATTGTATCGATACATTCTAGGTTTTAACCC
309293 AAATGTATTGATACATTTTTTA
1 AAATGTATTGATACATTTTTTA
309315 ATGTCACTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (51 bp):
AAATGTATTGATACATTTTTTATTGTATCGATACATTCTAGGTTTTAACCC
Found at i:313042 original size:21 final size:21
Alignment explanation
Indices: 313018--313074 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
313008 AATTTATCCA
313018 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
313039 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
313060 AATGTATCGATACAT
1 AATGTATCGATACAT
313075 CCCACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:313154 original size:19 final size:19
Alignment explanation
Indices: 313130--313197 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 19
313120 AATTCAACAA
313130 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
313149 TTTGTATTGATAC--AA--
1 TTTGTATCGATACATAAGT
313164 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
313181 ATTGTATCAATACATAA
1 TTTGTATCGATACATAA
313198 TTAGCTACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
13 10 0.25
15 2 0.05
17 2 0.05
19 26 0.65
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:313194 original size:32 final size:32
Alignment explanation
Indices: 313132--313194 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
313122 TTCAACAATT
* **
313132 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTATTGTATCAATACAA
313164 TGTATCGATACATAAGTATTGTATCAATACA
1 TGTATCGATACATAAGTATTGTATCAATACA
313195 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCAATACAA
Found at i:313255 original size:13 final size:13
Alignment explanation
Indices: 313237--313262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
313227 CATTTTTCTG
313237 TGTATCGATACAT
1 TGTATCGATACAT
313250 TGTATCGATACAT
1 TGTATCGATACAT
313263 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:313256 original size:33 final size:33
Alignment explanation
Indices: 313217--313283 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
313207 GCCAAGGAAA
***
313217 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
313250 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
313283 T
1 T
313284 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:315689 original size:51 final size:51
Alignment explanation
Indices: 315620--316016 Score: 232
Period size: 52 Copynumber: 7.6 Consensus size: 51
315610 TTGAGTTTCT
* * * * * *
315620 CAATTCTCCATAATCGGGGATATTCCAACTCCGATTTCATTTTCAAAACAC
1 CAATTTTCTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* *
315671 TAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTCTATAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACAC
* * * * * ** * *
315724 CAA-TTTCTTCACAATCGGGGATATTCCAACCACG--TTGATCATCGGGGATACTC
1 CAATTTTC-T-ATAATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACAC
* * * * * *
315777 CAACCCTGT-TAT-TTCTGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
1 CAA--TTTTCTATAATC---GGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
** * * * *
315831 TGATTTT-TCATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACAC
1 CAATTTTCT-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * * * *
315882 TAATTTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACAC
1 CAA-TTTTCTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * *
315934 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTT-CTATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
* * *
315987 CAATTTT-TCACAGTCGAGGATACTCCAACC
1 CAATTTTCT-ATAATCGGGGATACTCCAACC
316017 TCGTTATTTC
Statistics
Matches: 262, Mismatches: 62, Indels: 43
0.71 0.17 0.12
Matches are distributed among these distances:
51 74 0.28
52 104 0.40
53 34 0.13
54 26 0.10
55 16 0.06
56 4 0.02
57 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
CAATTTTCTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
Found at i:316036 original size:28 final size:28
Alignment explanation
Indices: 316004--316075 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
315994 TCACAGTCGA
* * **
316004 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
316032 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
316060 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
316076 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:316093 original size:263 final size:263
Alignment explanation
Indices: 315626--316126 Score: 774
Period size: 263 Copynumber: 1.9 Consensus size: 263
315616 TTCTCAATTC
* * *
315626 TCCATAATCGGGGATATTCCAACTCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCATAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
315691 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATATTCCAACCA
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCA
* * *
315756 CGTTGATCATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * *
315821 TCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
315886 TTT
261 TTT
* * * *
315889 TCCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATCGGGG
1 TCCATAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
315954 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* *
316017 TCGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
130 ACGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
316081 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
316127 TTATTTTCGA
Statistics
Matches: 215, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
261 1 0.00
262 25 0.12
263 153 0.71
264 36 0.17
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (263 bp):
TCCATAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCA
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:316208 original size:78 final size:78
Alignment explanation
Indices: 316029--316232 Score: 221
Period size: 78 Copynumber: 2.6 Consensus size: 78
316019 GTTATTTCAT
* * * *
316029 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAACCC-GATTTATTCCCAAAATAT
** * *
316094 TGATTTCTCATAAT
65 CAATTTCTCACAAC
* * * ** *
316108 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAACCCGATTTATTCCCAAAAT-AT
316172 CAATTTCTCACAAC
65 CAATTTCTCACAAC
* * * *
316186 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAAACCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAACCCG
316233 TTATTATCTC
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.03
78 60 0.57
79 42 0.40
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAACCCGATTTATTCCCAAAATATC
AATTTCTCACAAC
Found at i:327479 original size:1 final size:1
Alignment explanation
Indices: 327473--327532 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
327463 CATTCTCTTC
** * * * *
327473 AAAAAAAAAAGCAAAAAAAAAAAAAGAAAAAAACAAAACAAAAAACAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
327533 CCTGCTTAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:327489 original size:12 final size:11
Alignment explanation
Indices: 327472--327532 Score: 81
Period size: 12 Copynumber: 5.5 Consensus size: 11
327462 ACATTCTCTT
327472 CAAAAAAAAAA
1 CAAAAAAAAAA
327483 GCAAAAAAAAAA
1 -CAAAAAAAAAA
327495 -AAAGAAAAAAA
1 CAAA-AAAAAAA
327506 CAAAACAAAAAA
1 CAAAA-AAAAAA
327518 CAAAAAAAAAA
1 CAAAAAAAAAA
327529 -AAAA
1 CAAAA
327533 CCTGCTTAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.15
11 14 0.30
12 25 0.54
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:327514 original size:27 final size:27
Alignment explanation
Indices: 327473--327533 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
327463 CATTCTCTTC
*
327473 AAAAAAA-AAAGCAAAAAA-AAAAAAA
1 AAAAAAACAAAACAAAAAACAAAAAAA
327498 GAAAAAAACAAAACAAAAAACAAAAAAA
1 -AAAAAAACAAAACAAAAAACAAAAAAA
327526 AAAAAAAC
1 AAAAAAAC
327534 CTGCTTAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 7 0.22
27 18 0.56
28 7 0.22
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (27 bp):
AAAAAAACAAAACAAAAAACAAAAAAA
Found at i:328593 original size:61 final size:61
Alignment explanation
Indices: 328518--329152 Score: 711
Period size: 61 Copynumber: 10.9 Consensus size: 61
328508 GAGCAGATCA
* *
328518 CCTTTTAAAGCCCACACAAGCTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
328579 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCGGGACGCCTT-T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
328639 TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAGAGCAGGA---C--C-
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
** * * *
328694 CCTTTTAAAGCCCACACAAACTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACACCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
328755 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAACAGGATGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
328816 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCGAGTCCTCAAAGAGCGGGACGCCTT-T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
328876 TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCA-TCCCCAAAGAGCAGGA---C--C-
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * *
328931 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTCTAGTCCTCAAAGAGCGGGACGCCTT-T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * * *
328990 TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC--CT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
329048 -C--TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTT-T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
* * ** * *
329105 -C----AAAGCCCACACGAGTTGGTAGCACTTTTTACTCCTCAATGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
329153 TACACTTTAT
Statistics
Matches: 492, Mismatches: 57, Indels: 56
0.81 0.09 0.09
Matches are distributed among these distances:
53 3 0.01
54 24 0.05
55 148 0.30
56 4 0.01
57 6 0.01
58 2 0.00
59 28 0.06
60 105 0.21
61 172 0.35
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTCT
Found at i:328720 original size:176 final size:175
Alignment explanation
Indices: 328493--329103 Score: 812
Period size: 176 Copynumber: 3.5 Consensus size: 175
328483 CTCCTTCCGC
328493 TTTTCAGTCCTCAAAGAGCA-GATCACCTTTTAAAGCCCACACAAGCTGGTGGCA-CTTCCCAGT
1 TTTTCAGTCCTCAAAGAGCAGGA-CACCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCCCAGT
*
328556 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTC
65 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTC
328621 AAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
129 AAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
328668 CCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAACTGGTGGCA-CTTCCCAGT
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCCCAGT
* * *
328732 CCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
65 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTC
* * * * *
328797 AAAGAACAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
129 AAAGAGCGGGACGCCTT-TTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
328845 TTTTCGAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTTTC-AGTCCTCAAAGAGCAGGACACC---T-TTT-AAAGCCCACACAAGCTGGTGGCACCTTC
* ** *
328910 CCA-TCCCCAAAGAGCAGGA---C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTCTAGT
60 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCAGT
328968 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
125 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
329019 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGT
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCCCAGT
329083 CCTCAAAGAGCAGGACGCCTT
65 CCTCAAAGAGCAGGACGCCTT
329104 TCAAAGCCCA
Statistics
Matches: 380, Mismatches: 39, Indels: 34
0.84 0.09 0.08
Matches are distributed among these distances:
168 2 0.01
169 42 0.11
170 2 0.01
171 1 0.00
172 1 0.00
174 52 0.14
175 23 0.06
176 162 0.43
177 49 0.13
179 1 0.00
180 1 0.00
181 3 0.01
182 35 0.09
183 6 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (175 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCCCAGTC
CTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTCAA
AGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:328933 original size:237 final size:233
Alignment explanation
Indices: 328518--329104 Score: 907
Period size: 237 Copynumber: 2.5 Consensus size: 233
328508 GAGCAGATCA
*
328518 CCTTTTAAAGCCCACACAAGCTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA-GCCTTCTCCTT
*
328583 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCGGGACGCCTTTTCTTTCAAA
65 TTAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAA
*
328648 GCCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAA
129 GCCCACACAAGTTGGTGGCACCTTTCCATCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAA
*
328713 ACTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACACCTTCT
194 ACTGGTGGCACCT-CCAGTCCTCAAAGAGCAAGACACCTT-T
*
328755 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAACAGGATGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA-GCCTTCTCCTT
328820 TTAAAGCCCACACAAGTTGGTGGCATTTTCGAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAA
65 TTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAA
328885 GCCCACACAAGTTGGTGGCACCTTTCCATCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAA
129 GCCCACACAAGTTGGTGGCACCTTTCCATCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAA
** * ** *
328950 GTTGGTGGCACCTCTAGTCCTCAAAGAGCGGGACGCCTTT
194 ACTGGTGGCACCTCCAGTCCTCAAAGAGCAAGACACCTTT
* * * *
328990 TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-CAC--CT-C--
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAGC-CTTCTCCTT
* *
329049 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT
65 TTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCGGGACGCCTTT
329105 CAAAGCCCAC
Statistics
Matches: 328, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
229 49 0.15
230 4 0.01
231 1 0.00
232 2 0.01
233 1 0.00
234 1 0.00
235 49 0.15
236 23 0.07
237 198 0.60
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (233 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAGCCTTCTCCTTT
TAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGC
CCACACAAGTTGGTGGCACCTTTCCATCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAAC
TGGTGGCACCTCCAGTCCTCAAAGAGCAAGACACCTTT
Found at i:329122 original size:55 final size:54
Alignment explanation
Indices: 328494--329152 Score: 570
Period size: 55 Copynumber: 11.4 Consensus size: 54
328484 TCCTTCCGCT
* * *
328494 TTTCAGTCCTCAAAGAGCA-GATCACCTTTTAAAGCCCACACAAGCTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGA-CGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
328548 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TT-TCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCAC
* *
328609 TTTCCAATCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTT-CAGTCCTCAAAGAGCAGGACG-C----CTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * * * **
328670 TTTCCGTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAACTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
328724 TTCCCAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TT-TCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCAC
* * * *
328785 TTCCCAGTCCTCAAAGAACAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TT-TCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCAC
*
328846 TTTCGAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTC-AGTCCTCAAAGAGCAGGACG-C----CTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * *
328907 TTTCCA-TCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
328961 -CTCTAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTC-AGTCCTCAAAGAGCAGGACG-C----CTTTCAAAGCCCACACAAGTTGGTGGCAC
*
329020 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TTT-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-C
* *
329076 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTAGCAC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
329130 TTTTTACTCCTCAATGAGCAGGA
1 -TTTCAGTCCTCAAAGAGCAGGA
329153 TACACTTTAT
Statistics
Matches: 507, Mismatches: 55, Indels: 85
0.78 0.09 0.13
Matches are distributed among these distances:
52 1 0.00
53 2 0.00
54 24 0.05
55 183 0.36
56 9 0.02
59 30 0.06
60 97 0.19
61 148 0.29
62 3 0.01
64 2 0.00
65 2 0.00
66 6 0.01
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (54 bp):
TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:329959 original size:19 final size:19
Alignment explanation
Indices: 329935--330002 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
329925 AATTCAACAA
329935 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
329954 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
329969 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
329986 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
330003 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.21
15 4 0.09
17 4 0.09
19 26 0.60
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:329973 original size:32 final size:32
Alignment explanation
Indices: 329937--329997 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
329927 TTCAACAATT
*
329937 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTATTGTATCGATATAA
329969 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
329998 CATAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATATAA
Found at i:330060 original size:13 final size:13
Alignment explanation
Indices: 330042--330067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
330032 CATTTTTCTG
330042 TGTATCGATACAT
1 TGTATCGATACAT
330055 TGTATCGATACAT
1 TGTATCGATACAT
330068 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:330064 original size:33 final size:33
Alignment explanation
Indices: 330022--330088 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
330012 GCCAAGGAAA
***
330022 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
330055 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
330088 T
1 T
330089 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:332496 original size:51 final size:53
Alignment explanation
Indices: 332428--332558 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
332418 AGTTTCTCAA
* * *
332428 TTCTCCACAATCGGGGATATTCCAACTCCGATTTCATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATATTCCAACTCCGATTTCATTTCCAAAAACACCAAT
* * *
332479 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATATTCCAACTCCGATTTCATTTCC-AAAAACACCAAT
332533 TTCTTCACAATCGGGGATATTCCAAC
1 TTCTTCACAATCGGGGATATTCCAAC
332559 CCCGTTGATC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 20 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATATTCCAACTCCGATTTCATTTCCAAAAACACCAAT
Found at i:332663 original size:51 final size:51
Alignment explanation
Indices: 332600--332821 Score: 228
Period size: 52 Copynumber: 4.3 Consensus size: 51
332590 TTATTTCCGA
* * * *
332600 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * * * *
332651 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * * * *
332703 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * * *
332755 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
*
332807 GAGGATACTCCAACC
1 GGGGATACTCCAACC
332822 TCGTTATTTC
Statistics
Matches: 139, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 37 0.27
52 89 0.64
53 13 0.09
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:332719 original size:52 final size:50
Alignment explanation
Indices: 332433--332821 Score: 205
Period size: 52 Copynumber: 7.4 Consensus size: 50
332423 CTCAATTCTC
* * * * *
332433 CACAATCGGGGATATTCCAACTCCGATTTCATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * *
332483 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-C-TAAAACACCAATTT-TT
* * ** **
332538 CACAATCGGGGATATTCCAACCCCG-TTGATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--T--T-----ATTCTAAAACACCAATT-TTT
* * * * ***
332596 C-CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTT
* * * *
332644 CATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTT
* * * *
332695 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTC
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
** * * *
332747 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAATTTTT
* *
332800 CACAGTCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
332822 TCGTTATTTC
Statistics
Matches: 255, Mismatches: 56, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 3 0.01
50 3 0.01
51 63 0.25
52 88 0.35
53 26 0.10
54 24 0.09
55 21 0.08
56 1 0.00
57 3 0.01
58 7 0.03
59 4 0.02
60 1 0.00
61 1 0.00
62 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTT
Found at i:332841 original size:28 final size:28
Alignment explanation
Indices: 332809--332880 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
332799 TCACAGTCGA
* * **
332809 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
332837 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
332865 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
332881 ACTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:332898 original size:263 final size:263
Alignment explanation
Indices: 332431--332931 Score: 801
Period size: 263 Copynumber: 1.9 Consensus size: 263
332421 TTCTCAATTC
* * *
332431 TCCACAATCGGGGATATTCCAACTCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
332496 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATATTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
332561 CGTTGATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * *
332626 TCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
332691 TTT
261 TTT
* * * *
332694 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
332759 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
*
332822 TCGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
130 CCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
332886 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
332932 TTATTTTCAA
Statistics
Matches: 218, Mismatches: 17, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
261 1 0.00
262 25 0.11
263 156 0.72
264 36 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:332946 original size:107 final size:108
Alignment explanation
Indices: 332755--332959 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 108
332745 TCCTTTAATC
* * * *
332755 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
* * *
332820 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCATAGGGGATACGCCAACCCCGTTACTTCCGA
* *** * * *
332863 GGGGATACTCCAACCCCGACTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
332927 CCCCGTTATTTTCA-AGGGGATACGCCAATCCCG
66 CCCCGTTA-TTTCATAGGGGATACGCCAACCCCG
332960 ATTTTTTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
107 54 0.67
108 27 0.33
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCATAGGGGATACGCCAACCCCGTTACTTCCGA
Found at i:332983 original size:79 final size:79
Alignment explanation
Indices: 332834--333037 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
332824 GTTATTTCAT
* * * *
332834 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACGCCAACCCCGACTTTATTCCCAAAATAT
* * *
332899 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
332913 TGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACGCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACGCCAACCCCGACTTTATTCCCAAAAT-A
332977 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * *
332992 CGAGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCC
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACGCCAACCCC
333038 ATTATTATCT
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 100 0.97
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACGCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:334576 original size:13 final size:13
Alignment explanation
Indices: 334558--334585 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
334548 CCGTTACAAG
334558 CAATGTATCGATA
1 CAATGTATCGATA
334571 CAATGTATCGATA
1 CAATGTATCGATA
334584 CA
1 CA
334586 TTGTCCCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:334680 original size:19 final size:19
Alignment explanation
Indices: 334635--334705 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
334625 CTGCCAGTTT
*
334635 CATGTATCGATACAATTG-T
1 CATGTATCGATACAA-TGAG
334654 CTATGTATCGATACAATGAG
1 C-ATGTATCGATACAATGAG
*
334674 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AG
*
334694 TATGTATCGATA
1 CATGTATCGATA
334706 AATCTGGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:336739 original size:20 final size:20
Alignment explanation
Indices: 336714--336759 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
336704 TGTGGGGGCG
336714 ACCTGGGAGTGCCGATCACA
1 ACCTGGGAGTGCCGATCACA
*
336734 ACCTGGGAGTGCCGATCGCA
1 ACCTGGGAGTGCCGATCACA
336754 ACCTGG
1 ACCTGG
336760 ATAGGGTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (20 bp):
ACCTGGGAGTGCCGATCACA
Found at i:343403 original size:13 final size:13
Alignment explanation
Indices: 343362--343410 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
343352 CCGTTACAAG
343362 CAATGTATCGATA
1 CAATGTATCGATA
343375 CAAT-T-TC-AT-
1 CAATGTATCGATA
343384 C-ATGTATCGATA
1 CAATGTATCGATA
*
343396 CAATGTATCAATA
1 CAATGTATCGATA
343409 CA
1 CA
343411 TTATCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 4 0.13
12 2 0.07
13 16 0.53
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:343426 original size:33 final size:34
Alignment explanation
Indices: 343362--343431 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
343352 CCGTTACAAG
* *
343362 CAATGTATCGATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCACCATGTATCGATA
343396 CAATGTATCAATAC-ATTATC-CCATGTATCGATA
1 CAATGTATCAATACAATT-TCACCATGTATCGATA
343429 CAA
1 CAA
343432 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCACCATGTATCGATA
Found at i:343485 original size:20 final size:21
Alignment explanation
Indices: 343460--343514 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
343450 CTGCCAGTTT
*
343460 TATGTATCGATACAATTG-TC
1 TATGTATCGATACAATTGAGC
343480 TATGTATCGATACAA-TGAGC
1 TATGTATCGATACAATTGAGC
343500 -ATGTATCGATACAAT
1 TATGTATCGATACAAT
343515 GTATCGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (21 bp):
TATGTATCGATACAATTGAGC
Found at i:343518 original size:13 final size:13
Alignment explanation
Indices: 343500--343526 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
343490 TACAATGAGC
343500 ATGTATCGATACA
1 ATGTATCGATACA
343513 ATGTATCGATACA
1 ATGTATCGATACA
343526 A
1 A
343527 AGCAGTATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:343542 original size:33 final size:32
Alignment explanation
Indices: 343481--343545 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
343471 ACAATTGTCT
*
343481 ATGTATCGATACAATGAGCATGTATCGATACA
1 ATGTATCGATACAAAGAGCATGTATCGATACA
*
343513 ATGTATCGATACAAAGCAGTATGTATCGATACA
1 ATGTATCGATACAAAG-AGCATGTATCGATACA
343546 TCTCGAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAGCATGTATCGATACA
Found at i:345315 original size:140 final size:142
Alignment explanation
Indices: 345088--345464 Score: 512
Period size: 140 Copynumber: 2.7 Consensus size: 142
345078 ATTTTTATAT
* * *
345088 ATTTTTATTATTCTTATGGTTATCCGTAGGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
1 ATTTTTATTATTCCTATGGTTTTCCGTATGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
* * * * * *
345153 CA-TTTTTCATTAAGGTACGAAATAAATTTTCTTAAAAATTAAAAA-TCAAATAAAATTATTGTA
66 -AGTTCTCCATTAAGGTACGAAATAAATTTTCTTAAAAACTAAAAATTCAAAAAAAAATATTATA
345216 TTAATTTTTCAAG
130 TTAATTTTTCAAG
* *
345229 ATTTTTATTATTCCTATGGTTTTCCGTATGGGTA-AGACATCTTCAAAACTTTTCGTATCTTTTT
1 ATTTTTATTATTCCTATGGTTTTCCGTATGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
* ** * *
345293 AGTTCTCCATTAAGGTACGAAATCAATTTT-TTGGAAACTAAAAATTTAAAAAAAAATATTATTT
66 AGTTCTCCATTAAGGTACGAAATAAATTTTCTTAAAAACTAAAAATTCAAAAAAAAATATTATAT
345357 TAATTTTTCAAG
131 TAATTTTTCAAG
* * * *
345369 ATTTTTAATATTTCTATGATTTTCCGTATGGGTATAGAAATCTTCAAAACTTTTCATAT-GTTTT
1 ATTTTTATTATTCCTATGGTTTTCCGTATGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
*
345433 AGTTCTCCATTAAGGTACGAAATGAGATTTTC
66 AGTTCTCCATTAAGGTACGAAAT-AAATTTTC
345465 AGAATTTACA
Statistics
Matches: 207, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
139 12 0.06
140 137 0.66
141 58 0.28
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (142 bp):
ATTTTTATTATTCCTATGGTTTTCCGTATGGGTATAGAAATCTTCAAAACTTTTCATATCTTTTT
AGTTCTCCATTAAGGTACGAAATAAATTTTCTTAAAAACTAAAAATTCAAAAAAAAATATTATAT
TAATTTTTCAAG
Found at i:345997 original size:154 final size:156
Alignment explanation
Indices: 345780--346107 Score: 402
Period size: 154 Copynumber: 2.1 Consensus size: 156
345770 TTGTTTTTCT
* *
345780 TTTTTAAGTCCTTTAGGGTTACTAGATACTTTCATGTCGAAAGTATACCTATAAGGGCATTTTCA
1 TTTTTAAGTCCTTTAGGGTTACTAGATACTTTCATGTAGAAAGTATACCTATAAGGCCATTTTCA
* * *
345845 TAATTTTCTTAGAAGCAAGTCCTAGGTTGTCA-TTGAG-TCTGCTTTTATG-TCG-AAGATGGGT
66 TAATTTTCTTAGAACCAAGTCCTAAGTTGTCACTAG-GTTC-GCTTTTATGCT-GAAAG-TGGGT
*
345906 ATTTAAGATAT-GTTTATCCCATCTATAATC
127 ATTTAAGAT-TGGTTCATCCCATCTATAATC
* * * * *
345936 TTTTTAAGTCCTCTAGGG-TGCTAGGTACTTTTATGTAGAAAGTAT--CTCCTAAGGCCATTTTC
1 TTTTTAAGTCCTTTAGGGTTACTAGATACTTTCATGTAGAAAGTATACCT-ATAAGGCCATTTTC
* *
345998 GTAATTTTCTTAGAACCAAGTCTTAAGTTGTCACTAGGTTCGCTTTTATGCTGAAAGTGGGTATT
65 ATAATTTTCTTAGAACCAAGTCCTAAGTTGTCACTAGGTTCGCTTTTATGCTGAAAGTGGGTATT
* * *
346063 TAGGATTGGTTCATCCCTTTTATAATC
130 TAAGATTGGTTCATCCCATCTATAATC
346090 TTTTTAAGTCCTTTAGGG
1 TTTTTAAGTCCTTTAGGG
346108 GTATCATGCA
Statistics
Matches: 149, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
153 3 0.02
154 98 0.66
155 31 0.21
156 17 0.11
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (156 bp):
TTTTTAAGTCCTTTAGGGTTACTAGATACTTTCATGTAGAAAGTATACCTATAAGGCCATTTTCA
TAATTTTCTTAGAACCAAGTCCTAAGTTGTCACTAGGTTCGCTTTTATGCTGAAAGTGGGTATTT
AAGATTGGTTCATCCCATCTATAATC
Found at i:347338 original size:13 final size:13
Alignment explanation
Indices: 347320--347345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
347310 CAATTTTTTG
347320 TGTATCGATACAT
1 TGTATCGATACAT
347333 TGTATCGATACAT
1 TGTATCGATACAT
347346 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:348090 original size:21 final size:21
Alignment explanation
Indices: 348049--348092 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
348039 CTCCCCTTTA
* *
348049 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
348070 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
348091 TC
1 TC
348093 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:349753 original size:21 final size:21
Alignment explanation
Indices: 349729--349775 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
349719 TTTGATGCTG
349729 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
349749 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
349770 ATTTTG
1 ATTTTG
349776 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:351503 original size:34 final size:35
Alignment explanation
Indices: 351400--351944 Score: 659
Period size: 34 Copynumber: 15.9 Consensus size: 35
351390 ACTTTTATAA
*
351400 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTC--TTTTTC
351437 CTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC
**
351471 CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTTC
*
351507 CTTTTCAAAGCCCACAACTCCGTGACAC-CTTTTT-
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC
351541 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
351577 CTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTC
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC
* *
351612 TTTTTACAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
351648 CTTGTTAAAGCCCACAACTCCGTGGCA--C-----C
1 CTT-TTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * * *
351677 CTTTT-AAGTCCACGATTACGTGGCACTC-TTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
351710 C-TTTAAAGCCCACAACTACGTGGCACTC-TTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
351743 CTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
351777 CTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
351811 CTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
351845 CTTTT-AAGCCCACAACTCTGTGGCACTCTTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT-C
*
351881 CTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT-
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * *
351914 CTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTT
351945 CACCCTTCTC
Statistics
Matches: 455, Mismatches: 28, Indels: 54
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.04
28 2 0.00
29 5 0.01
32 3 0.01
33 117 0.26
34 139 0.31
35 36 0.08
36 27 0.06
37 89 0.20
38 21 0.05
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (35 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
Found at i:351536 original size:70 final size:70
Alignment explanation
Indices: 351400--351944 Score: 641
Period size: 70 Copynumber: 8.0 Consensus size: 70
351390 ACTTTTATAA
*
351400 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC
1 CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC
351465 CTTTTT
65 CTTTTT
** *
351471 CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGACACC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACC
351536 TTTTT
66 TTTTT
*
351541 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACC
351606 TTTTT
66 TTTTT
* *
351611 CTTTTTACAGCCCACAACTCCGTGGCACTCTTTTTCCCTTGTT-AAAGCCCACAACTCCGTGGCA
1 C-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTT-TTCAAAGCCCACAACTCCGTGGCA
351675 CC-----
64 CCTTTTT
* * * * *
351677 CTTTT-AAGTCCACGATTACGTGGCACTC--TTTTCC-TTT-AAAGCCCACAACTACGTGGCACT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-
*
351737 CTTTTC
65 CTTTTT
* *
351743 CTTCT-AAGCCCACAACTCCGTGGCACTC-TTTTTCC--TTCTAAGCCCACAACTCCGTGGCACT
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-
351804 CTTTTT
65 CTTTTT
* *
351810 CCTTCT-AAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT--AAGCCCACAACTCTGTGGCAC
1 -CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC
351871 TCTTTTTT
65 -C-TTTTT
* * * *
351879 CCCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTGTT-CTTTT-TAAGTCCACAACTTCGTGGCA
1 --CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCA
*
351940 TCTTT
64 CCTTT
351945 CACCCTTCTC
Statistics
Matches: 428, Mismatches: 29, Indels: 37
0.87 0.06 0.07
Matches are distributed among these distances:
60 23 0.05
61 2 0.00
62 5 0.01
64 18 0.04
65 4 0.01
66 26 0.06
67 32 0.07
68 60 0.14
69 11 0.03
70 136 0.32
71 109 0.25
72 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (70 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACC
TTTTT
Found at i:352028 original size:33 final size:33
Alignment explanation
Indices: 351946--352151 Score: 319
Period size: 33 Copynumber: 6.2 Consensus size: 33
351936 GGCATCTTTC
351946 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGC-A
351980 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
352013 A-CCTTCCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTT-CTCTAAAGCCCACACAAGTCGGTGGCA
*
352046 ATCCCTTC-CCAAAGCCCACACAAGTCGGTGGCA
1 A-CCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
352079 ACCCTTC-CCAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
*
352111 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
352144 ACCCTTCT
1 ACCCTTCT
352152 AAGCCCAATA
Statistics
Matches: 160, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
32 40 0.25
33 83 0.52
34 33 0.21
35 4 0.03
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.18
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:352125 original size:65 final size:65
Alignment explanation
Indices: 351946--352150 Score: 315
Period size: 65 Copynumber: 3.1 Consensus size: 65
351936 GGCATCTTTC
* *
351946 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTCGGTGG
1 ACCCTTC-CCAAAGCCCACACAAGTTGGTGGC-AACCCTTCTCTAAAGCCCACACAAGTCGGTGG
352011 CA
64 CA
*
352013 A-CCTTCCTCTAAAGCCCACACAAGTTGGTGGCAATCCCTTC-CCAAAGCCCACACAAGTCGGTG
1 ACCCTTCC-C-AAAGCCCACACAAGTTGGTGGCAA-CCCTTCTCTAAAGCCCACACAAGTCGGTG
352076 GCA
63 GCA
*
352079 ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
352144 ACCCTTC
1 ACCCTTC
352151 TAAGCCCAAT
Statistics
Matches: 128, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
64 5 0.04
65 56 0.44
66 33 0.26
67 34 0.27
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.18
Consensus pattern (65 bp):
ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:352127 original size:98 final size:100
Alignment explanation
Indices: 351946--352151 Score: 330
Period size: 98 Copynumber: 2.1 Consensus size: 100
351936 GGCATCTTTC
* *
351946 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTCGGTGG
1 ACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGG
*
352011 CAACCTTCCTCTAAAGCCCACACAAGTTGGTGGCA
66 CAACCTTCCTCTAAAGCCCACACAAGTCGGTGGCA
*
352046 ATCCCTTC-CCAAAGCCCACACAAGTCGGTGGC-AACCCTTC-CCAAAGCCCACACAAGTTGGTG
1 A-CCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTG
352108 GCAACCATT-CTCTAAAGCCCACACAAGTCGGTGGCA
65 GCAACC-TTCCTCTAAAGCCCACACAAGTCGGTGGCA
352144 ACCCTTCT
1 ACCCTTCT
352152 AAGCCCAATA
Statistics
Matches: 99, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
97 6 0.06
98 53 0.54
99 10 0.10
100 24 0.24
101 6 0.06
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.18
Consensus pattern (100 bp):
ACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGG
CAACCTTCCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:352214 original size:49 final size:49
Alignment explanation
Indices: 352151--352725 Score: 747
Period size: 49 Copynumber: 11.7 Consensus size: 49
352141 GCAACCCTTC
* * * *
352151 TAAGCCCAATATAGCTAGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
352200 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
352248 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
352291 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC-T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * *
352342 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
352391 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * *
352443 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
352492 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
352541 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
*
352590 TAAGTCC-ATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
352638 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
352690 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
352726 ACATCCTTTT
Statistics
Matches: 466, Mismatches: 41, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
43 40 0.09
45 1 0.00
48 91 0.20
49 205 0.44
50 3 0.01
51 44 0.09
52 82 0.18
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:352647 original size:247 final size:242
Alignment explanation
Indices: 352146--352725 Score: 866
Period size: 247 Copynumber: 2.4 Consensus size: 242
352136 CGGTGGCAAC
* * *
352146 CCTTCTAAGCCCAATATAGCTAGCCCTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCA
* * *
352208 ATATAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAA
65 ATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTGGCCTTGAA
* **
352273 TCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCC
130 TCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* *
352338 ATCTTAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACCTTCA
195 A-CTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
352387 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
*
352452 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAA
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCATTAAGTCCAATATAGCTGGCCTTGAA
* * *
352517 TCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C
130 TCAGCACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
352581 TTGCACCA-TTAAGTCC-ATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
189 TT-CACCACTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
352634 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
352699 TGTAGCTGGCCTTGAATCAGCACATTG
66 TGTAGCTGGCCTTGAATCAGCACATTG
352726 ACATCCTTTT
Statistics
Matches: 309, Mismatches: 19, Indels: 16
0.90 0.06 0.05
Matches are distributed among these distances:
240 38 0.12
241 4 0.01
242 2 0.01
243 45 0.15
244 43 0.14
245 1 0.00
247 123 0.40
248 8 0.03
249 3 0.01
250 42 0.14
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (242 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
TGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCATTAAGTCCAATATAGCTGGCCTTGAAT
CAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCA
CTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:357934 original size:21 final size:21
Alignment explanation
Indices: 357905--357949 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
357895 AAGTTTTCAT
*
357905 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
357925 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
357947 TTT
1 TTT
357950 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:360193 original size:13 final size:13
Alignment explanation
Indices: 360175--360200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
360165 CAATTTTTTG
360175 TGTATCGATACAT
1 TGTATCGATACAT
360188 TGTATCGATACAT
1 TGTATCGATACAT
360201 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:364305 original size:20 final size:20
Alignment explanation
Indices: 364259--364310 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
364249 CAAAGAAAAT
*
364259 TGTATCGATACATTTGTAAA
1 TGTATCGATACATTTCTAAA
* *
364279 TGAATCGATACATTTACT-TA
1 TGTATCGATACATTT-CTAAA
364299 TGTATCGATACA
1 TGTATCGATACA
364311 ATTTTTCGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAA
Found at i:364410 original size:21 final size:20
Alignment explanation
Indices: 364360--364412 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
364350 ATTTGAGACA
364360 TGTATTGATACATTCACTTG
1 TGTATTGATACATTCACTTG
*
364380 TGTATCGATACATTCACTAAT-
1 TGTATTGATACATTCACT--TG
364401 TGTATTGATACA
1 TGTATTGATACA
364413 AATATAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.59
21 11 0.38
22 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATTGATACATTCACTTG
Found at i:369656 original size:13 final size:13
Alignment explanation
Indices: 369638--369663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
369628 TACACCAAGT
369638 ATGTATCGATACA
1 ATGTATCGATACA
369651 ATGTATCGATACA
1 ATGTATCGATACA
369664 CATAAAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:369681 original size:33 final size:32
Alignment explanation
Indices: 369620--369683 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
369610 TAGCCAAACT
*
369620 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
369652 TGTATCGATACACATAAAGT-TGTATCGATACA
1 TGTATCGATACAC--AAAGTATGTATCGATACA
369684 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 12 0.41
34 4 0.14
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:373758 original size:15 final size:15
Alignment explanation
Indices: 373738--373768 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
373728 TAAAAATGTC
*
373738 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
373753 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
373768 C
1 C
373769 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:375855 original size:13 final size:13
Alignment explanation
Indices: 375833--375870 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
375823 CATTTTTCTT
375833 TGTATCGATACAC
1 TGTATCGATACAC
*
375846 TGTATGGATACAC
1 TGTATCGATACAC
375859 TGTATCGATACA
1 TGTATCGATACA
375871 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:378426 original size:13 final size:13
Alignment explanation
Indices: 378408--378433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
378398 TACACCAAGT
378408 ATGTATCGATACA
1 ATGTATCGATACA
378421 ATGTATCGATACA
1 ATGTATCGATACA
378434 CATAAAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:379595 original size:19 final size:19
Alignment explanation
Indices: 379567--379603 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
379557 GGTAAAAGAC
379567 AAAATATATCGATACATTA
1 AAAATATATCGATACATTA
*
379586 AAAATGTATCGATACATT
1 AAAATATATCGATACATT
379604 TAGGCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
AAAATATATCGATACATTA
Found at i:380604 original size:28 final size:27
Alignment explanation
Indices: 380541--381108 Score: 385
Period size: 28 Copynumber: 20.0 Consensus size: 27
380531 CACCAACTGG
* * *
380541 TGTGGGATTTAGAGAAGGTTGCCACCAACT
1 TGTGGGCTTTA-A-AAGGATGCCA-CTACT
* *
380571 TATGGGCTTTAAAAGGATGCCACTATTT
1 TGTGGGCTTTAAAAGGATGCCACTA-CT
** * *
380599 TGTGGGCTTCGAAAGGGTGCCAATAACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* * *
380627 TATGGGCTTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* *
380655 TATGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* * * *
380683 TGTGGGCTTTGAGAGAGGTTGCTACCGACTT
1 TGTGGGCTTT-A-AAAGGATGCCA-CTAC-T
380714 GTGTGGGC-TTAAAGAGG-TGCCACTAACT
1 -TGTGGGCTTTAAA-AGGATGCCACT-ACT
* *
380742 TGTGGGCTTTGAGAAGGATACCACTAACT
1 TGTGGGCTTT-AAAAGGATGCCACT-ACT
* *
380771 TGTGGGCTTTGAGAAGGATGCCATTGACT
1 TGTGGGCTTT-AAAAGGATGCCACT-ACT
** * *
380800 CATGGGCTTTGAAAGG-TCCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* * * *
380827 TATGGGCTTTGAAAGGATGCCATTGACA
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
*
380855 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* * *
380883 TGTGGGCTTTGAAAGGATGCCATTGACA
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* *
380911 TATGGGCTTTGAAAA-GCTGTCC-CTGACT
1 TGTGGGCTTT-AAAAGGATG-CCACT-ACT
*
380939 TATGGGCTTTGAAAA-GATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACT-ACT
*
380967 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
*
380995 TGTGGGCTTTGAAAA-GATACCACTTACT
1 TGTGGGCTTT-AAAAGGATGCCAC-TACT
*
381023 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* *
381051 TGTGGGCTTTGAAAGGATACCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACT-ACT
* *
381079 TGTAGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACT-ACT
381108 T
1 T
381109 AGGGACTCTA
Statistics
Matches: 447, Mismatches: 69, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
27 41 0.09
28 292 0.65
29 80 0.18
30 23 0.05
31 4 0.01
32 7 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
TGTGGGCTTTAAAAGGATGCCACTACT
Found at i:380627 original size:56 final size:56
Alignment explanation
Indices: 380541--381108 Score: 507
Period size: 56 Copynumber: 10.0 Consensus size: 56
380531 CACCAACTGG
* * ** * **
380541 TGTGGGATTTAGAGAAGGTTGCCACCAACTTATGGGCTTTAAAAGGATGCCACTATTT
1 TGTGGGCTTT-GA-AAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
* * * * * * * *
380599 TGTGGGCTTCGAAAGGGTGCCAATAACTTATGGGCTTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
* * * * * * **
380655 TATGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAGAGAGGTTGCTACCGACTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-A-AAAGGATGCCACTAAC-T
* * * *
380714 GTGTGGGC-TT-AAAGAGGTGCCACTAACTTGTGGGCTTTGAGAAGGATACCACTAACT
1 -TGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTAACT
* ** * *
380771 TGTGGGCTTTGAGAAGGATGCCATTGACTCATGGGCTTTGAAAGG-TCCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
* * * * *
380827 TATGGGCTTTGAAAGGATGCCATTGACATGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
* * * * *
380883 TGTGGGCTTTGAAAGGATGCCATTGACATATGGGCTTTGAAAA-GCTGTCC-CTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATG-CCACTAACT
* * *
380939 TATGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
* * * *
380995 TGTGGGCTTTGAAAAGATACCACTTACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
* * * * *
381051 TGTGGGCTTTGAAAGGATACCACTAACTTGTAGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTAACT
381108 T
1 T
381109 AGGGACTCTA
Statistics
Matches: 431, Mismatches: 65, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
55 33 0.08
56 278 0.65
57 32 0.07
58 52 0.12
59 30 0.07
60 6 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACT
Found at i:380918 original size:84 final size:85
Alignment explanation
Indices: 380541--381108 Score: 569
Period size: 84 Copynumber: 6.7 Consensus size: 85
380531 CACCAACTGG
* * * * *
380541 TGTGGGATTTAGAGAAGGTTGCCACCAACTTATGGGCTTTAAAAGGATGCCACT-ATTTTGTGGG
1 TGTGGGCTTT-GA-AAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGA-CTTGTGGG
* * * *
380605 CTTCG-AAAGGGTGCCAATAACT
63 CTTTGAAAAGGATGCCACTGACT
* ** * * * *
380627 TATGGGCTTCAAAAGGGTGCCACTGACTTATGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* * * *
380692 TGAGAGAGGTTGCTACCGACTT
66 TGA-AAAGGATGCCACTGAC-T
* * * *
380714 GTGTGGGC-TT-AAAGAGGTGCCACTAACTTGTGGGCTTTGAGAAGGATACCACTAACTTGTGGG
1 -TGTGGGCTTTGAAAG-GATGCCACTAACTTATGGGCTTTGA-AAGGATGCCACTGACTTGTGGG
* *
380777 CTTTGAGAAGGATGCCATTGACT
63 CTTTGAAAAGGATGCCACTGACT
** * * *
380800 CATGGGCTTTGAAAGG-TCCCACTAACTTATGGGCTTTGAAAGGATGCCATTGACATGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
*
380864 T-AAAAGGGTGCCACTGACT
66 TGAAAAGGATGCCACTGACT
* * * * * *
380883 TGTGGGCTTTGAAAGGATGCCATTGACATATGGGCTTTGAAAAGCTGTCC-CTGACTTATGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATG-CCACTGACTTGTGGGCT
380947 TTGAAAA-GATGCCACTGACT
65 TTGAAAAGGATGCCACTGACT
* * * *
380967 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATACCACTTACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
*
381032 TG-AAAGGATGCCACTAACT
66 TGAAAAGGATGCCACTGACT
* * *
381051 TGTGGGCTTTGAAAGGATACCACTAACTTGTAGGCTTTGAGAAGGATGCCACTGACTT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGA-AAGGATGCCACTGACTT
381109 AGGGACTCTA
Statistics
Matches: 400, Mismatches: 67, Indels: 31
0.80 0.13 0.06
Matches are distributed among these distances:
83 34 0.09
84 224 0.56
85 48 0.12
86 25 0.06
87 38 0.09
88 31 0.08
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TGAAAAGGATGCCACTGACT
Found at i:381199 original size:14 final size:14
Alignment explanation
Indices: 381139--381217 Score: 51
Period size: 14 Copynumber: 5.9 Consensus size: 14
381129 TATTGACGAA
*
381139 AATTTCTTGATAA-
1 AATTTCTTGACAAT
*
381152 AGTTTC-TGACAA-
1 AATTTCTTGACAAT
*
381164 ACA-TTCTCGACAA-
1 A-ATTTCTTGACAAT
* **
381177 AAGTTCTTGATGAT
1 AATTTCTTGACAAT
381191 AATTTCTTGACAAT
1 AATTTCTTGACAAT
*
381205 CATTTCTTGACAA
1 AATTTCTTGACAA
381218 ATGGCGAATT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
12 10 0.20
13 18 0.35
14 23 0.45
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (14 bp):
AATTTCTTGACAAT
Found at i:397068 original size:24 final size:20
Alignment explanation
Indices: 396972--397055 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
396962 TTTTAACTAG
396972 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
396992 ATGTATCGATACATTTGGGTAAAAGACAGA
1 ATGTATCGATACA-TT--G----A-A-A-A
397022 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
397042 ATGTATCGATACAT
1 ATGTATCGATACAT
397056 CTAGGTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
20 28 0.52
21 3 0.06
22 1 0.02
23 2 0.04
27 2 0.04
28 1 0.02
29 3 0.06
30 14 0.26
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:398126 original size:19 final size:19
Alignment explanation
Indices: 398102--398142 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
398092 TTACCTACAC
398102 TATAATAGTT-TATGTAAAT
1 TATAATAGTTATATGT-AAT
398121 TATAATAGTTATATGTAAT
1 TATAATAGTTATATGTAAT
398140 TAT
1 TAT
398143 TGTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
TATAATAGTTATATGTAAT
Found at i:398382 original size:22 final size:22
Alignment explanation
Indices: 398324--398375 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
398314 TCCTCCATAT
398324 ATAATTTTTTAAAAAAATAAAA
1 ATAATTTTTTAAAAAAATAAAA
398346 ATAATTTTTTAAAAAAATAAAA
1 ATAATTTTTTAAAAAAATAAAA
398368 ATAATTTT
1 ATAATTTT
398376 GAAAAAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATTTTTTAAAAAAATAAAA
Found at i:398390 original size:22 final size:22
Alignment explanation
Indices: 398324--398382 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
398314 TCCTCCATAT
*
398324 ATAATTTTTTAAAAAAATAAAA
1 ATAATTTTTGAAAAAAATAAAA
*
398346 ATAATTTTTTAAAAAAATAAAA
1 ATAATTTTTGAAAAAAATAAAA
398368 ATAA-TTTTGAAAAAA
1 ATAATTTTTGAAAAAA
398383 TTGTAAAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATTTTTGAAAAAAATAAAA
Found at i:398526 original size:13 final size:13
Alignment explanation
Indices: 398505--398540 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
398495 CATTACCTTC
*
398505 AAATCTATTACAT
1 AAATATATTACAT
398518 AAATATATTACAT
1 AAATATATTACAT
398531 AAATATATTA
1 AAATATATTA
398541 TAGATTCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATATATTACAT
Found at i:399096 original size:120 final size:120
Alignment explanation
Indices: 398957--399172 Score: 308
Period size: 120 Copynumber: 1.8 Consensus size: 120
398947 TTTACAATAA
* * * * *
398957 ATATTACAAATTCGATAATGTTTTATGTAAAAATGTGATGTTTATATATAATCTGATAATATTTA
1 ATATTACAAATTCGATAATGCTTCATGTAAAAATGTAATATTTATATATAATCCGATAATATTTA
399022 TATGTAATTTATTACATACAAATATTACCTTTATATTTTTTACATATATATATAT
66 TATGTAATTTATTACATACAAATATTACCTTTATATTTTTTACATATATATATAT
* * * *
399077 ATATTACAGATTC-AGTAATGCTTCATGTAAAAGTGTAATATTTGTATATAATCCGATAATGTTT
1 ATATTACAAATTCGA-TAATGCTTCATGTAAAAATGTAATATTTATATATAATCCGATAATATTT
* * *
399141 ATATGTAATTTGTTATATATAAATATTACCTT
65 ATATGTAATTTATTACATACAAATATTACCTT
399173 CAAAGTTTCT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
119 1 0.01
120 82 0.99
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (120 bp):
ATATTACAAATTCGATAATGCTTCATGTAAAAATGTAATATTTATATATAATCCGATAATATTTA
TATGTAATTTATTACATACAAATATTACCTTTATATTTTTTACATATATATATAT
Found at i:399920 original size:431 final size:432
Alignment explanation
Indices: 399111--400236 Score: 1272
Period size: 431 Copynumber: 2.6 Consensus size: 432
399101 ATGTAAAAGT
* * * * * *
399111 GTAATATTTGTATATAATCCGATAATGTTTATATGTAATTTGTTATATATAAATATTACCTTCAA
1 GTAATATTTGTATGTGATCTGATAATGTTTATATGTAATTTGTTACATAAAAACATTACCTTCAA
* * * * *
399176 AGTTTCTTTACACAAATACATTACTCATAACACATATTACCTTTAAATATTACCTACACT-T--T
66 AG-ATCTTTACACAAATATATTACACATAACACATATTACATATAAATATTACCTACACTCTAAT
* * ** * * * * * *
399238 AATTTATGTAAATTATAATATTTACACGTAATTGTTGTAATCTTTGGTTGCAATTGTTATCAATT
130 GATTTATGTAAATTGTAATATTTACGTGTAATTGTCGTAATCTTTAGTTGTAATTCTTACCAA-C
* * * *
399303 TATTAAAAATCT-ATATTTTATCATAAAATTATTTTTTTATTAATACAATATAATTATTACTAAT
194 TAAT-AAAATCTAATATTTTTTCATAAAATTAATTTTTTATTAATATAATATAATTATTACTAAT
* *
399367 GTTACCAAATATATTATTAAAATAAAAAAATATGAAAATTTTTTCACTTCAAAAATTACTAAAAA
258 ATTACCAAATATATTATTAAAATAAAAAAATATGAAAATTTTTTCACTTCAAAAATTACAAAAAA
* * *
399432 AATTAATTTCCTAGATGTATAATATTTTTAATAAAAAAATCAATAATAATTTTGAAAAATTATAG
323 AATTAATTTCCTACATATATAATATATTTAATAAAAAAA-CAATAATAATTTTGAAAAATTATAG
* * * *
399497 TTAATTTTCTTAAAAGATTTTTAACATAAGTA-TATTATAGATT-C-A
387 TTAATTTTCCTAAAAAATTCTT-ACATAAATACT-TTATAGATTCCTA
* * *
399542 GTAATGTTTGTATGTGATCTGATAATGTTTTTATGTAATTTGTTAGATAAAAACATTACCTTCAA
1 GTAATATTTGTATGTGATCTGATAATGTTTATATGTAATTTGTTACATAAAAACATTACCTTCAA
* * * *
399607 AGACTCTTTACACAAATATATTGCACATAGCATATATTACATATAAATATTATCTACACTCTAAT
66 AGA-TCTTTACACAAATATATTACACATAACACATATTACATATAAATATTACCTACACTCTAAT
* *
399672 GATTTATGTAAATTGTAATATTTATGTGTAATCGTCGTAATCTTTAGTTGTAATTCTTACCAACT
130 GATTTATGTAAATTGTAATATTTACGTGTAATTGTCGTAATCTTTAGTTGTAATTCTTACCAACT
*
399737 AATAAAATCTAAT-TTTTTTCATAAAATTAATTTTTTATTAGTATAATATAATTATTACTAATAT
195 AATAAAATCTAATATTTTTTCATAAAATTAATTTTTTATTAATATAATATAATTATTACTAATAT
*
399801 TACCAAATATATTA-TAAAAT-AAAAAATATGAAAATTTTTTTACTTCAAAAATTACAAAAATAA
260 TACCAAATATATTATTAAAATAAAAAAATATGAAAATTTTTTCACTTCAAAAATTAC-AAAA-AA
399864 AAGTTAATTTCCTACATATATAATATATTTAATAAAAATAA-AA-AATAATTTTGAAAAATTATA
323 AA-TTAATTTCCTACATATATAATATATTTAATAAAAA-AACAATAATAATTTTGAAAAATTATA
399927 GTTAATTTTCCTAAAAAATTCTTACATAAATACTTTATAGATTCCATAATGTTTTTTGTAAAA
386 GTTAATTTTCCTAAAAAATTCTTACATAAATACTTTATAGATTCC-------------T---A
* ** * *
399990 GTTTAATATTTGTATGTGATCTGGTAACATTTATATATAATTTGTTACATACAAACATTACCTTC
1 G--TAATATTTGTATGTGATCTGATAATGTTTATATGTAATTTGTTACATAAAAACATTACCTTC
* * * * * *
400055 AAAGATATTTTACACAAATATATTACCCATAACACATGTTACATATAAACATTACCAATAC-CTA
64 AAAGAT-CTTTACACAAATATATTACACATAACACATATTACATATAAATATTACCTACACTCTA
* * * * *
400119 ATGATTTTTGTGAATTGTGATATTTGCGTGTAATTGCCGTAATCTTTAGTTGTAATTCTTACCAA
128 ATGATTTATGTAAATTGTAATATTTACGTGTAATTGTCGTAATCTTTAGTTGTAATTCTTACCAA
*
400184 CTAATATAAAATTTAAATTAAATTTTTTCATAAAATTAA-TTTTTATTAATATA
193 CT-A-ATAAAATCT-AA-T--ATTTTTTCATAAAATTAATTTTTTATTAATATA
400237 TAATTTACTT
Statistics
Matches: 586, Mismatches: 71, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
430 51 0.09
431 158 0.27
432 74 0.13
433 37 0.06
434 55 0.09
448 2 0.00
449 64 0.11
450 104 0.18
451 8 0.01
452 2 0.00
453 1 0.00
455 13 0.02
456 17 0.03
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (432 bp):
GTAATATTTGTATGTGATCTGATAATGTTTATATGTAATTTGTTACATAAAAACATTACCTTCAA
AGATCTTTACACAAATATATTACACATAACACATATTACATATAAATATTACCTACACTCTAATG
ATTTATGTAAATTGTAATATTTACGTGTAATTGTCGTAATCTTTAGTTGTAATTCTTACCAACTA
ATAAAATCTAATATTTTTTCATAAAATTAATTTTTTATTAATATAATATAATTATTACTAATATT
ACCAAATATATTATTAAAATAAAAAAATATGAAAATTTTTTCACTTCAAAAATTACAAAAAAAAT
TAATTTCCTACATATATAATATATTTAATAAAAAAACAATAATAATTTTGAAAAATTATAGTTAA
TTTTCCTAAAAAATTCTTACATAAATACTTTATAGATTCCTA
Found at i:401204 original size:33 final size:33
Alignment explanation
Indices: 401160--401224 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
401150 TTTGAGATAA
* *
401160 TGTATCGATACAAT-TCTTCATGTATCAATACAT
1 TGTATCCATACAATGTC-CCATGTATCAATACAT
401193 TGTATCCATACAATGTCCCATGTATCAATACA
1 TGTATCCATACAATGTCCCATGTATCAATACA
401225 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (33 bp):
TGTATCCATACAATGTCCCATGTATCAATACAT
Found at i:401773 original size:17 final size:17
Alignment explanation
Indices: 401751--401784 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
401741 AGAATTCGTA
401751 ACCTATAATCTGATATT
1 ACCTATAATCTGATATT
401768 ACCTATAATCTGATATT
1 ACCTATAATCTGATATT
401785 CACAACTTCA
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:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
ACCTATAATCTGATATT
Found at i:409223 original size:32 final size:33
Alignment explanation
Indices: 409158--409225 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
409148 CGTTACAAGC
*
409158 CAATGTATCGATACATTTTGTGGTGTATCGATA
1 CAATGTATCGATACATATTGTGGTGTATCGATA
* *
409191 CAATGTATTGATACATATTGT-GTGTATTGATA
1 CAATGTATCGATACATATTGTGGTGTATCGATA
409223 CAA
1 CAA
409226 ATTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (33 bp):
CAATGTATCGATACATATTGTGGTGTATCGATA
Found at i:409304 original size:20 final size:21
Alignment explanation
Indices: 409257--409309 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
409247 GCCAATGACC
**
409257 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
409278 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
409298 TGTATCGATACA
1 TGTATCGATACA
409310 ATGCAATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:409321 original size:20 final size:20
Alignment explanation
Indices: 409298--409348 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
409288 CATTTGGTCA
*
409298 TGTATCGATACA-ATGCAATC
1 TGTATCGATACATAT-AAATC
* *
409318 TGTATCAATACATATAAATG
1 TGTATCGATACATATAAATC
409338 TGTATCGATAC
1 TGTATCGATAC
409349 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATATAAATC
Found at i:409811 original size:20 final size:20
Alignment explanation
Indices: 409786--409848 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
409776 GTTTGAGACA
409786 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
409806 ATGTATCGATAC-A----T-
1 ATGTATCGATACAATTCTTC
409820 -TGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
409839 ATGTATCGAT
1 ATGTATCGAT
409849 GTAAATAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 21 0.58
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:409825 original size:13 final size:13
Alignment explanation
Indices: 409807--409831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
409797 CAATTCTTCA
409807 TGTATCGATACAT
1 TGTATCGATACAT
409820 TGTATCGATACA
1 TGTATCGATACA
409832 ATTCTTCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:409946 original size:20 final size:19
Alignment explanation
Indices: 409882--409953 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
409872 TGCTAGTTTC
*
409882 ATGTATCGATACAATTGTGTA
1 ATGTATCGATACAA-TG-ATA
*
409903 A-GTATCGATACAATGATC
1 ATGTATCGATACAATGATA
*
409921 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAATG-ATA
409941 ATGTATCGATACA
1 ATGTATCGATACA
409954 TCTGGATGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
18 2 0.04
19 15 0.33
20 27 0.60
21 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGATA
Found at i:410965 original size:19 final size:20
Alignment explanation
Indices: 410943--410982 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
410933 TGTAATAAAT
*
410943 TTATGTTTTATAAT-TTTTA
1 TTATCTTTTATAATATTTTA
*
410962 TTATCTTTTATCATATTTTA
1 TTATCTTTTATAATATTTTA
410982 T
1 T
410983 GCAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATCTTTTATAATATTTTA
Found at i:411396 original size:12 final size:11
Alignment explanation
Indices: 411370--411411 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
411360 ACAAATATTA
*
411370 AAAAAATAATT
1 AAAATATAATT
411381 AAAATATAATT
1 AAAATATAATT
*
411392 GAAAATATGA-T
1 -AAAATATAATT
411403 AAAATATAA
1 AAAATATAA
411412 AAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 8 0.30
11 11 0.41
12 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (11 bp):
AAAATATAATT
Found at i:411666 original size:53 final size:53
Alignment explanation
Indices: 411524--411687 Score: 133
Period size: 53 Copynumber: 3.1 Consensus size: 53
411514 ATACGACATG
**
411524 AAAATAACACTAATGCACAAAAAAATAACACGATTTAAAATATAACATGACACAA
1 AAAATAACACTAATGCAC-AAAAAATAA-ACGACCTAAAATATAACATGACACAA
** * * * * *
411579 AAAATAA-A--AATATACGAAAAA-AAATGACCTAAAATACT-ATATGATA-GA
1 AAAATAACACTAATGCACAAAAAATAAACGACCTAAAATA-TAACATGACACAA
*** *
411627 AAAATAACACTAATGCACAACAAAATAAACGACCTAAAATAGGGCATAACACAA
1 AAAATAACACTAATGCACAA-AAAATAAACGACCTAAAATATAACATGACACAA
411681 AAAATAA
1 AAAATAA
411688 TATAAAATAC
Statistics
Matches: 82, Mismatches: 19, Indels: 17
0.69 0.16 0.14
Matches are distributed among these distances:
48 8 0.10
49 17 0.21
50 3 0.04
51 11 0.13
52 9 0.11
53 18 0.22
54 9 0.11
55 7 0.09
ACGTcount: A:0.61, C:0.15, G:0.07, T:0.17
Consensus pattern (53 bp):
AAAATAACACTAATGCACAAAAAATAAACGACCTAAAATATAACATGACACAA
Found at i:411831 original size:19 final size:19
Alignment explanation
Indices: 411795--411832 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
411785 TTACAAACCT
*
411795 AAAATAGACACAATATGAA
1 AAAATAGACACAACATGAA
411814 AAAATA-ACACGAACATGAA
1 AAAATAGACAC-AACATGAA
411833 TTTTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.63, C:0.13, G:0.11, T:0.13
Consensus pattern (19 bp):
AAAATAGACACAACATGAA
Found at i:415657 original size:31 final size:31
Alignment explanation
Indices: 415622--415691 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
415612 TTGAATAATA
**
415622 TATCGATACATCTGGGTAAAAAATTAGAATG
1 TATCGATACATCTGGGTAAAAAACCAGAATG
* *
415653 TATCGATACATTTGGGTAAAAACCCAGAATG
1 TATCGATACATCTGGGTAAAAAACCAGAATG
415684 TATCGATA
1 TATCGATA
415692 TAATGAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (31 bp):
TATCGATACATCTGGGTAAAAAACCAGAATG
Found at i:416697 original size:32 final size:31
Alignment explanation
Indices: 416626--416736 Score: 136
Period size: 32 Copynumber: 3.5 Consensus size: 31
416616 TGGGGACGAA
416626 TTCAAAGTCCACGACTCAGTGGCAT-TTTGT-
1 TTCAAAGTCCACGACTCAGTGGCATCTTT-TC
*
416656 TTCAAAGTCCACGTCTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCAT-CTTTTC
* *
416688 TTCAAAGTCCACGACTTAGTGACATTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCA-TCTTTTC
* *
416720 TTCTAAGTCCACAACTC
1 TTCAAAGTCCACGACTC
416737 CGTAGCACTC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
30 24 0.34
31 1 0.01
32 44 0.63
33 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.34
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATCTTTTC
Done.