Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23
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: 3125668
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 362582 characters in sequence are not A, C, G, or T
File 1 of 18
Found at i:2152 original size:22 final size:23
Alignment explanation
Indices: 2124--2168 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
2114 GGACATGTTT
2124 AAAAATGCATG-AACATAATAAA
1 AAAAATGCATGAAACATAATAAA
2146 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
2169 CAAAGCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:2181 original size:1 final size:1
Alignment explanation
Indices: 2175--2255 Score: 99
Period size: 1 Copynumber: 81.0 Consensus size: 1
2165 TAAACAAAGC
* * *** **
2175 AAAAAAAGAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAGGGAAAAAAAAAAAAAAAAAGG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2240 AAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAA
2256 TAGTCCATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:2200 original size:22 final size:21
Alignment explanation
Indices: 2170--2255 Score: 118
Period size: 21 Copynumber: 4.0 Consensus size: 21
2160 CATAATAAAC
2170 AAAGCAAAAAAAGAAAAAAAAAA
1 AAAG-AAAAAAA-AAAAAAAAAA
2193 AAAGAAAAAAAAAAAAAAAAAA
1 AAAG-AAAAAAAAAAAAAAAAA
**
2215 AAAGGGAAAAAAAAAAAAAAA
1 AAAGAAAAAAAAAAAAAAAAA
*
2236 AAGGAAAAAAAAAAAAAAAA
1 AAAGAAAAAAAAAAAAAAAA
2256 TAGTCCATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 32 0.56
22 14 0.25
23 11 0.19
ACGTcount: A:0.90, C:0.01, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAAAAAAAAA
Found at i:2205 original size:19 final size:19
Alignment explanation
Indices: 2175--2255 Score: 119
Period size: 19 Copynumber: 4.3 Consensus size: 19
2165 TAAACAAAGC
2175 AAAAAAAGAAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAAA
2194 AAGAAAAA-AAAAAAAAAAA
1 AA-AAAAAGAAAAAAAAAAA
**
2213 AAAAAGGGAAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAAA
*
2232 AAAAAAGGAAAAAAAAAAA
1 AAAAAAAGAAAAAAAAAAA
2251 AAAAA
1 AAAAA
2256 TAGTCCATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
18 3 0.05
19 49 0.86
20 5 0.09
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAAAAA
Found at i:4121 original size:28 final size:28
Alignment explanation
Indices: 3802--4629 Score: 517
Period size: 27 Copynumber: 29.5 Consensus size: 28
3792 ACGTGCATGT
* * *
3802 GGCTTTAAAAAGGTGCCACTAACTTTGGTG
1 GGCTTTGAAAGGGTGCCACTGAC-TT-GTG
** *
3832 GGCTTTG-AAGAATGCCACTAGACGTCGTG
1 GGCTTTGAAAGGGTGCCACT-GAC-TTGTG
* *
3861 GCCTTTGAAAGGGATG-CACGTGACTT-CG
1 GGCTTTGAAAGGG-TGCCAC-TGACTTGTG
*
3889 GGCTTTGAAAGAGG-GCCATTGACTTGT-
1 GGCTTTGAAAG-GGTGCCACTGACTTGTG
*
3916 GGCTTTGAAA-GGTACC-CTGACTTGCGTG
1 GGCTTTGAAAGGGTGCCACTGACTT--GTG
* *
3944 AGCGTTTAAAAGGAGTGCCACT-ACTTGTGTG
1 GGC-TTTGAAAGG-GTGCCACTGAC-T-TGTG
* *
3975 GGCTTTAAAAGGGT-CCAC-GAACTGTGTT
1 GGCTTTGAAAGGGTGCCACTG-ACT-TGTG
* *
4003 GGC-TTGAAAGAGTTGCCAC-GAATTGTG
1 GGCTTTGAAAG-GGTGCCACTGACTTGTG
* *
4030 GGCTTCGCAAATGG-GCACACTTGACTTGTG
1 GGCTTTG-AAAGGGTGC-CAC-TGACTTGTG
*
4060 GGCTTCGAAAAGGAAGTGCCACTGAC-TGTG
1 GGCTTTG-AAAGG--GTGCCACTGACTTGTG
4090 GGCTTTGAAAGGGTGCCAC-GACTTGGTG
1 GGCTTTGAAAGGGTGCCACTGACTT-GTG
*
4118 GGCTTT-AAAGGGTGGCCACTCACTTGTG
1 GGCTTTGAAAGGGT-GCCACTGACTTGTG
* *
4146 GGCTTTGAAAGAGTGCCACTAAGA-TGGTG
1 GGCTTTGAAAGGGTGCCACT--GACTTGTG
* *
4175 GGCTTCGACAATGGTGGCCACTG-CGTTGTTG
1 GGCTTTGA-AAGGGT-GCCACTGAC-TTG-TG
*
4206 GG-TTTCGAAAGGAGTGCC-CTGGAACTTAT-
1 GGCTTT-GAAAGG-GTGCCACT-G-ACTTGTG
4235 GGCTTTGGAAAGGGTGCCACT-A-TTGTG
1 GGCTTT-GAAAGGGTGCCACTGACTTGTG
* * * *
4262 GCCTTGTGAAAGAG-GCAACT-ATTTGTG
1 GGCTT-TGAAAGGGTGCCACTGACTTGTG
*
4289 GGCTTTGAAAAGAGTGCCACTGACTTGTG
1 GGCTTTG-AAAGGGTGCCACTGACTTGTG
*
4318 GGC-TTGAAAGGATGCCACTGACTTGT-
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
* *
4344 GGCTTTG-AAGGGTGCCACTCAACTCGTG
1 GGCTTTGAAAGGGTGCCACT-GACTTGTG
*
4372 GCCTTTGAAAGGAG-GCCA-TGACTTGTG
1 GGCTTTGAAAGG-GTGCCACTGACTTGTG
4399 GGCTTTG-AAGGAGTGCCACTGACTT-TG
1 GGCTTTGAAAGG-GTGCCACTGACTTGTG
* * *
4426 GGCTTTGAAAGGAG-GGCGCTAAC-TGTGG
1 GGCTTTGAAAGG-GTGCCACTGACTTGT-G
*
4454 GTTGTTTTTGAAAGGAGTGCCACTGAC-T-T-
1 G--G-CTTTGAAAGG-GTGCCACTGACTTGTG
*
4483 ---TTTGAAAGGGTGCGCACTAACTTGT-
1 GGCTTTGAAAGGGTGC-CACTGACTTGTG
4508 GGCTTTGAAAGGAG-GCCACTGAC-TGTG
1 GGCTTTGAAAGG-GTGCCACTGACTTGTG
4535 GGCTTTGAAAGGGTGCCACTGAC--GTG
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
* *
4561 GGCTTTGAAAGAGTGGCACTGACTTGT-
1 GGCTTTGAAAGGGTGCCACTGACTTGTG
4588 GGCTTTGAAAAGGGTGCCACTGACTTGT-
1 GGCTTTG-AAAGGGTGCCACTGACTTGTG
4616 GGCTTTGAAAGGGT
1 GGCTTTGAAAGGGT
4630 TTGAACTCTA
Statistics
Matches: 644, Mismatches: 74, Indels: 163
0.73 0.08 0.19
Matches are distributed among these distances:
22 4 0.01
23 15 0.02
24 1 0.00
25 9 0.01
26 65 0.10
27 173 0.27
28 134 0.21
29 93 0.14
30 86 0.13
31 46 0.07
32 15 0.02
33 3 0.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (28 bp):
GGCTTTGAAAGGGTGCCACTGACTTGTG
Found at i:4495 original size:22 final size:24
Alignment explanation
Indices: 4458--4505 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
4448 CTGTGGGTTG
*
4458 TTTTTGAAAGGAGTGC-CACTGAC
1 TTTTTGAAAGGAGTGCGCACTAAC
4481 TTTTTGAAAGG-GTGCGCACTAAC
1 TTTTTGAAAGGAGTGCGCACTAAC
4504 TT
1 TT
4506 GTGGCTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
TTTTTGAAAGGAGTGCGCACTAAC
Found at i:6960 original size:71 final size:70
Alignment explanation
Indices: 6810--6942 Score: 187
Period size: 71 Copynumber: 1.9 Consensus size: 70
6800 TTAACTATAT
* * * * * *
6810 GTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCGATATATTC
1 GTATCGATACATTAAAAAATATACCGATACATCTAGGTAAAAAAACAGAATGAATCAATACATTC
6875 ATACA
66 ATACA
*
6880 TGTATCGATATATTAAAAAATATACCGATACATCTAGG-AAAAAAACAGAATGAATCAATACAT
1 -GTATCGATACATTAAAAAATATACCGATACATCTAGGTAAAAAAACAGAATGAATCAATACAT
6943 GTACTATTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
70 22 0.40
71 33 0.60
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (70 bp):
GTATCGATACATTAAAAAATATACCGATACATCTAGGTAAAAAAACAGAATGAATCAATACATTC
ATACA
Found at i:7167 original size:11 final size:11
Alignment explanation
Indices: 7151--7178 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7141 AAAAGTACTT
7151 TTTGAAATGGA
1 TTTGAAATGGA
7162 TTTGAAATGGA
1 TTTGAAATGGA
7173 TTTGAA
1 TTTGAA
7179 GTTCGTCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (11 bp):
TTTGAAATGGA
Found at i:8569 original size:28 final size:28
Alignment explanation
Indices: 7770--8784 Score: 786
Period size: 28 Copynumber: 36.3 Consensus size: 28
7760 CTCGGACATA
** *
7770 GGTGCCACCAACTTGTGTGGCTTTGAAAA-
1 GGTGCCACTGACTTGTG-GACTTT-AAAAG
*
7799 GGTGCCACTGACTTGT-GAGCTTCTGAAA-
1 GGTGCCACTGACTTGTGGA-CTT-TAAAAG
* * *
7827 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * *
7855 GGTGCCACTAACTTCTGGGCTTTGAAAA-
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
7883 GGTGCCACTGACTTGT-GAGCTTTGAAAA-
1 GGTGCCACTGACTTGTGGA-CTTT-AAAAG
*
7911 GGTGCCACTGACTTGTGGGCTTTGAAAA-
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
* *
7939 GGTGCCAGTGACTTGTAGG-CTTTGAAAAA
1 GGTGCCACTGACTTGT-GGACTTT-AAAAG
* * * *
7968 GATGCCACTAACTTGTGGGCTTTCGAAA-
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
*
7996 GGTGCCACTGACCTGTAGG-CTTTAAAAG
1 GGTGCCACTGACTTGT-GGACTTTAAAAG
* * * * *
8024 GATGCCACTGACTTATGGGCTTTGAGAGG
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
* * *
8053 GGTGCCATTGACTTGTGGGCTTTGACAAG
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
*
8082 GGTGCCACTGACTTGTGGGA-TTTGAAAG
1 GGTGCCACTGACTTGT-GGACTTTAAAAG
* *
8110 GGTGCCACTCACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
* *
8139 GGTGCCACTGACTTGT-GAGCTTTAGATG
1 GGTGCCACTGACTTGTGGA-CTTTAAAAG
* * *
8167 GGTGCCACCGACTTGTGGGCTTT-GAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* *
8194 GGTGCCACTGACTTATGGACTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* *
8222 GGTGCCACTGACTTGTGGGCTTTAAAAT
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * *
8250 GGTGCCACTGACTTGTGGGCTTTGAAAC
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * * *
8278 AGTGCCACTAACATGTGGGCTTTAAAAAG
1 GGTGCCACTGACTTGTGGACTTT-AAAAG
* *
8307 GGTGCCACTAACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * * * * *
8335 GATGTCATTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
*
8363 GGTGCCACTGACTTGTGGACTTCAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* *
8391 GATGCCACTGACTTGTGGACTTAAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* *
8419 GGTGCCACAGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* *
8447 GGTGCCAC-GAAGTTGTCGG-C-TTAGAAG
1 GGTGCCACTG-ACTTGT-GGACTTTAAAAG
*
8474 GGTGCCA-TGGAATTGTGGAC-TTAAAAG
1 GGTGCCACT-GACTTGTGGACTTTAAAAG
* * *
8501 GGTGCCACGGAGTTGTGCACTTT-AAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* *
8528 GGTGTCAC-GAAGTTGTGGACTTTAAAAG
1 GGTGCCACTG-ACTTGTGGACTTTAAAAG
* * * *
8556 GGTGCCACAGAGTTATGGGC-TTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * * *
8583 GGTGCCACAGAGTTATAGACTTTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * * * *
8611 GGTGCCACGGAGTTATAGACTTTAAAAA
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * *
8639 GGTGCCACAGAGTTGTCGACTTTAAAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
** * *
8667 GGTGCCACAAAGTTGTGGAC-TTAAAAA
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * *
8694 GGTGCCACGGAGTTCTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGACTTTAAAAG
* * **
8721 AGGTGCCACAGAGTTGCAGACTTT-AAA-
1 -GGTGCCACTGACTTGTGGACTTTAAAAG
*
8748 GGTGCCAC-GAAGTTGTGGACTTTAAAAG
1 GGTGCCACTG-ACTTGTGGACTTTAAAAG
8776 GGTGCCACT
1 GGTGCCACT
8785 ATTAGGACCT
Statistics
Matches: 834, Mismatches: 114, Indels: 76
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.00
26 22 0.03
27 156 0.19
28 513 0.62
29 140 0.17
30 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGACTTTAAAAG
Found at i:8664 original size:220 final size:222
Alignment explanation
Indices: 8303--8783 Score: 623
Period size: 220 Copynumber: 2.2 Consensus size: 222
8293 TGGGCTTTAA
* * * * * ** *
8303 AAAGGGTGCCACTAACTTGTGGGCTTTAAAAGGATGTCATTGACTTATGGGCTTTGAAAGGGTGC
1 AAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACAGACTTATGGGCTTTAAAAGGGTGC
* * * * * *
8368 CACTGACTTGTGGACTTCAAAAGGATGCCACTGACTTGTGGACTTAAAAAGGGTGCCACAGAGTT
66 CACAGACTTATAGACTTCAAAAGGATGCCACGGACTTATAGACTTAAAAAGGGTGCCACAGAGTT
* * * * * *
8433 GTGGACTTTAAAAGGGTGCCACGAAGTTGTCGG-CTTAGAAGGGTGCCATGGAATTGTGGACTTA
131 GTCGACTTTAAAAGGGTGCCACAAAGTTGT-GGACTTAAAAAGGTGCCACGGAATTCTGGACTTA
* *
8497 AAAG-GGTGCCACGGAGTTG-TGCACTTT
195 AAAGAGGTGCCACAGAGTTGCAG-ACTTT
* *
8524 AAAGGGTGTCACGAAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTATGGGC-TTAAAAGGGTGC
1 AAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACAGACTTATGGGCTTTAAAAGGGTGC
* * * *
8588 CACAGAGTTATAGACTTTAAAAGGGTGCCACGGAGTTATAGACTTTAAAAA-GGTGCCACAGAGT
66 CACAGACTTATAGACTTCAAAAGGATGCCACGGACTTATAGAC-TTAAAAAGGGTGCCACAGAGT
* *
8652 TGTCGACTTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGGAGTTCTGGACTTT
130 TGTCGACTTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGGAATTCTGGACTTA
8717 AAAGAGGTGCCACAGAGTTGCAGACTTT
195 AAAGAGGTGCCACAGAGTTGCAGACTTT
8745 AAA-GGTGCCACGAAGTTGTGGACTTTAAAAGGGTGCCAC
1 AAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGCCAC
8784 TATTAGGACC
Statistics
Matches: 225, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
219 2 0.01
220 150 0.67
221 72 0.32
222 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (222 bp):
AAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACAGACTTATGGGCTTTAAAAGGGTGC
CACAGACTTATAGACTTCAAAAGGATGCCACGGACTTATAGACTTAAAAAGGGTGCCACAGAGTT
GTCGACTTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGGAATTCTGGACTTAA
AAGAGGTGCCACAGAGTTGCAGACTTT
Found at i:14446 original size:13 final size:13
Alignment explanation
Indices: 14428--14452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14418 AGATTGCACA
14428 GTATCGATACATT
1 GTATCGATACATT
14441 GTATCGATACAT
1 GTATCGATACAT
14453 GACCAAATGT
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:14465 original size:20 final size:21
Alignment explanation
Indices: 14440--14490 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
14430 ATCGATACAT
**
14440 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
14460 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
14481 TGTATCGATA
1 TGTATCGATA
14491 TAGGTCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:14564 original size:13 final size:13
Alignment explanation
Indices: 14546--14571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14536 CACACAATAT
14546 GTATCGATACATC
1 GTATCGATACATC
14559 GTATCGATACATC
1 GTATCGATACATC
14572 ATAAAATGTA
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:14586 original size:33 final size:32
Alignment explanation
Indices: 14527--14590 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
14517 AGCCAAATTT
*
14527 GTATCGATACACACAATATGTATCGATACATC
1 GTATCGATACACACAAAATGTATCGATACATC
*
14559 GTATCGATACATCATAAAATGTATCGATACAT
1 GTATCGATACA-CACAAAATGTATCGATACAT
14591 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (32 bp):
GTATCGATACACACAAAATGTATCGATACATC
Found at i:22217 original size:13 final size:13
Alignment explanation
Indices: 22199--22223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22189 AGATTGCACA
22199 GTATCGATACATT
1 GTATCGATACATT
22212 GTATCGATACAT
1 GTATCGATACAT
22224 GACCAAATGT
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:22236 original size:20 final size:21
Alignment explanation
Indices: 22211--22263 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
22201 ATCGATACAT
**
22211 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
22231 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
22252 TGTATCGATACA
1 TGTATCGATACA
22264 GGTCATTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:22360 original size:33 final size:32
Alignment explanation
Indices: 22296--22363 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
22286 GTAACCAAAT
* *
22296 TTGTATCGATACACAGAATATGTATATATACA
1 TTGTATCGATACACAGAAAATGTATAGATACA
* *
22328 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CAGAAAATGTATAGATACA
22361 TTG
1 TTG
22364 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACAGAAAATGTATAGATACA
Found at i:23347 original size:13 final size:13
Alignment explanation
Indices: 23329--23354 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23319 CAGGGTAACT
23329 TTGTATCGATACA
1 TTGTATCGATACA
23342 TTGTATCGATACA
1 TTGTATCGATACA
23355 ACACTTATGT
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):
TTGTATCGATACA
Found at i:24254 original size:49 final size:49
Alignment explanation
Indices: 24184--24394 Score: 253
Period size: 49 Copynumber: 4.3 Consensus size: 49
24174 TTAGGAATGT
* * * * *
24184 TAAAGATGTCAATATGTTGATTCAAGGCCAACGATATCAGAGTTAAAGA
1 TAAAGATGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTTAAAGA
* * * * * * *
24233 TGAAGGTGTCAATGTACTGATTCAAGGCCAACGACATTGGTCTTAAAGA
1 TAAAGATGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTTAAAGA
* *
24282 TAAA-AGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGA
1 TAAAGA-TGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTTAAAGA
* *
24331 TAAAGATGCCAATGTGCTGATTTAAGGCCAGCGATATCGGACTTAAAGA
1 TAAAGATGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTTAAAGA
*
24380 TGAAGATGCCAATGT
1 TAAAGATGCCAATGT
24395 CCAATCCTTC
Statistics
Matches: 138, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
49 137 0.99
50 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (49 bp):
TAAAGATGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTTAAAGA
Found at i:24976 original size:59 final size:59
Alignment explanation
Indices: 24871--25138 Score: 274
Period size: 59 Copynumber: 4.6 Consensus size: 59
24861 TATTTTGATA
* * * **
24871 GGGGTCGCCTT-GTGGCGATCTCGA-TCTGAGTGACGTT-GCGTAACTTAGTGTCTGGGTT
1 GGGGTCGCCTTGGTGGCGATCT-GAGTTTGAGTGAC-TTGGCATCACTTAGTGTCTGAATT
* * * *
24929 GGGGTTGCCTTGGTGGTGATTTGAGTTTGAGTGACTAGGCATCACTTAGTGT-TCGAATT
1 GGGGTCGCCTTGGTGGCGATCTGAGTTTGAGTGACTTGGCATCACTTAGTGTCT-GAATT
* * * *
24988 GGGGTCACCTCGGTGGCGATCTAAGTTTGAGTGCCTTGGCATCACTTAGTGTCTGAATT
1 GGGGTCGCCTTGGTGGCGATCTGAGTTTGAGTGACTTGGCATCACTTAGTGTCTGAATT
* * * * ** *
25047 AGGGTCGCCTTAGTAGCTATCTGAGTTTGAGTGACTTGGTGTCACTTAGTTTCTGAATT
1 GGGGTCGCCTTGGTGGCGATCTGAGTTTGAGTGACTTGGCATCACTTAGTGTCTGAATT
* * *
25106 GGGTTCACTTTGGTGGCGATCTGAGTTTGAGTG
1 GGGGTCGCCTTGGTGGCGATCTGAGTTTGAGTG
25139 GAGTCGCATT
Statistics
Matches: 170, Mismatches: 35, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
58 14 0.08
59 155 0.91
60 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.35
Consensus pattern (59 bp):
GGGGTCGCCTTGGTGGCGATCTGAGTTTGAGTGACTTGGCATCACTTAGTGTCTGAATT
Found at i:25523 original size:20 final size:19
Alignment explanation
Indices: 25494--25532 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
25484 AGGTCAAAAC
25494 CCTTAAATGTAACGATACA
1 CCTTAAATGTAACGATACA
*
25513 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTAACGATACA
25533 TAATGTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (19 bp):
CCTTAAATGTAACGATACA
Found at i:25692 original size:20 final size:20
Alignment explanation
Indices: 25648--25699 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
25638 CTTAACTGTT
25648 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAGA
*
25667 TGTATCGATACATCCCAA-A
1 TGTATCGATACATCACAAGA
25686 CTGTATCGATACAT
1 -TGTATCGATACAT
25700 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAGA
Found at i:28988 original size:33 final size:33
Alignment explanation
Indices: 28945--29010 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
28935 TACACATTTA
28945 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
* * **
28978 ATTGTGTCGATACTTGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
29011 TTCAAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:29108 original size:20 final size:19
Alignment explanation
Indices: 29065--29115 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
29055 TAGCCAAACT
29065 TGTATCGATACACACAGTA
1 TGTATCGATACACACAGTA
*
29084 TGTATCGATACAC-CATTAAA
1 TGTATCGATACACACAGT--A
29104 TGTATCGATACA
1 TGTATCGATACA
29116 TTGGCCTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.10
19 13 0.45
20 13 0.45
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACACAGTA
Found at i:35247 original size:13 final size:14
Alignment explanation
Indices: 35229--35265 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
35219 AGCATTCTTT
35229 GTATCGATACAT-A
1 GTATCGATACATCA
*
35242 GTATCGATAC-TCT
1 GTATCGATACATCA
35255 GTATCGATACA
1 GTATCGATACA
35266 AGGGGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (14 bp):
GTATCGATACATCA
Found at i:38502 original size:19 final size:19
Alignment explanation
Indices: 38478--38545 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
38468 AATTCAACAA
38478 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
38497 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
38512 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
38529 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
38546 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:38517 original size:13 final size:13
Alignment explanation
Indices: 38499--38523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38489 ACATAAGTTT
38499 TGTATCGATACAA
1 TGTATCGATACAA
38512 TGTATCGATACA
1 TGTATCGATACA
38524 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38521 original size:32 final size:32
Alignment explanation
Indices: 38480--38542 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
38470 TTCAACAATT
*
38480 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
38512 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
38543 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:38603 original size:13 final size:13
Alignment explanation
Indices: 38585--38611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38575 CATTTTTCTG
38585 TGTATCGATACAT
1 TGTATCGATACAT
38598 TGTATCGATACAT
1 TGTATCGATACAT
38611 T
1 T
38612 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41839 original size:8 final size:8
Alignment explanation
Indices: 41826--41855 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
41816 TGGTTAAAAG
41826 AAATTGTT
1 AAATTGTT
*
41834 AAATTGTG
1 AAATTGTT
41842 AAATTGTT
1 AAATTGTT
41850 AAATTG
1 AAATTG
41856 CTTTATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (8 bp):
AAATTGTT
Found at i:41844 original size:16 final size:16
Alignment explanation
Indices: 41825--41855 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
41815 GTGGTTAAAA
41825 GAAATTGTTAAATTGT
1 GAAATTGTTAAATTGT
41841 GAAATTGTTAAATTG
1 GAAATTGTTAAATTG
41856 CTTTATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
GAAATTGTTAAATTGT
Found at i:42432 original size:20 final size:19
Alignment explanation
Indices: 42403--42441 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
42393 AAGTCAAAAC
*
42403 CCTTAAATGTATTGATACA
1 CCTTAAATGTATCGATACA
42422 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
42442 TAATGCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:44576 original size:13 final size:14
Alignment explanation
Indices: 44553--44582 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
44543 TACAAACAGT
44553 AAATGTATCGATAC
1 AAATGTATCGATAC
44567 AAAT-TATCGATAC
1 AAATGTATCGATAC
44580 AAA
1 AAA
44583 GCTACCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (14 bp):
AAATGTATCGATAC
Found at i:44626 original size:13 final size:13
Alignment explanation
Indices: 44608--44634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44598 GCCAAGGAAA
44608 TGTATCGATACAT
1 TGTATCGATACAT
44621 TGTATCGATACAT
1 TGTATCGATACAT
44634 T
1 T
44635 TGGGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56683 original size:20 final size:20
Alignment explanation
Indices: 56658--56762 Score: 84
Period size: 20 Copynumber: 5.6 Consensus size: 20
56648 TTTACCCAGA
*
56658 TGTATCGATACCTTT-TGCAT
1 TGTATCGATACATTTCT-CAT
56678 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
56698 TGTATCGAT--A-----CAT
1 TGTATCGATACATTTCTCAT
* *
56711 TGTATCGATACATTGCTCTT
1 TGTATCGATACATTTCTCAT
* *
56731 TGTATCAATACATTT-TACAA
1 TGTATCGATACATTTCT-CAT
56751 TGTATCGATACA
1 TGTATCGATACA
56763 ATCACGCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
13 12 0.17
15 1 0.01
18 1 0.01
19 1 0.01
20 53 0.77
21 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:56713 original size:13 final size:13
Alignment explanation
Indices: 56695--56725 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
56685 ATACATTTCT
56695 CATTGTATCGATA
1 CATTGTATCGATA
56708 CATTGTATCGATA
1 CATTGTATCGATA
56721 CATTG
1 CATTG
56726 CTCTTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:56717 original size:33 final size:33
Alignment explanation
Indices: 56675--56744 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
56665 ATACCTTTTG
* *
56675 CATTGTATCGATACATTTCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
*
56708 CATTGTATCGATACATTGCTCTTTGTATCAATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
56741 CATT
1 CATT
56745 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCAATA
Found at i:59120 original size:51 final size:51
Alignment explanation
Indices: 59040--59256 Score: 186
Period size: 51 Copynumber: 4.2 Consensus size: 51
59030 ATTTTTCATC
* * *
59040 TCGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAATCCCGATTTTATTTCCAAAACATCAATTTTTCTCAA
* * * * ** *
59091 TCGGGGATACT-CAAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAATC-CCGATTTTATTTCCAAAACATCAATTTTTCTCAA
* * * * * *
59142 CCGGGGATACTCCTAATCCCGGTTTGATCTCCACAACATCAATTTTTCTTAA
1 TCGGGGATACTCC-AATCCCGATTTTATTTCCAAAACATCAATTTTTCTCAA
* * * * * *
59194 TCGGGGATACTCCAA-CTCTGATTTTATTTTCAAAATACCAAATTTTCACAA
1 TCGGGGATACTCCAATC-CCGATTTTATTTCCAAAACATCAATTTTTCTCAA
*
59245 TTGGGGATACTC
1 TCGGGGATACTC
59257 TAACCCCGTC
Statistics
Matches: 126, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
50 5 0.04
51 82 0.65
52 36 0.29
53 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (51 bp):
TCGGGGATACTCCAATCCCGATTTTATTTCCAAAACATCAATTTTTCTCAA
Found at i:59251 original size:103 final size:103
Alignment explanation
Indices: 59041--59264 Score: 276
Period size: 103 Copynumber: 2.2 Consensus size: 103
59031 TTTTTCATCT
*
59041 CGGGGATACTCC-AATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCAA
1 CGGGGATACTCCTAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCAA
* * * *
59105 ACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAAC
66 ACTCCGATTTTATTTCTAAAACACCAATTTACCACAAC
* * *
59143 CGGGGATACTCCTAATCCCGGTTTGATCTCCACAACATCAATTTTTCTTAATCGGGGATACTCCA
1 CGGGGATACTCCTAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCAA
* * * *
59208 ACTCTGATTTTATTT-TCAAAATACCAAATTT-TCACAAT
66 ACTCCGATTTTATTTCT-AAAACACC-AATTTACCACAAC
* *
59246 TGGGGATACT-CTAACCCCG
1 CGGGGATACTCCTAATCCCG
59265 TCATTTCATC
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
102 21 0.20
103 80 0.76
104 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (103 bp):
CGGGGATACTCCTAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCAA
ACTCCGATTTTATTTCTAAAACACCAATTTACCACAAC
Found at i:59280 original size:28 final size:28
Alignment explanation
Indices: 59247--59318 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
59237 TTTCACAATT
* *
59247 GGGGATACTCTAACCCCGTCATTTCAT-C
1 GGGGATACTCCAACCCCGTCATTTC-TGA
*
59275 GGGGATACTCCAACCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTCATTTCTGA
59303 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
59319 TGGCTTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTCATTTCTGA
Found at i:59472 original size:51 final size:51
Alignment explanation
Indices: 59412--59530 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
59402 TTATTTTCGA
* * * *
59412 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATC
*
59463 GGGGATACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATC
*
59514 GGGGATACTCCAGCCCC
1 GGGGATACTCCAACCCC
59531 ATTATTTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACAATC
Found at i:59619 original size:52 final size:52
Alignment explanation
Indices: 59544--59663 Score: 134
Period size: 52 Copynumber: 2.3 Consensus size: 52
59534 ATTTTCATGA
* * * * *
59544 GGATACTCCAACCCCGGCCTTATTTCTAA-AGCATCAATTTTTTCACAATCGT
1 GGATACTCCAACCCCGACCTTATTTCTAAGAACACCAA-TTTTCCACAATCGG
* ** * *
59596 GGATACTCTAACCCCGATTTTATTTTTAAGAACACCAATTTTCCATAATCGG
1 GGATACTCCAACCCCGACCTTATTTCTAAGAACACCAATTTTCCACAATCGG
59648 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
59664 TTATTTTCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 50 0.89
53 6 0.11
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (52 bp):
GGATACTCCAACCCCGACCTTATTTCTAAGAACACCAATTTTCCACAATCGG
Found at i:59671 original size:132 final size:129
Alignment explanation
Indices: 59381--59710 Score: 419
Period size: 132 Copynumber: 2.5 Consensus size: 129
59371 CTGTTATGTC
* * * ** **
59381 ATCGGGGATACTCCCATCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTC-AGGGGATACTCCAACCCCGGCTTTATTTCTAAAGC
* *
59446 ACCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACA
65 ATCAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACA
* * * *
59511 ATCGGGGATACTCCAGCCCCATTATTTTCATGAGGATACTCCAACCCCGGCCTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTTCA-GGGGATACTCCAACCCCGGCTTTATTTCTAAAGC
* * * **
59576 ATCAATTTTTTCACAATCGTGGATACTCTAACCCCGATTTTATTTTTAAGAACACCAATTT-TCC
65 ATCAA-TTTTTCACAATCGGGGATACTCCAACCCCGATTTTAGTTCCAA-AACACCAATTTCT-C
*
59640 ATA
127 ACA
*
59643 ATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCCAACCCCAGCTTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTTCA-GGGGATACTCCAACCCCGGCTTTATTTCTAAAGC
59708 ATC
65 ATC
59711 TGAAAGCTCA
Statistics
Matches: 171, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
129 1 0.01
130 56 0.33
131 38 0.22
132 76 0.44
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (129 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCAGGGGATACTCCAACCCCGGCTTTATTTCTAAAGCA
TCAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTCTCACA
Found at i:60516 original size:32 final size:33
Alignment explanation
Indices: 60457--60518 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
60447 CAAGCCAATG
*
60457 TATCGATACATTTTGGGATGTATTGATACATTT
1 TATCGATACATCTTGGGATGTATTGATACATTT
*
60490 TATCGATACATCTTGTG-TGTATTGATACA
1 TATCGATACATCTTGGGATGTATTGATACA
60519 AACAATTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (33 bp):
TATCGATACATCTTGGGATGTATTGATACATTT
Found at i:60626 original size:21 final size:20
Alignment explanation
Indices: 60560--60680 Score: 79
Period size: 20 Copynumber: 6.0 Consensus size: 20
60550 GCCAAACACC
*
60560 TGTATCGATACATTCTTAACAA
1 TGTATCGATAC-TT-TTAAGAA
* * *
60582 -GTATCGATACATTT-GGTCA
1 TGTATCGATACTTTTAAG-AA
60601 TGTATCGATACTTGTTAAGAA
1 TGTATCGATACTT-TTAAGAA
** *
60622 TGTATCGATACTGTGCAA-TA
1 TGTATCGATACT-TTTAAGAA
* *
60642 TGTATCGATACATTTGAAG-G
1 TGTATCGATAC-TTTTAAGAA
60662 TGTATCGATACTTTTAAGA
1 TGTATCGATACTTTTAAGA
60681 GTTTTGACCA
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
19 9 0.12
20 38 0.49
21 28 0.36
22 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACTTTTAAGAA
Found at i:63112 original size:13 final size:13
Alignment explanation
Indices: 63094--63118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63084 ATAAACCCTT
63094 TGTATCGATACAA
1 TGTATCGATACAA
63107 TGTATCGATACA
1 TGTATCGATACA
63119 GAGAATGCTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:69286 original size:13 final size:13
Alignment explanation
Indices: 69268--69293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69258 CAATTTGGGA
69268 TGTATCGATACAT
1 TGTATCGATACAT
69281 TGTATCGATACAT
1 TGTATCGATACAT
69294 CTTGTGTGTA
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:69290 original size:33 final size:32
Alignment explanation
Indices: 69248--69311 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
69238 TACAAGCCAA
69248 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
69281 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
69312 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:69411 original size:13 final size:13
Alignment explanation
Indices: 69393--69417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69383 ACATTTGGTC
69393 ATGTATCGATACA
1 ATGTATCGATACA
69406 ATGTATCGATAC
1 ATGTATCGATAC
69418 TGTGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:82203 original size:9 final size:9
Alignment explanation
Indices: 82186--82231 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
82176 ATTCTTTTTC
82186 AAAAA-AAA
1 AAAAACAAA
82194 AAAAACAAA
1 AAAAACAAA
*
82203 AACAACAAA
1 AAAAACAAA
82212 AAAAAC-AA
1 AAAAACAAA
82220 AAAAACAAA
1 AAAAACAAA
82229 AAA
1 AAA
82232 CAAAACAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 13 0.38
9 21 0.62
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:82214 original size:20 final size:20
Alignment explanation
Indices: 82189--82246 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 20
82179 CTTTTTCAAA
82189 AAAAAAAAAACAAAAACAAC
1 AAAAAAAAAACAAAAACAAC
82209 --AAAAAAAACAAAAA-AAC
1 AAAAAAAAAACAAAAACAAC
82226 AAAAAACAAAACAGAAAACAA
1 AAAAAA-AAAACA-AAAACAA
82247 AACAAAGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.09
18 14 0.42
19 4 0.12
20 6 0.18
21 4 0.12
22 2 0.06
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAACAAAAACAAC
Found at i:82221 original size:24 final size:23
Alignment explanation
Indices: 82185--82276 Score: 78
Period size: 24 Copynumber: 3.7 Consensus size: 23
82175 CATTCTTTTT
82185 CAAAAAAAAAAAAACAAAAACAA
1 CAAAAAAAAAAAAACAAAAACAA
*
82208 CAAAAAAAACAAAAA-AACAAAAAA
1 CAAAAAAAA-AAAAACAA-AAACAA
82232 CAAAACAGAAAACAAAACAAAGAACAA
1 CAAAA-A-AAAA-AAAACAAA-AACAA
*
82259 TGAGAAAAAAAGAAAAAC
1 -CA-AAAAAAA-AAAAAC
82277 CTACTTAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
23 11 0.20
24 15 0.27
25 2 0.04
26 8 0.14
27 14 0.25
28 3 0.05
29 3 0.05
ACGTcount: A:0.80, C:0.13, G:0.05, T:0.01
Consensus pattern (23 bp):
CAAAAAAAAAAAAACAAAAACAA
Found at i:82221 original size:32 final size:32
Alignment explanation
Indices: 82185--82252 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
82175 CATTCTTTTT
82185 CAAAAAAA-AAAAAACAAAAACA-ACAAAAAAAA
1 CAAAAAAACAAAAAAC-AAAACAGA-AAAAAAAA
*
82217 CAAAAAAACAAAAAACAAAACAGAAAACAAAA
1 CAAAAAAACAAAAAACAAAACAGAAAAAAAAA
82249 CAAA
1 CAAA
82253 GAACAATGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.84, C:0.15, G:0.01, T:0.00
Consensus pattern (32 bp):
CAAAAAAACAAAAAACAAAACAGAAAAAAAAA
Found at i:82231 original size:27 final size:26
Alignment explanation
Indices: 82185--82248 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
82175 CATTCTTTTT
82185 CAAAAAA-AAAAAAACAAAAACAACAA
1 CAAAAAACAAAAAAACAAAAACAA-AA
82211 -AAAAAACAAAAAAACAAAAAACAAAA
1 CAAAAAACAAAAAAAC-AAAAACAAAA
*
82237 CAGAAAACAAAA
1 CAAAAAACAAAA
82249 CAAAGAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.18
26 10 0.29
27 18 0.53
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (26 bp):
CAAAAAACAAAAAAACAAAAACAAAA
Found at i:82243 original size:7 final size:6
Alignment explanation
Indices: 82188--82258 Score: 58
Period size: 6 Copynumber: 11.3 Consensus size: 6
82178 TCTTTTTCAA
*
82188 AAAAAA AAAAAC AAAAAC AACAAA- AAAAAC AAAAAAAC AAAAA- ACAAAAC
1 AAAAAC AAAAAC AAAAAC AA-AAAC AAAAAC --AAAAAC AAAAAC A-AAAAC
82238 AGAAAAC -AAAAC AAAGAAC AA
1 A-AAAAC AAAAAC AAA-AAC AA
82259 TGAGAAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
5 9 0.16
6 26 0.47
7 14 0.25
8 6 0.11
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:82257 original size:12 final size:11
Alignment explanation
Indices: 82185--82258 Score: 65
Period size: 12 Copynumber: 7.3 Consensus size: 11
82175 CATTCTTTTT
82185 CAAAA-AAAAA
1 CAAAACAAAAA
82195 -AAAACAAAAA
1 CAAAACAAAAA
82205 C--AAC-AAAA
1 CAAAACAAAAA
82213 -AAAACAAAAA
1 CAAAACAAAAA
*
82223 -AACA-AAAAA
1 CAAAACAAAAA
82232 CAAAACAGAAAA
1 CAAAACA-AAAA
82244 CAAAACAAAGAA
1 CAAAACAAA-AA
82256 CAA
1 CAA
82259 TGAGAAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
8 4 0.08
9 15 0.28
10 15 0.28
11 3 0.06
12 16 0.30
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (11 bp):
CAAAACAAAAA
Found at i:83503 original size:61 final size:56
Alignment explanation
Indices: 83343--83705 Score: 303
Period size: 55 Copynumber: 6.3 Consensus size: 56
83333 TTTCACCTTT
* * *
83343 CAGTCCTCAAAGAGCAGGACGCCTTTC--AAAGCCCACACAAGTTAGTGGCATTTTTTTT
1 CAGTCCTCAAAGAGCAGGACGCCTTTCTTAAAGCCCACACAAGTTGGTGGCA----CTTC
* * * * * *
83401 TAGTCCTAAAATAGCAGAATGCCTTTC--AAAGCTCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAGAGCAGGACGCCTTTCTTAAAGCCCACACAAGTTGGTGGCACTT-C
* *
83456 CAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGGACGCC-TTTC---TTAAAGCCCACACAAGTTGGTGGCA-CTTC
* * *
83517 CAATCCTCAAAGAGTAGGACGCC--TCTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACGCCTTTCTTAAAGCCCACACAAGTTGGTGGCA-CTTC
* *
83572 CAGTCCTCAAAGTGCAGGACGCCTTTC--AAAGCTCACACAAGTTGGTGGCACCTT-
1 CAGTCCTCAAAGAGCAGGACGCCTTTCTTAAAGCCCACACAAGTTGGTGGCA-CTTC
* * * * * * *
83626 TAGTCCTCAAAGAACAGGATGCCTTTTCCTTTCAAAGCCTACATAAGTTGGTGGTACCTC
1 CAGTCCTCAAAGAGCAGGACGCC-TTT-C-TT-AAAGCCCACACAAGTTGGTGGCACTTC
83686 CTAGTCCTCAAAGAGCAGGA
1 C-AGTCCTCAAAGAGCAGGA
83706 TGCACTTTAT
Statistics
Matches: 247, Mismatches: 40, Indels: 33
0.77 0.12 0.10
Matches are distributed among these distances:
54 21 0.09
55 91 0.37
56 5 0.02
57 2 0.01
58 45 0.18
59 2 0.01
60 19 0.08
61 59 0.24
62 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (56 bp):
CAGTCCTCAAAGAGCAGGACGCCTTTCTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:83575 original size:116 final size:109
Alignment explanation
Indices: 83343--83705 Score: 332
Period size: 116 Copynumber: 3.2 Consensus size: 109
83333 TTTCACCTTT
* * ** *
83343 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTTTTTTAGTCCT
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA----CCTTTAATCCT
* * * * * *
83408 AAAATAGCAGAATGCCT-TTCAAAGCTCACACAAGTTGGTGGCACTTCC
62 CAAAGAGTAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCACTTCC
83456 CAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAAT
1 CAGTCCTCAAAGAGCAGGACACC-TTTC-----AAAGCCCACACAAGTTGGTGGCACCTTT-AAT
* *
83521 CCTCAAAGAGTAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTC
59 CCTCAAAGAGTAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
* * * *
83572 CAGTCCTCAAAGTGCAGGACGCCTTTCAAAGCTCACACAAGTTGGTGGCACCTTTAGTCCTCAAA
1 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAATCCTCAAA
** * * * * *
83637 GAACAGGATGCCTTTTCCTTTCAAAGCCTACATAAGTTGGTGGTACCTCC
66 GAGTAGGACGCC---T-C-TT-AAAGCCCACACAAGTTGGTGGCACTTCC
*
83687 TAGTCCTCAAAGAGCAGGA
1 CAGTCCTCAAAGAGCAGGA
83706 TGCACTTTAT
Statistics
Matches: 208, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
109 18 0.09
110 27 0.13
112 1 0.00
113 23 0.11
114 6 0.03
115 46 0.22
116 63 0.30
117 2 0.01
119 22 0.11
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (109 bp):
CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAATCCTCAAA
GAGTAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:83579 original size:55 final size:55
Alignment explanation
Indices: 83339--83651 Score: 328
Period size: 55 Copynumber: 5.5 Consensus size: 55
83329 CTCCTTTCAC
*
83339 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTT
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA---T
* * * * * * *
83397 TTTTTAGTCCTAAAATAGCAGAATGCCTTTCAAAGCTCACACAAGTTGGTGGCA-
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAT
* * *
83451 CTTCCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCAT
* *
83513 CTTTCAATCCTCAAAGAGTAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCAT
1 CTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCAT
* * *
83568 -TTTCCAGTCCTCAAAGTGCAGGACGCCTTTCAAAGCTCACACAAGTTGGTGGCAC
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAT
* *
83623 CTTT-AGTCCTCAAAGAACAGGATGCCTTT
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTT
83652 TCCTTTCAAA
Statistics
Matches: 213, Mismatches: 30, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
54 29 0.14
55 83 0.39
56 7 0.03
58 46 0.22
60 1 0.00
61 44 0.21
62 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (55 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAT
Found at i:83708 original size:61 final size:61
Alignment explanation
Indices: 83422--83705 Score: 251
Period size: 61 Copynumber: 4.9 Consensus size: 61
83412 TAGCAGAATG
* * *
83422 CCTTTCAAAG-CTCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTCAAAGCCT-ACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
83483 CTTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTCAATCCTCAAAGAGTAGGACGCC---T
1 CCTTTCAAAGCCTACACAAGTTGGTGGCACCTCCT-AGTCCTCAAAGAGCAGGACGCCTTTT
* ** *
83541 -C-TT-AAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGTGCAGGACG------
1 CCTTTCAAAGCCTACACAAGTTGGTGGCA-CCTCCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
83593 CCTTTCAAAG-CTCACACAAGTTGGTGGCACCT-TTAGTCCTCAAAGAACAGGATGCCTTTT
1 CCTTTCAAAGCCT-ACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
83653 CCTTTCAAAGCCTACATAAGTTGGTGGTACCTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCTACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGA
83706 TGCACTTTAT
Statistics
Matches: 179, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
53 1 0.01
54 21 0.12
55 60 0.34
56 3 0.02
58 1 0.01
60 27 0.15
61 65 0.36
62 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (61 bp):
CCTTTCAAAGCCTACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:83883 original size:61 final size:62
Alignment explanation
Indices: 83757--83993 Score: 338
Period size: 61 Copynumber: 3.9 Consensus size: 62
83747 TCATTTCCTT
* * * *
83757 CTTTTCCCTTTTAAAGTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGC
1 CTTTT-CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGC
*
83820 CTTTTCCTTTCAAATCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGC
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGC
*
83881 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTTAAAGAGCAGGATGC
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGC
* ** *
83942 C-TTTCCTTTTCAAAGCCTACATGAGTTGGTGACACTTTT-TAGTCCTCAAAGA
1 CTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGA
83994 ATGGGACACA
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
60 5 0.03
61 120 0.75
62 30 0.19
63 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (62 bp):
CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGC
Found at i:84043 original size:42 final size:42
Alignment explanation
Indices: 83983--84172 Score: 161
Period size: 42 Copynumber: 4.4 Consensus size: 42
83973 ACACTTTTTA
***
83983 GTCCTCAAAGAATGGGACACACTTTATTTTCTTCTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCTTCTTTCCTTT
* **
84025 GTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCTTC-TTTC-C-TTT
* * * * *
84070 ATCCTCAAAGAGCAGGACGCATTTTATTTTTCCTCTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTA-TTTTCTTCTTTCCTTT
* * *
84113 GTCCTCAAAGAGCAGGAC-CA-TTTCGTTTTCCTTTTTTCCTTC
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTT-CTTCTTTCCTTT
*
84155 ATCCTCGAAA-AGCAGGAC
1 GTCCTC-AAAGAGCAGGAC
84173 GTGCTCTTTT
Statistics
Matches: 120, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
41 7 0.06
42 51 0.43
43 27 0.22
44 1 0.01
45 29 0.24
46 5 0.04
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTTCTTCTTTCCTTT
Found at i:84077 original size:45 final size:43
Alignment explanation
Indices: 83978--84130 Score: 141
Period size: 45 Copynumber: 3.5 Consensus size: 43
83968 TGGTGACACT
***
83978 TTTTAGTCCTCAAAGAATGGGACACACTTTATT-TTCTTCTT-TC
1 TTTTA-TCCTCAAAGAGCAGGACACACTTTATTCTTCTT-TTCTC
* * *
84021 CTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCTC
1 TTTTATCCTCAAAGAGCAGGACACACTTTATT--CTTCTTTTCTC
* * * *
84066 TTTTATCCTCAAAGAGCAGGACGCATTTTATTTTTCCTCTT-TC
1 TTTTATCCTCAAAGAGCAGGACACACTTTATTCTT-CTTTTCTC
*
84109 TTTTGTCCTCAAAGAGCAGGAC
1 TTTTATCCTCAAAGAGCAGGAC
84131 CATTTCGTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 23 0.25
43 28 0.31
44 6 0.07
45 34 0.37
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (43 bp):
TTTTATCCTCAAAGAGCAGGACACACTTTATTCTTCTTTTCTC
Found at i:84864 original size:20 final size:20
Alignment explanation
Indices: 84836--84942 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
84826 TTTACCCAGA
84836 TGTATCGATACATTT-TGCAT
1 TGTATCGATACATTTCT-CAT
*
84856 TGTACCGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
*
84876 TGTATTGATACA--T-T-A-
1 TGTATCGATACATTTCTCAT
* *
84891 --TATTGATACATTGCTCAT
1 TGTATCGATACATTTCTCAT
*
84909 TGTATCGATACATTT-TACAA
1 TGTATCGATACATTTCT-CAT
84929 TGTATCGATACATT
1 TGTATCGATACATT
84943 CAGGCATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 10 0.14
16 2 0.03
17 2 0.03
18 1 0.01
19 1 0.01
20 54 0.76
21 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:84894 original size:13 final size:13
Alignment explanation
Indices: 84873--84902 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84863 ATACATTTCT
*
84873 CATTGTATTGATA
1 CATTATATTGATA
84886 CATTATATTGATA
1 CATTATATTGATA
84899 CATT
1 CATT
84903 GCTCATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (13 bp):
CATTATATTGATA
Found at i:87206 original size:51 final size:50
Alignment explanation
Indices: 87143--87362 Score: 174
Period size: 51 Copynumber: 4.3 Consensus size: 50
87133 TTTTCATCTT
*
87143 GGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATC
1 GGGGATACTCCAA-CCCGATTTCATTTCCAAAACATCAATTTTTCTTAATC
* * * ** ** *
87194 GGGGATACTCCAACTCCGAATTT-ACTTT-TAAAGCATCGATTTACCGCAACC
1 GGGGATACTCCAAC-CCG-ATTTCA-TTTCCAAAACATCAATTTTTCTTAATC
* * * * *
87245 GAGGATACTCCAATCCTGGTTTCATCTCCACAACATCAATTTTTCTTAATC
1 GGGGATACTCCAA-CCCGATTTCATTTCCAAAACATCAATTTTTCTTAATC
* * * * * * * *
87296 GGGGATATTCCAACTCTGATTTTATTTTCAAAATACCAATTTTTCATAATT
1 GGGGATACTCCAAC-CCGATTTCATTTCCAAAACATCAATTTTTCTTAATC
87347 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
87363 CGTCATTTCA
Statistics
Matches: 127, Mismatches: 35, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
50 8 0.06
51 112 0.88
52 7 0.06
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTCATTTCCAAAACATCAATTTTTCTTAATC
Found at i:87353 original size:102 final size:102
Alignment explanation
Indices: 87131--87364 Score: 274
Period size: 102 Copynumber: 2.3 Consensus size: 102
87121 AAATTTCTAG
* *
87131 ATTTTTCAT-CTTGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCG
1 ATTTTTCATAATTGGGGATACTCCAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCG
* * *
87195 GGGATACTCCAACTCCGAATTTACTTTTAAAGCATCG
66 GGGATACTCCAACTCCGAATTTACTTTTAAAACACCA
** ** ** * * *
87232 ATTTACCGCAACCGAGGATACTCCAATCCTGGTTTCATCTCCACAACATCAATTTTTCTTAATCG
1 ATTTTTCATAATTGGGGATACTCCAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCG
* * * *
87297 GGGATATTCCAACTCTGATTTTA-TTTTCAAAATACCA
66 GGGATACTCCAACTCCGAATTTACTTTT-AAAACACCA
*
87334 ATTTTTCATAATTGGGGATACTCCAACCCCG
1 ATTTTTCATAATTGGGGATACTCCAATCCCG
87365 TCATTTCATC
Statistics
Matches: 104, Mismatches: 27, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
101 9 0.09
102 95 0.91
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (102 bp):
ATTTTTCATAATTGGGGATACTCCAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCG
GGGATACTCCAACTCCGAATTTACTTTTAAAACACCA
Found at i:87380 original size:28 final size:28
Alignment explanation
Indices: 87347--87418 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
87337 TTTCATAATT
*
87347 GGGGATACTCCAACCCCGTCATTTC-ATC
1 GGGGATACTCCAACCCCGTCATTTCTA-A
* *
87375 GGGGATACTCCAACCTCGTTATTTCTAA
1 GGGGATACTCCAACCCCGTCATTTCTAA
87403 GGGGATACTCC-ACCCC
1 GGGGATACTCCAACCCC
87419 TGGCTTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 4 0.10
28 34 0.87
29 1 0.03
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTCATTTCTAA
Found at i:87574 original size:50 final size:52
Alignment explanation
Indices: 87512--87624 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 52
87502 TTATTTTCGA
* * * *
87512 GGGGATACTCCAAC-CCCAATTTATTTCTAAAATACCAATTTTTCACAA-TC
1 GGGGATACTCCAACTCCCAATTTAGTTCCAAAACACCAATTTCTCACAATTC
* *
87562 GGGGATACTCCAACTCCGATTTTAGTTCCAAAACACCAATTTCTCACAATTC
1 GGGGATACTCCAACTCCCAATTTAGTTCCAAAACACCAATTTCTCACAATTC
87614 -GGGATACTCCA
1 GGGGATACTCCA
87625 GCCCTACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 14 0.25
51 39 0.71
52 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (52 bp):
GGGGATACTCCAACTCCCAATTTAGTTCCAAAACACCAATTTCTCACAATTC
Found at i:87782 original size:132 final size:130
Alignment explanation
Indices: 87481--87896 Score: 430
Period size: 132 Copynumber: 3.2 Consensus size: 130
87471 CCGTTATGTC
* * * **
87481 ATCGGGGATACTCCCATCTCGTTATTTTCGA-GGGGATACTCCAACCCCAATTTATTTCTAAA--
1 ATCGGGGATACTCCAACCCCGTTATTTTC-ACGGGGATACTCCAACCCCGCTTTATTTCTAAAGC
* * * * * ** *
87543 ATACCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTA-GTTCCAAAACACCAATTTCTC
65 AT-CGATTTTTTCACAATC-GGGATACTCTAACCCCGATTTTATTTTTTAGAACACCAATTT-TC
87607 ACA-A
127 -CATA
* * *** * *
87611 TTC-GGGATACTCCAGCCCTACTATTTTTACGAGGATACTCCAACCCCGGCTTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCCAACCCC-GCTTTATTTCTAAAGC
*
87675 ATTGATTTTTTCACAATCGGAGATACTCTAACCCCGATTTTATTTTTTAGAACACCAATTTTCCA
65 ATCGATTTTTTCACAATCGG-GATACTCTAACCCCGATTTTATTTTTTAGAACACCAATTTTCCA
87740 TA
129 TA
* *
87742 ATCGGGGATGCTCCAACCCCGTTATTTTCACGGGGATACTCCAACCCCAGCTTTGTTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCCAACCCC-GCTTTATTTCTAAAGC
* * ** *
87807 ATCGATTTTTTCCCAATCAGGGATACTCTAGCCCATATTTTATTTTTTAGAACACCGATTTTCCA
65 ATCGATTTTTTCACAATC-GGGATACTCTAACCCCGATTTTATTTTTTAGAACACCAATTTTCCA
87872 TA
129 TA
* * *
87874 ATCAGGGATACTCTAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
87897 GTTATCTTTA
Statistics
Matches: 236, Mismatches: 41, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
128 1 0.00
129 33 0.14
130 18 0.08
131 37 0.16
132 145 0.61
133 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (130 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCACGGGGATACTCCAACCCCGCTTTATTTCTAAAGCA
TCGATTTTTTCACAATCGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCAATTTTCCATA
Found at i:90666 original size:19 final size:18
Alignment explanation
Indices: 90640--90683 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
90630 TACCAAAGGC
90640 ATCTTTTGTCCAAAATTA
1 ATCTTTTGTCCAAAATTA
90658 ATCCTTTTGTCCAAAATTA
1 AT-CTTTTGTCCAAAATTA
90677 ATCTTTT
1 ATCTTTT
90684 TTGTCACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (18 bp):
ATCTTTTGTCCAAAATTA
Found at i:91487 original size:37 final size:37
Alignment explanation
Indices: 91446--91530 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
91436 TGCCACAATC
91446 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
* *
91483 ATGCATTTATGACATTCGTAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
91520 ACGCATTTGTG
1 ATGCATTTGTG
91531 CTTCATCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:91935 original size:29 final size:29
Alignment explanation
Indices: 91893--92159 Score: 282
Period size: 28 Copynumber: 9.4 Consensus size: 29
91883 ATTCCTCACC
91893 TTCAAAAGCCCACAAGTCAGTGGCAACTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* * *
91922 TTCAAAAGCCCACAAGTCAGTAGCACCCCT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACTT
*
91952 TTC-AAAGCCCACAAGTCAGTGGCAAC-C
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
*
91979 TTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* * **
92008 TTCAAAAGCCGACAAGTTAGTGGCGCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* *
92037 TTC-AAAGCCCACAAGTTAGTGGCACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
* *
92065 TTC-AAAGGCCACAAGTCAGTGGCAAC-C
1 TTCAAAAGCCCACAAGTCAGTGGCAACTT
*
92092 TTC-AAAGCCCACAAGGT-AGTGGCAAC-C
1 TTCAAAAGCCCACAA-GTCAGTGGCAACTT
* ** *
92119 TTCAAAAGCACACAAGTTGGT-GCAACCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CTT
92148 TTCAAAAGCCCA
1 TTCAAAAGCCCA
92160 TACAAGTTCG
Statistics
Matches: 207, Mismatches: 23, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
27 35 0.17
28 84 0.41
29 83 0.40
30 5 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACTT
Found at i:92016 original size:57 final size:57
Alignment explanation
Indices: 91893--92159 Score: 291
Period size: 57 Copynumber: 4.7 Consensus size: 57
91883 ATTCCTCACC
* * *
91893 TTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTAGCACCCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCA-CCTT
*
91952 TTC-AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTT
* * * *
92008 TTCAAAAGCCGACAAGTTAGTGGC-GCCTTTTC-AAAGCCCACAAGTTAGTGGCACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCACCTT
*
92065 TTC-AAAGGCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGGT-AGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAA-GTCAGTGGC-ACCTT
* **
92119 TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCCCA
92160 TACAAGTTCG
Statistics
Matches: 181, Mismatches: 17, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
54 7 0.04
55 35 0.19
56 32 0.18
57 78 0.43
58 26 0.14
59 3 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTT
Found at i:92143 original size:27 final size:28
Alignment explanation
Indices: 91890--92156 Score: 146
Period size: 29 Copynumber: 9.4 Consensus size: 28
91880 GACATTCCTC
*
91890 ACCTTCAAAAGCCCACAA-GTCAGTGGCA
1 ACCTTCAAAAGCACACAAGGT-AGTGGCA
* * *
91918 ACTTTTCAAAAGCCCACAA-GTCAGTAGCA
1 AC-CTTCAAAAGCACACAAGGT-AGTGGCA
* *
91947 CCCCTTTC-AAAGCCCACAA-GTCAGTGGCA
1 -ACC-TTCAAAAGCACACAAGGT-AGTGGCA
*
91976 ACCTTCAAAAGCCCACAA-GTCAGTGGCA
1 ACCTTCAAAAGCACACAAGGT-AGTGGCA
* * *
92004 TCTTTTCAAAAGC-CGACAAGTTAGTGGC-
1 AC-CTTCAAAAGCAC-ACAAGGTAGTGGCA
* * *
92032 GCCTTTTC-AAAGCCCACAAGTTAGTGGC-
1 ACC--TTCAAAAGCACACAAGGTAGTGGCA
*
92060 ACCTTTTCAAAGGC-CACAA-GTCAGTGGCA
1 ACC--TTCAAAAGCACACAAGGT-AGTGGCA
*
92089 ACCTTC-AAAGCCCACAAGGTAGTGGCA
1 ACCTTCAAAAGCACACAAGGTAGTGGCA
* *
92116 ACCTTCAAAAGCACACAAGTTGGT-GCA
1 ACCTTCAAAAGCACACAAGGTAGTGGCA
92143 ACCCTTTCAAAAGC
1 A-CC-TTCAAAAGC
92157 CCATACAAGT
Statistics
Matches: 203, Mismatches: 18, Indels: 35
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.02
27 29 0.14
28 82 0.40
29 83 0.41
30 5 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (28 bp):
ACCTTCAAAAGCACACAAGGTAGTGGCA
Found at i:92249 original size:49 final size:49
Alignment explanation
Indices: 92181--92416 Score: 292
Period size: 49 Copynumber: 4.8 Consensus size: 49
92171 GGCATCTTCT
* * *
92181 TTTAAGTCCAATATCGCTGGCCTTGACTCAGCATATTAGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATC
* * *
92230 TTTAAGTCCAATGTTGCTGGACTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATC
* * * *
92279 TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTAGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC--T-TCATC
* *
92331 TTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACCTTCACC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATC
* ** * *
92380 TCTAAACCCAATGTTGCTGGCCTTAAATCAGCACATT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
92417 GGTATTCTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 114 0.72
50 1 0.01
51 1 0.01
52 43 0.27
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCATC
Found at i:92373 original size:101 final size:98
Alignment explanation
Indices: 92181--92377 Score: 304
Period size: 101 Copynumber: 2.0 Consensus size: 98
92171 GGCATCTTCT
* * **
92181 TTTAAGTCCAATATCGCTGGCCTTGACTCAGCATATTAGCACCTTCATCTTTAAGTCCAATGTTG
1 TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTCCAATGTCA
*
92246 CTGGACTTGAATCAGCACATTGGCACCTTCATC
66 CTGGACTTGAATCAGCACATTAGCACCTTCATC
*
92279 TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTAGCACC--T-TCATCTTTAAGTCCAATG
*
92344 TCACTGGCCTTGAATCAGCACATTAGCACCTTCA
63 TCACTGGACTTGAATCAGCACATTAGCACCTTCA
92378 CCTCTAAACC
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 40 0.45
100 1 0.01
101 48 0.54
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (98 bp):
TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTCCAATGTCA
CTGGACTTGAATCAGCACATTAGCACCTTCATC
Found at i:92391 original size:101 final size:98
Alignment explanation
Indices: 92188--92412 Score: 297
Period size: 101 Copynumber: 2.3 Consensus size: 98
92178 TCTTTTAAGT
* **
92188 CCAATATCGCTGGCCTTGACTCAGCATATTAGCACCTTCATCTTTAAGTCCAATGTTGCTGGACT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTCCAATGTCACTGGACT
* * * **
92253 TGAATCAGCACATTGGCACCTTCATCTTTAAGT
66 TGAATCAGCACATTAGCACCTTCACCTCTAAAC
* *
92286 CCAATATCGCTGACCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGTCCAATGTCACTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACC--T-TCATCTTTAAGTCCAATGTCACTGG
*
92351 CCTTGAATCAGCACATTAGCACCTTCACCTCTAAAC
63 ACTTGAATCAGCACATTAGCACCTTCACCTCTAAAC
* * *
92387 CCAATGTTGCTGGCCTTAAATCAGCA
1 CCAATATCGCTGGCCTTGAATCAGCA
92413 CATTGGTATT
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 33 0.30
100 1 0.01
101 75 0.69
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (98 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTCCAATGTCACTGGACT
TGAATCAGCACATTAGCACCTTCACCTCTAAAC
Found at i:92431 original size:101 final size:101
Alignment explanation
Indices: 92188--92446 Score: 267
Period size: 101 Copynumber: 2.6 Consensus size: 101
92178 TCTTTTAAGT
* * * * * **
92188 CCAATATCGCTGGCCTTGACTCAGCATATTAGC-AC-CT-TCATCTTTAAGTCCAATGTTGCTGG
1 CCAATATCGCTGACCTTAAATCAGCACATTAGCGACTTTCTCATCTTTAAGTCCAATGTCACTGG
* * * **
92250 ACTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
66 ACTTGAATCAGCACATTAGCACCTTCACCTCTAAAC
* * * *
92286 CCAATATCGCTGACCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGTCCAATGTCACTGG
1 CCAATATCGCTGACCTTAAATCAGCACATTAGCGACTTTCTCATCTTTAAGTCCAATGTCACTGG
*
92351 CCTTGAATCAGCACATTAGCACCTTCACCTCTAAAC
66 ACTTGAATCAGCACATTAGCACCTTCACCTCTAAAC
* * * * *
92387 CCAATGTTGCTGGCCTTAAATCAGCACATT-G-GTATTCTTCTCATCTTTAAGTCTAATGTC
1 CCAATATCGCTGACCTTAAATCAGCACATTAGCG-ACT-TTCTCATCTTTAAGTCCAATGTC
92447 GAAGATCGTG
Statistics
Matches: 135, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
98 31 0.23
99 2 0.01
100 3 0.02
101 99 0.73
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (101 bp):
CCAATATCGCTGACCTTAAATCAGCACATTAGCGACTTTCTCATCTTTAAGTCCAATGTCACTGG
ACTTGAATCAGCACATTAGCACCTTCACCTCTAAAC
Found at i:92513 original size:52 final size:52
Alignment explanation
Indices: 92401--92521 Score: 124
Period size: 52 Copynumber: 2.3 Consensus size: 52
92391 TGTTGCTGGC
** *
92401 CTTAAATCAGCACATTGGTATTCTTCTCATCTTTAAGTCTAATGTCGAAGAT
1 CTTAAATCAGCACATTGACATTCTTCTCATCTTTAAGTCTAATATCGAAGAT
* *
92453 CGTGAATCAGCACATTGACATTCTT-TACATCTTTAAG-CTCAATATC-ACTAG-T
1 CTTAAATCAGCACATTGACATTCTTCT-CATCTTTAAGTCT-AATATCGA--AGAT
*
92505 CTTAAATCAGCATATTG
1 CTTAAATCAGCACATTG
92522 GCACCTTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
51 4 0.07
52 51 0.89
53 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (52 bp):
CTTAAATCAGCACATTGACATTCTTCTCATCTTTAAGTCTAATATCGAAGAT
Found at i:101875 original size:27 final size:27
Alignment explanation
Indices: 101837--101889 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
101827 GGGTGATGAC
*
101837 GATCATGCTTGGTGACCAGACCTAGGT
1 GATCATGCTTGGCGACCAGACCTAGGT
*
101864 GATCATGCTTGGCGACCAGATCTAGG
1 GATCATGCTTGGCGACCAGACCTAGG
101890 CAGTCATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (27 bp):
GATCATGCTTGGCGACCAGACCTAGGT
Found at i:101896 original size:27 final size:27
Alignment explanation
Indices: 101837--101897 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
101827 GGGTGATGAC
* *
101837 GATCATGCTTGGTGACCAGACCTAGGT
1 GATCATGCTTGGCGACCAGACCTAGGA
*
101864 GATCATGCTTGGCGACCAGATCTAGGCA
1 GATCATGCTTGGCGACCAGACCTAGG-A
101892 G-TCATG
1 GATCATG
101898 TGGCGATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (27 bp):
GATCATGCTTGGCGACCAGACCTAGGA
Found at i:109278 original size:20 final size:20
Alignment explanation
Indices: 109255--109327 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
109245 ACAATTCAAA
109255 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
109275 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
109296 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
109316 GTATCGATACAT
1 GTATCGATACAT
109328 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:109299 original size:21 final size:21
Alignment explanation
Indices: 109273--109348 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
109263 ACATGTTGCA
109273 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
109294 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
109314 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
109335 TTGTATCGATACAT
1 ATGTATCGATACAT
109349 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:109306 original size:41 final size:41
Alignment explanation
Indices: 109255--109348 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
109245 ACAATTCAAA
*
109255 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
109296 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
109337 GTATCGATACAT
1 GTATCGATACAT
109349 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:109405 original size:13 final size:13
Alignment explanation
Indices: 109387--109412 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109377 TACAGCAAGT
109387 ATGTATCGATACA
1 ATGTATCGATACA
109400 ATGTATCGATACA
1 ATGTATCGATACA
109413 CAAAAAATTG
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:111658 original size:13 final size:13
Alignment explanation
Indices: 111640--111665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111630 ATATTTTTTG
111640 TGTATCGATACAT
1 TGTATCGATACAT
111653 TGTATCGATACAT
1 TGTATCGATACAT
111666 ATTTTGTGTA
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:111676 original size:32 final size:33
Alignment explanation
Indices: 111619--111683 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
111609 TACAAGCCAA
111619 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
111653 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
111684 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:111677 original size:19 final size:19
Alignment explanation
Indices: 111619--111683 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
111609 TACAAGCCAA
111619 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
111640 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
111653 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
111672 TGTATCGATACA
1 TGTATCGATACA
111684 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:114231 original size:13 final size:13
Alignment explanation
Indices: 114213--114250 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
114203 TATAATCCCC
114213 TGTATCGATACAG
1 TGTATCGATACAG
*
114226 TGTATCGATACAT
1 TGTATCGATACAG
114239 TGTATCGATACA
1 TGTATCGATACA
114251 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:116353 original size:15 final size:15
Alignment explanation
Indices: 116333--116363 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
116323 ATTTCGTTTG
*
116333 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
116348 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
116363 G
1 G
116364 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:118195 original size:21 final size:21
Alignment explanation
Indices: 118166--118210 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
118156 AAGTTTTTAT
*
118166 TTTTCTTAG-CTAACTCATTA
1 TTTTCTTAGCCAAACTCATTA
*
118186 TTTTCATTAGCCAAATTCATTA
1 TTTTC-TTAGCCAAACTCATTA
118208 TTT
1 TTT
118211 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 4 0.19
22 12 0.57
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTCTTAGCCAAACTCATTA
Found at i:121570 original size:59 final size:59
Alignment explanation
Indices: 121478--121590 Score: 226
Period size: 59 Copynumber: 1.9 Consensus size: 59
121468 TATATGTGCT
121478 TCTTTGGTGTAAGAGTGATGACCTTTGACTCGATTCTAAAATTTACGAAAATACCTGCA
1 TCTTTGGTGTAAGAGTGATGACCTTTGACTCGATTCTAAAATTTACGAAAATACCTGCA
121537 TCTTTGGTGTAAGAGTGATGACCTTTGACTCGATTCTAAAATTTACGAAAATAC
1 TCTTTGGTGTAAGAGTGATGACCTTTGACTCGATTCTAAAATTTACGAAAATAC
121591 TCTTATGGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (59 bp):
TCTTTGGTGTAAGAGTGATGACCTTTGACTCGATTCTAAAATTTACGAAAATACCTGCA
Found at i:122183 original size:308 final size:310
Alignment explanation
Indices: 121573--122167 Score: 682
Period size: 308 Copynumber: 1.9 Consensus size: 310
121563 GACTCGATTC
* * * * **
121573 TAAAATTTACGAAAATACTCTTATGGGTATACCTTTGACATGAAAGTATCCCGGTATTCCTAAAA
1 TAAAATTTACAAAAATACCCTTAAGGGTATACCTTCGACATGAAAGTATCCCGGTACCCCTAAAA
* *
121638 GACTTAAAAAAATTATAGATAAGATGAACTTATCCTAAATACCCACCTTCAACATAAAAGCAGAC
66 GACTTAAAAAAATTATAGATAAGATGAACCTATCCTAAAGACCCACCTTCAACATAAAAGCAGAC
* * * * * *
121703 CCAATGACAACCTAGGAGTTGGTTCGAGGAAAATTAAGAAAATACCCTTAGGGGATACCTTTAAC
131 CCAATGACAACCAAGGACTTAGTTCGA-GAAAATGAACAAAATACCCTTAGGGGATACCTTCAAC
* * * * *
121768 GTAGAAGTGCTCGATACTCTTAAAGGACTTAAAAAGATTATAAAAGGAATGAACCTATCCTGAAT
195 GTAGAAGGGCCCAATACTCCTAAAGGACTTAAAAAGATTATAAAAGGAATGAACCTATCCTAAAT
* ** * *
121833 GCCCACTTTTGGCATAAAAGTGGACTCGACACAACCTAGGACTCAGTTCTA
260 GCCCACCTTCAGCATAAAAATGAACTCGACACAACCTAGGACTCAGTTCTA
* * **
121884 TAAAA-TTACAAAAATGCCCTTAAGGG-ATACCTTCGACGTGAAAGTATCTTGGTACCCCTAAAA
1 TAAAATTTACAAAAATACCCTTAAGGGTATACCTTCGACATGAAAGTATCCCGGTACCCCTAAAA
* * ** ** *
121947 GATTTAGAAAAATT-TAGATGGGATGAACCTATCCTAAAGACCCACCTTCGGCATAAAAGCGGAC
66 GACTTAAAAAAATTATAGATAAGATGAACCTATCCTAAAGACCCACCTTCAACATAAAAGCAGAC
* * ** * * * *
122011 CTAGTGACAACCAAGGACTTAGTTTTA-AAAATGATCAAAATGTCCC-TAGGGGATATCTTCGAC
131 CCAATGACAACCAAGGACTTAGTTCGAGAAAATGAACAAAAT-ACCCTTAGGGGATACCTTCAAC
* * *
122074 GTGGAAGGGCCCAATAAC-CCTAAAGGACTTAAAAAGGATTATAAAATGGGATGGACCTATCCTA
195 GTAGAAGGGCCCAAT-ACTCCTAAAGGACTTAAAAA-GATTATAAAA-GGAATGAACCTATCCTA
122138 AATG-CCACCTTCAGCATAAAAATGAACTCG
257 AATGCCCACCTTCAGCATAAAAATGAACTCG
122168 GTGATAACTT
Statistics
Matches: 234, Mismatches: 46, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
306 52 0.22
307 36 0.15
308 81 0.35
309 43 0.18
310 17 0.07
311 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (310 bp):
TAAAATTTACAAAAATACCCTTAAGGGTATACCTTCGACATGAAAGTATCCCGGTACCCCTAAAA
GACTTAAAAAAATTATAGATAAGATGAACCTATCCTAAAGACCCACCTTCAACATAAAAGCAGAC
CCAATGACAACCAAGGACTTAGTTCGAGAAAATGAACAAAATACCCTTAGGGGATACCTTCAACG
TAGAAGGGCCCAATACTCCTAAAGGACTTAAAAAGATTATAAAAGGAATGAACCTATCCTAAATG
CCCACCTTCAGCATAAAAATGAACTCGACACAACCTAGGACTCAGTTCTA
Found at i:122511 original size:142 final size:142
Alignment explanation
Indices: 122312--122672 Score: 354
Period size: 142 Copynumber: 2.5 Consensus size: 142
122302 AAAAAAGTTG
** * *** *
122312 TAAATTTT-A-AAAATCTCATTTCATACCTTAATGGAGAACCGAAAAGATGTGAAAAGTTTT-TA
1 TAAATTTTAAGAAAAT-TCATTTTGTACCTTAATGGAGAACCAAAAAGATACAAAAAGTTTTGAA
* * * * * * *
122374 GAATTTCTATACCAATACGGAGAACCATAGGAATA-TATAAATCTTGAAAAATTATGATAATAAT
65 G-ATTTCTATACCAATACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGAAAACAAT
122438 TTTTATTTAATTTTTT
129 TTTTATTTAA--TTTT
* * * *
122454 TAATTTTTAA-AAAATTTATTTTGTACCTTAATTGAGAACCAAAAATATACAAAAAGTTTTGAAG
1 TAAATTTTAAGAAAATTCATTTTGTACCTTAATGGAGAACCAAAAAGATACAAAAAGTTTTGAAG
* ** *
122518 ATTTTTATACCTTTATAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGAAAACAATTT
66 ATTTCTATACCAATACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGAAAACAATTT
*
122583 TTATTTGATTTT
131 TTATTTAATTTT
* ** * * * **
122595 TAAATTTTAAGAAAATTCATTTTGCACCTTAAGTAAAAAAACCAGAAAGATACGAAAAGTTTCAA
1 TAAATTTTAAGAAAATTCATTTTGTACCTTAA-T-GGAGAACCAAAAAGATACAAAAAGTTTTGA
122660 AGATTTCTATACC
64 AGATTTCTATACC
122673 CCTACGAATA
Statistics
Matches: 178, Mismatches: 35, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
141 13 0.07
142 88 0.49
143 43 0.24
144 34 0.19
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (142 bp):
TAAATTTTAAGAAAATTCATTTTGTACCTTAATGGAGAACCAAAAAGATACAAAAAGTTTTGAAG
ATTTCTATACCAATACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGAAAACAATTT
TTATTTAATTTT
Found at i:125189 original size:22 final size:22
Alignment explanation
Indices: 125164--125210 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
125154 GGTTCAGCTG
125164 AAAAAAA-GAGAGAAAAAAAGAA
1 AAAAAAAGGAGA-AAAAAAAGAA
125186 AAAAAAAGGAGAAAAAAAAGAA
1 AAAAAAAGGAGAAAAAAAAGAA
125208 AAA
1 AAA
125211 TGGAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAGGAGAAAAAAAAGAA
Found at i:125204 original size:12 final size:11
Alignment explanation
Indices: 125164--125210 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 11
125154 GGTTCAGCTG
125164 AAAAAAAGAGA
1 AAAAAAAGAGA
125175 GAAAAAAAGA-A
1 -AAAAAAAGAGA
125186 AAAAAAAGGAGA
1 AAAAAAA-GAGA
125198 AAAAAAAGA-A
1 AAAAAAAGAGA
125208 AAA
1 AAA
125211 TGGAAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.33
11 5 0.15
12 17 0.52
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:125303 original size:21 final size:22
Alignment explanation
Indices: 125263--125309 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
125253 GTAATCATTC
*
125263 TTTTCAATCTTGTTTCTTGCTA
1 TTTTCAATCTTGTTTCTTGCAA
125285 TTTTC-ATCTTTGTTT-TTGCAA
1 TTTTCAATC-TTGTTTCTTGCAA
125306 TTTT
1 TTTT
125310 GGCATGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTCAATCTTGTTTCTTGCAA
Found at i:134540 original size:21 final size:22
Alignment explanation
Indices: 134507--134552 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
134497 AAATTTTATT
134507 GAAAATAAATTTG-AAAAAGGG
1 GAAAATAAATTTGAAAAAAGGG
134528 GAAAA-AAATTTTGAAAAAAGGG
1 GAAAATAAA-TTTGAAAAAAGGG
134550 GAA
1 GAA
134553 GAAATTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (22 bp):
GAAAATAAATTTGAAAAAAGGG
Found at i:137189 original size:20 final size:20
Alignment explanation
Indices: 137164--137318 Score: 76
Period size: 20 Copynumber: 6.7 Consensus size: 20
137154 TTTTAACTAG
137164 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
137184 ATGTATTGATACATCTAGGTAAAAA
1 ATGTATCGATACAT-T--G--AAAA
* * *
137209 GATAGAATGTATCGATACATTCATAC
1 -AT-G--T--ATCGATACATTGAAAA
137235 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
137255 ATGTATCGATACATATGGGTAAAAGATGAA
1 ATGTATCGATACAT-T--G----A-A--AA
*
137285 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
137305 ATGTATCGATACAT
1 ATGTATCGATACAT
137319 CTGGGTAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 42
0.67 0.06 0.27
Matches are distributed among these distances:
20 55 0.53
21 2 0.02
22 2 0.02
23 3 0.03
24 1 0.01
25 6 0.06
26 4 0.04
27 3 0.03
28 1 0.01
29 2 0.02
30 16 0.15
31 9 0.09
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:137318 original size:70 final size:71
Alignment explanation
Indices: 137164--137318 Score: 224
Period size: 70 Copynumber: 2.2 Consensus size: 71
137154 TTTTAACTAG
* *
137164 ATGTATCGATACATTGAAAAATGTATTGATACATCTAGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAAAGATAGAATGTATCGATACAT
* *
137229 TCATAC
66 TCAAAA
* *
137235 ATGTATCGATACATTGAAAAATGTATCGATACATATGGGT-AAAAGAT-GAAATGTATTGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAAAGATAG-AATGTATCGATACA
*
137298 TTGAAAA
65 TTCAAAA
137305 ATGTATCGATACAT
1 ATGTATCGATACAT
137319 CTGGGTAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
69 1 0.01
70 38 0.50
71 37 0.49
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (71 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAAAGATAGAATGTATCGATACAT
TCAAAA
Found at i:137331 original size:24 final size:20
Alignment explanation
Indices: 137214--137318 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
137204 AAAAAGATAG
* *
137214 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
*
137234 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
137254 AATGTATCGATACATATGGGTAAAAGATGA
1 AATGTATCGATACAT-T--G----A-A--A
*
137284 AATGTATTGATACATTGAAA
1 AATGTATCGATACATTGAAA
137304 AATGTATCGATACAT
1 AATGTATCGATACAT
137319 CTGGGTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
20 46 0.67
21 1 0.01
22 1 0.01
23 2 0.03
27 2 0.03
28 1 0.01
29 1 0.01
30 15 0.22
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:138282 original size:32 final size:31
Alignment explanation
Indices: 138190--138293 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 31
138180 AAAGTGGTGA
* **
138190 TTTGAAAAGGGTTGCCACCGACTTGCATGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* * *
138222 TTTAAGAAAAAAG-TACCACTAACTTGTGTGGGC
1 TTT--GAAAAGAGTTGCCAC-GACTTGTGTGGGC
*
138255 TTTGAAAAGAGTTGCCATCGACTTGTGTAGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
138287 TTTGAAA
1 TTTGAAA
138294 GGGTATGCCA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
31 7 0.12
32 26 0.46
33 18 0.32
34 6 0.11
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
TTTGAAAAGAGTTGCCACGACTTGTGTGGGC
Found at i:138689 original size:28 final size:28
Alignment explanation
Indices: 138248--138689 Score: 403
Period size: 28 Copynumber: 15.5 Consensus size: 28
138238 CACTAACTTG
138248 TGTGGGCTTTGAAAAGAGTTGCCA-TCGACT
1 TGTGGGCTTTGAAAAGA--TGCCACT-GACT
* * *
138278 TGTGTAGGCTTTGAAAGGGTATGCCATTAACT
1 TGTG--GGCTTTGAAA-AG-ATGCCACTGACT
* * * * * *
138310 TATTGGTTTTGAAATGGTGCTACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
138338 TGTTGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
138366 TGTGGACTTTGAAATA-ATGCCACTGACT
1 TGTGGGCTTTGAAA-AGATGCCACTGACT
*
138394 TGCT-GGTTTTGAAAAGATGCCACTGACT
1 TG-TGGGCTTTGAAAAGATGCCACTGACT
* *
138422 TATGGGCTTTGAAATGATGCCACTTG-CT
1 TGTGGGCTTTGAAAAGATGCCAC-TGACT
* * *
138450 TGTGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
138478 TATGGGCTTTGAAAAGGGTGCCACTTG-CT
1 TGTGGGCTTTGAAAA-GATGCCAC-TGACT
* * * * * *
138507 TGTGGACTTTGGAAGGGTGTCACCGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
138535 TGTGGGC-TTAAAAATGGTGTCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
138563 TATGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
138591 TGTGGGCTTTGAAAAGATGCCACTAACC
1 TGTGGGCTTTGAAAAGATGCCACTGACT
138619 TGTGGGCTTT-AAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAA-AGATGCCACTGACT
*
138647 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
138675 TGTGGGCTTTGAAAA
1 TGTGGGCTTTGAAAA
138690 AGGTCGTATT
Statistics
Matches: 340, Mismatches: 54, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
27 12 0.04
28 256 0.75
29 34 0.10
30 15 0.04
32 20 0.06
33 2 0.01
34 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:151386 original size:20 final size:20
Alignment explanation
Indices: 151361--151485 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
151351 TTTTAACTAG
151361 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
151381 ATGTATCGATACATCTGGGTAAAAAGACACA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
151412 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
151432 ATGCATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
151452 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
151472 ATGTATCGATACAT
1 ATGTATCGATACAT
151486 CTAGGTAAAG
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 60 0.71
21 1 0.01
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 15 0.18
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:151461 original size:91 final size:90
Alignment explanation
Indices: 151361--151535 Score: 260
Period size: 91 Copynumber: 1.9 Consensus size: 90
151351 TTTTAACTAG
*
151361 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACACAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGT-AAAAGACACAATGTATCGATACAT
* *
151426 TGAAGAATGCATCGATACATTCATAC
65 TAAAAAATGCATCGATACATTCATAC
* ** *
151452 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAGGACGGAATGTATCGATATATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGACACAATGTATCGATACATT
* *
151517 AAAAAATGTATTGATACAT
66 AAAAAATGCATCGATACAT
151536 CTGGGTAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 36 0.48
91 39 0.52
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAGACACAATGTATCGATACATT
AAAAAATGCATCGATACATTCATAC
Found at i:152585 original size:33 final size:32
Alignment explanation
Indices: 152541--152605 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
152531 CACACCCAGA
* * *
152541 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCAATACATG-TGCATTGCATCGATACAT
*
152574 TGTATCAATACATGTTCATTGCATCGATACAT
1 TGTATCAATACATGTGCATTGCATCGATACAT
152606 GGACAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCAATACATGTGCATTGCATCGATACAT
Found at i:158345 original size:20 final size:22
Alignment explanation
Indices: 158315--158358 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
158305 TGATTTCCTG
158315 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
158336 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
158357 TG
1 TG
158359 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:158435 original size:19 final size:20
Alignment explanation
Indices: 158392--158442 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
158382 TACAAGCCAA
**
158392 TGTATCGATACATTTTTTGG
1 TGTATCGATACATACTTTGG
158412 TGTATCGATACATACTTT-G
1 TGTATCGATACATACTTTGG
158431 TGTATCGATACA
1 TGTATCGATACA
158443 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATACTTTGG
Found at i:159382 original size:164 final size:160
Alignment explanation
Indices: 159002--159470 Score: 538
Period size: 164 Copynumber: 2.9 Consensus size: 160
158992 CACGAAGATA
* * * * * * *
159002 AATTAATTTTTCAAAACT-ATTTACTATGAATTATATAATAATATTTGATAAATTTTAAAAATTA
1 AATTAATTTTTAAAAAATGATTTAATATAAAATAAATAATAATATTTCATAAATTTTAAAAATTA
* * * * * *
159066 AAAACCTAGAAAACTCCCAT-CGAAAACATTTACGGAGTAG-AAACTTCGTATTTTAAAAATAGA
66 AAAACCAAGAAAAATCTC-TCCAAAAACATTTACGGAGTAGAAAACTTCGTATTTCAAAAACAGA
*
159129 GAAATTTCAAAGAAAAAAATGAAAAACTCATG
130 GAAAATTC-AAGAAAAAAATGAAAAACTCATG
* * * **
159161 AATTAATTTTTAAAAAATGATTTAATATGAATTAAATAATAATATTTTAGGAATTTTAAAAATTA
1 AATTAATTTTTAAAAAATGATTTAATATAAAATAAATAATAATATTTCATAAATTTTAAAAATTA
*
159226 AAAACCAAGAAAAATCTCTCCAAAAACATTTACGGAGTAGAAAACTTCGTATTTCAAAAACAGGG
66 AAAACCAAGAAAAATCTCTCCAAAAACATTTACGGAGTAGAAAACTTCGTATTTCAAAAACAGAG
159291 AAAATTC-A-AAAAAAAT-AAAAAGCTCATG
131 AAAATTCAAGAAAAAAATGAAAAA-CTCATG
*
159319 AAAATTAGTGAATTTTTAAAAATTGATTTAATATAAAATAAATAATAATATTTCATAAATTTTAA
1 --AA-T--T-AATTTTTAAAAAATGATTTAATATAAAATAAATAATAATATTTCATAAATTTTAA
* * * * *
159384 AAAATAAAAACCAAGAAAAATCTCCCCAAAAACATTTACGGAGTAGAAAAC-TCTATATTTTAGA
60 AAATTAAAAACCAAGAAAAATCTCTCCAAAAACATTTACGGAGTAGAAAACTTC-GTATTTCAAA
** *
159448 AATTGAGAGAATTCAAGAAAAAA
124 AACAGAGAAAATTCAAGAAAAAA
159471 TAAAAAATTC
Statistics
Matches: 267, Mismatches: 30, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
157 5 0.02
158 14 0.05
159 18 0.07
160 77 0.29
161 28 0.10
163 3 0.01
164 115 0.43
165 1 0.00
166 6 0.02
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (160 bp):
AATTAATTTTTAAAAAATGATTTAATATAAAATAAATAATAATATTTCATAAATTTTAAAAATTA
AAAACCAAGAAAAATCTCTCCAAAAACATTTACGGAGTAGAAAACTTCGTATTTCAAAAACAGAG
AAAATTCAAGAAAAAAATGAAAAACTCATG
Found at i:161087 original size:11 final size:11
Alignment explanation
Indices: 161071--161100 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
161061 AAAAAGAGAG
161071 AAAGAAAAAAA
1 AAAGAAAAAAA
*
161082 AAAGAAAAAAG
1 AAAGAAAAAAA
161093 AAAGAAAA
1 AAAGAAAA
161101 GAGAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:161092 original size:18 final size:19
Alignment explanation
Indices: 161061--161111 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
161051 AAGTAGAGAG
*
161061 AAAAAGAGAGAAAGAAA-AA
1 AAAAAGA-AAAAAGAAAGAA
161080 AAAAAGAAAAAAGAAAGAA
1 AAAAAGAAAAAAGAAAGAA
*
161099 AAGAGAGAAAAAA
1 AA-AAAGAAAAAA
161112 TAGAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.29
19 11 0.39
20 9 0.32
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAGAA
Found at i:161116 original size:18 final size:17
Alignment explanation
Indices: 161062--161118 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
161052 AGTAGAGAGA
161062 AAAAGAGAGAAAGAAAA-
1 AAAAGAGAGAAA-AAAAG
* *
161079 AAAAAAGAAAAAAGAAAG
1 AAAAGAGAGAAAA-AAAG
161097 AAAAGAGAGAAAAAATAG
1 AAAAGAGAGAAAAAA-AG
161115 AAAA
1 AAAA
161119 ATTATGACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 15 0.45
18 17 0.52
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAGAGAGAAAAAAAG
Found at i:161296 original size:51 final size:51
Alignment explanation
Indices: 161232--161336 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
161222 TGATATGTTA
*
161232 CTTAGTTTATTTGGGTGTGTGATGAAATATGTGTATACTAGTGATTCAAGG
1 CTTAGTTTATTTGGGGGTGTGATGAAATATGTGTATACTAGTGATTCAAGG
*
161283 CTTAGTTTTTTTGGGGGTGTGATGAAATATGTGTATACTAGTGATTCAAGG
1 CTTAGTTTATTTGGGGGTGTGATGAAATATGTGTATACTAGTGATTCAAGG
161334 CTT
1 CTT
161337 GATAATGATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.42
Consensus pattern (51 bp):
CTTAGTTTATTTGGGGGTGTGATGAAATATGTGTATACTAGTGATTCAAGG
Found at i:162345 original size:143 final size:144
Alignment explanation
Indices: 162096--162390 Score: 377
Period size: 143 Copynumber: 2.1 Consensus size: 144
162086 AAATTTTGAA
* *
162096 AAAAC-TTTTTGTATTTTTTCGGTTCTTTATTAAGGTACAAAAAAAATTTTCTTAAAAAAATAAA
1 AAAACTTTTTTGTATCTTTTCGGTTCTCTATTAAGGTACAAAAAAAATTTTCTTAAAAAAATAAA
* * * * *
162160 AATAATATAAAAATTATTTTTTTAATTTTTCAAAATTTCTAATATTTCTAT-GATTTTTCGTAAG
66 AATAATATAAAAATTATTTCTTAAATTCTTCAAAATTTCTAATATTCCTATAG-TATTTCGTAAG
162224 GGTATAGAAATTTTC
130 GGTATAGAAATTTTC
** * *
162239 AAAACTTTTTTGTATCTTTTCGGTTCTCTATTAAGGTATGAAATAAATTTT-TTGAAAATTAA-A
1 AAAACTTTTTTGTATCTTTTCGGTTCTCTATTAAGGTACAAAAAAAATTTTCTT-AAAA-AAATA
* *
162302 AAATTAA-ATAAAAATTATTATCTTAAATTCTT-AAGATTTCTAATATTCCTATAGTATTTCGTA
64 AAAATAATATAAAAATTATT-TCTTAAATTCTTCAAAATTTCTAATATTCCTATAGTATTTCGTA
* *
162365 GGGGTGTAGAAATTTTC
128 AGGGTATAGAAATTTTC
162382 AAAACTTTT
1 AAAACTTTT
162391 CGTATCCCTT
Statistics
Matches: 132, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
143 69 0.52
144 61 0.46
145 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (144 bp):
AAAACTTTTTTGTATCTTTTCGGTTCTCTATTAAGGTACAAAAAAAATTTTCTTAAAAAAATAAA
AATAATATAAAAATTATTTCTTAAATTCTTCAAAATTTCTAATATTCCTATAGTATTTCGTAAGG
GTATAGAAATTTTC
Found at i:165300 original size:20 final size:22
Alignment explanation
Indices: 165259--165303 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
165249 GTTAAGTACA
165259 AATGTTTTTCAAGCATAAAAAT
1 AATGTTTTTCAAGCATAAAAAT
*
165281 AATG-TTTTCAAGTA-AAAAAT
1 AATGTTTTTCAAGCATAAAAAT
165301 AAT
1 AAT
165304 CCAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
AATGTTTTTCAAGCATAAAAAT
Found at i:165529 original size:13 final size:13
Alignment explanation
Indices: 165513--165548 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
165503 CATACTTAGA
* *
165513 ATCGATACGTTGT
1 ATCGATACATTAT
165526 ATCGATACATTAT
1 ATCGATACATTAT
165539 ATCGATACAT
1 ATCGATACAT
165549 AGTGAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
ATCGATACATTAT
Found at i:170681 original size:11 final size:11
Alignment explanation
Indices: 170663--170700 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
170653 GAAATTGAAG
170663 AAATTTGAGAA
1 AAATTTGAGAA
*
170674 AGATTTGA-AA
1 AAATTTGAGAA
170684 AAATTTGATGAA
1 AAATTTGA-GAA
170696 AAATT
1 AAATT
170701 GTTAGGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 9 0.39
11 7 0.30
12 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
AAATTTGAGAA
Found at i:170806 original size:13 final size:13
Alignment explanation
Indices: 170788--170814 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
170778 ATAGTAACTC
170788 ATGTATCGATACA
1 ATGTATCGATACA
170801 ATGTATCGATACA
1 ATGTATCGATACA
170814 A
1 A
170815 AGAACATTAT
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:181575 original size:19 final size:18
Alignment explanation
Indices: 181519--181576 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
181509 AAGGGGGATA
181519 AGATAATTGTTTAAGGGGG
1 AGATAA-TGTTTAAGGGGG
* *
181538 AGAT--TTTTTAAAGGAGG
1 AGATAATGTTT-AAGGGGG
181555 AGATAATCGTTTAAGGGGG
1 AGATAAT-GTTTAAGGGGG
181574 AGA
1 AGA
181577 ATTTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.13
17 10 0.32
19 14 0.45
20 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.29
Consensus pattern (18 bp):
AGATAATGTTTAAGGGGG
Done.