Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2307
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: 251760
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
File 1 of 2
Found at i:1336 original size:38 final size:38
Alignment explanation
Indices: 1285--1360 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
1275 ATGTATCGAT
*
1285 ACATTTCATAGTGTATCGACACATCTTGGCAAATTTGC
1 ACATTTCATAGTGTATCGACACATCTAGGCAAATTTGC
* *
1323 ACATTTTATAGTGTATCGATACATCTAGGCAAATTTGC
1 ACATTTCATAGTGTATCGACACATCTAGGCAAATTTGC
1361 CTGCATGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (38 bp):
ACATTTCATAGTGTATCGACACATCTAGGCAAATTTGC
Found at i:1489 original size:32 final size:32
Alignment explanation
Indices: 1448--1545 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
1438 GGCAGTAGCT
1448 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
1480 TACATTGTATCGAT--AAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
* *
1510 TAAATTGTATCG-TACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAAC-TTATGTATCGA
1542 TACA
1 TACA
1546 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
29 1 0.02
30 27 0.45
31 4 0.07
32 28 0.47
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:1500 original size:30 final size:30
Alignment explanation
Indices: 1448--1545 Score: 135
Period size: 30 Copynumber: 3.1 Consensus size: 30
1438 GGCAGTAGCT
1448 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGAT--AAAACTTATGTATCGA
1480 TACATTGTATCGATAAAACTTATGTATCGA
1 TACATTGTATCGATAAAACTTATGTATCGA
*
1510 TAAATTGTATCG-TACAACACTTTATGTATCGA
1 TACATTGTATCGATA-AA-AC-TTATGTATCGA
1542 TACA
1 TACA
1546 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 2 0.03
30 29 0.48
31 2 0.03
32 28 0.46
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (30 bp):
TACATTGTATCGATAAAACTTATGTATCGA
Found at i:1507 original size:17 final size:17
Alignment explanation
Indices: 1453--1513 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
1443 TAGCTTACAT
1453 TGTATCGATACAAAACTTA
1 TGTATCGAT--AAAACTTA
*
1472 TGTATCGAT---ACAT-
1 TGTATCGATAAAACTTA
1485 TGTATCGATAAAACTTA
1 TGTATCGATAAAACTTA
1502 TGTATCGATAAA
1 TGTATCGATAAA
1514 TTGTATCGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 9 0.25
14 3 0.08
16 3 0.08
17 12 0.33
19 9 0.25
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (17 bp):
TGTATCGATAAAACTTA
Found at i:1896 original size:43 final size:43
Alignment explanation
Indices: 1790--2007 Score: 249
Period size: 43 Copynumber: 4.9 Consensus size: 43
1780 TGACAAATGC
* *
1790 GCCAATATGCGGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--AAGGT
* * * *
1839 GCCTATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT
* * * *
1882 GACAATATGTTGATTCAAGGCCAGCGATATTGGACTTATAGGT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT
**
1925 GCCAATATGCTGATTCAAGGCCAGCGGTATTGGACTTAGAA-GT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTA-AAGGT
*
1968 GCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTAAA
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
2008 AGAAGATGCC
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.01
43 112 0.76
44 1 0.01
45 1 0.01
49 31 0.21
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGT
Found at i:2055 original size:31 final size:28
Alignment explanation
Indices: 2017--2073 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 28
2007 AAGAAGATGC
2017 CACCAACTTGTGTAGGCTTTTGAAAGGTTTG
1 CACCAACTTGTGT--GCTTTTG-AAGGTTTG
2048 CACCAACTTGTGTGCTTTTGAAGGTT
1 CACCAACTTGTGTGCTTTTGAAGGTT
2074 GCCATGCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 6 0.23
29 7 0.27
31 13 0.50
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (28 bp):
CACCAACTTGTGTGCTTTTGAAGGTTTG
Found at i:2084 original size:27 final size:28
Alignment explanation
Indices: 2022--2641 Score: 319
Period size: 29 Copynumber: 21.5 Consensus size: 28
2012 GATGCCACCA
**
2022 ACTTGTGTAGGCTTTTGAAAGGTTTG-CACCA
1 ACTTGTG--GGCTTTTG-AAGG-TTGCCACTG
*
2053 ACTTGTGTGCTTTTGAAGGTTGCCA-TG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* *
2080 CCTTGTGGGC-TTTGAAGGTTGTCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
*
2107 ACTTGTGGGC-TTTGAAAAGG-TGCCACTA
1 ACTTGTGGGCTTTTG--AAGGTTGCCACTG
* * *
2135 ACTTGTGGGCTTTTGAAAAGATACCACTG
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
**
2164 ACTTGTGGGC-TTTGAAATGGGTTGCCACCA
1 ACTTGTGGGCTTTTG-AA--GGTTGCCACTG
* *
2194 ACTTGTGTGAGC-TTTGAAATGATGCCACTG
1 ACTTGTG-G-GCTTTTG-AAGGTTGCCACTG
* ** *
2224 ACTTGTGGACTTTAAAATGGGTTGCCACCG
1 ACTTGTGGGCTTTTGAA--GGTTGCCACTG
* * * *
2254 ACTTGTGTGCTTCTCAAGGTTGCCATTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* * *
2282 ACTTGTGGGCTTTTGAAAAGATGCCACTA
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
** **
2311 ACTTGTGGGCTTTAAAATGGGTTGCCACCA
1 ACTTGTGGGCTTTTGAA--GGTTGCCACTG
* * *
2341 ACTTGTGTGAGC-ATTGAAATGATGCCACTG
1 ACTTGTG-G-GCTTTTG-AAGGTTGCCACTG
* * *
2371 ACTTGTGGAC-TTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
* * *
2399 ACTTGTGGGCTTTTGAAAAAGATACCACTG
1 ACTTGTGGGCTTTTG--AAGGTTGCCACTG
* * *
2429 ACTTGTGGGC-TTTGAAAAGATGCCACTA
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
* * * *
2457 ACTTGTGAGCTTTTGAAAAGATGCCACTA
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
** * *
2486 ACTTGTGGGCTTTAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* * * * *
2514 AGTTGTGGAC-TTTGAAAAGATGTCACTG
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
* * * *
2542 ACTTGTAGGCTTTTGAAAAGATGCCACAG
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
* *
2571 ACTTGTGAGC-TTTGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTG--AAGGTTGCCACTG
* * *
2600 ACTTATGGGCTTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
2629 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
2642 GAAAGGTGAG
Statistics
Matches: 478, Mismatches: 85, Indels: 54
0.77 0.14 0.09
Matches are distributed among these distances:
26 13 0.03
27 28 0.06
28 149 0.31
29 162 0.34
30 103 0.22
31 10 0.02
32 13 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (28 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTG
Found at i:2149 original size:29 final size:28
Alignment explanation
Indices: 2073--2645 Score: 562
Period size: 28 Copynumber: 19.9 Consensus size: 28
2063 TTTTGAAGGT
* * *
2073 TGCCA-TGCCTTGTGGGCTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2099 TGTCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
*
2127 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* * *
2156 TACCACTGACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA--AGA
** *
2186 TGCCACCAACTTGTGTGAGCTTTGAAATGA
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGA
* *
2216 TGCCACTGACTTGTGGACTTT-AAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAAA---GA
* * * * *
2246 TGCCACCGACTTGTGTGCTTCT-CAAGGT
1 TGCCACTGACTTGTGGGCTT-TGAAAAGA
*
2274 TGCCATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* *
2303 TGCCACTAACTTGTGGGCTTT-AAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAAA---GA
** * *
2333 TGCCACCAACTTGTGTGAGCATTGAAATGA
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGA
*
2363 TGCCACTGACTTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
2391 TGCCACTGACTTGTGGGCTTTTGAAAAAGA
1 TGCCACTGACTTGTGGGC-TTTG-AAAAGA
*
2421 TACCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2449 TGCCACTAACTTGTGAGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* *
2478 TGCCACTAACTTGTGGGCTTTAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2506 TGCCACTGAGTTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
2534 TGTCACTGACTTGTAGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
* * *
2563 TGCCACAGACTTGTGAGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAA-GA
*
2592 TGCCACTGACTTATGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGA
2621 TGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTGAAA
2646 GGTGAGAAAT
Statistics
Matches: 453, Mismatches: 69, Indels: 48
0.79 0.12 0.08
Matches are distributed among these distances:
26 4 0.01
27 22 0.05
28 160 0.35
29 141 0.31
30 105 0.23
31 5 0.01
32 13 0.03
33 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:2278 original size:147 final size:145
Alignment explanation
Indices: 2010--2617 Score: 609
Period size: 147 Copynumber: 4.2 Consensus size: 145
2000 GACTTAAAAG
* *
2010 AAGATGCCACCAACTTGTGTAGGCTTTTGAAA-GGTTTG-CACCAACTTGTGT--GCTTTTG-AA
1 AAGATGCCACTAACTTGTG--GGC-TTTGAAATGGGTTGCCACCAACTTGTGTGAGC-TTTGAAA
* * * * * * * *
2070 GGTTGCCA-TGCCTTGTGGGCTTTG-AAGGTTGTCACTGACTTGTGGGCTT-TGAAAAGGTGCCA
62 TGATGCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCT-AAAAGGTGCCA
*
2132 CTAACTTGTGGGCTTTTGAA
126 CTGACTTGTGGGCTTTTGAA
* *
2152 AAGATACCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
1 AAGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
* * * *
2217 GCCACTGACTTGTGGACTTT-AAAATGGGTTGCCACCGACTTGTGTGCTTCT-CAAGGTTGCCAT
66 GCCACTGACTTGTGGACTTTGAAAA---GATGCCACCGACTTGTGGGCTTCTAAAAGG-TGCCAC
2280 TGACTTGTGGGCTTTTGAA
127 TGACTTGTGGGCTTTTGAA
* *
2299 AAGATGCCACTAACTTGTGGGCTTTAAAATGGGTTGCCACCAACTTGTGTGAGCATTGAAATGAT
1 AAGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
* * * *
2364 GCCACTGACTTGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGATACCACTG
66 GCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCT--AAAAGGTGCCACTG
2429 ACTTGTGGGC-TTTGAA
129 ACTTGTGGGCTTTTGAA
* * * * * *
2445 AAGATGCCACTAACTTGTGAGCTTTTGAAA--AGATGCCACTAACTTGTG-G-GCTTTAAAAAGA
1 AAGATGCCACTAACTTGTGGGC-TTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGA
* * * * * * *
2506 TGCCACTGAGTTGTGGACTTTGAAAAGATGTCACTGACTTGTAGGCTTTTGAAAAGATGCCACAG
65 TGCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCT-AAAAGGTGCCACTG
*
2571 ACTTGTGAGC-TTTGAA
129 ACTTGTGGGCTTTTGAA
* * *
2587 AAGGGTGCCACTGACTTATGGGCTTTTGAAA
1 AA-GATGCCACTAACTTGTGGGC-TTTGAAA
2618 AGATGCCACT
Statistics
Matches: 402, Mismatches: 46, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
139 7 0.02
140 8 0.02
141 13 0.03
142 49 0.12
143 90 0.22
144 16 0.04
145 35 0.09
146 31 0.08
147 145 0.36
148 8 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (145 bp):
AAGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGAGCTTTGAAATGAT
GCCACTGACTTGTGGACTTTGAAAAGATGCCACCGACTTGTGGGCTTCTAAAAGGTGCCACTGAC
TTGTGGGCTTTTGAA
Found at i:2641 original size:58 final size:56
Alignment explanation
Indices: 2073--2645 Score: 562
Period size: 58 Copynumber: 9.9 Consensus size: 56
2063 TTTTGAAGGT
* * * * *
2073 TGCCA-TGCCTTGTGGGCTTTG-AAGGTTGTCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
2127 TGCCACTAACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA--AGA
** * * *
2186 TGCCACCAACTTGTGTGAGCTTTGAAATGATGCCACTGACTTGTGGACTTT-AAAATGGGT
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA---GA
* * * * * *
2246 TGCCACCGACTTGTGTGCTTCT-CAAGGTTGCCATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTT-TGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
* * ** * *
2303 TGCCACTAACTTGTGGGCTTT-AAAATGGGTTGCCACCAACTTGTGTGAGCATTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAA---GATGCCACTGACTTGTG-G-GCTTTGAAAAGA
*
2363 TGCCACTGACTTGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC-TTTG-AAAAGA
* * *
2421 TACCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGAGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
* * * *
2478 TGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTGAGTTGTGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * *
2534 TGTCACTGACTTGTAGGCTTTTGAAAAGATGCCACAGACTTGTGAGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GA
*
2592 TGCCACTGACTTATGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA
2646 GGTGAGAAAT
Statistics
Matches: 433, Mismatches: 63, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
54 5 0.01
55 10 0.02
56 34 0.08
57 124 0.29
58 139 0.32
59 36 0.08
60 77 0.18
61 8 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:3047 original size:37 final size:37
Alignment explanation
Indices: 3005--3089 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
2995 AAAGATGAAG
*
3005 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATCT
*
3042 CACAAATGCATCATGCAAAATGAACTGTTATGAATCT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATCT
3079 CACAAATGCAT
1 CACAAATGCAT
3090 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATCT
Found at i:4135 original size:9 final size:9
Alignment explanation
Indices: 4114--4176 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
4104 ATCCAGACCA
*
4114 TTTTTGTTG
1 TTTTTTTTG
*
4123 -TTTTTTTC
1 TTTTTTTTG
4131 TTTTTTTTG
1 TTTTTTTTG
4140 TTTTTTTTG
1 TTTTTTTTG
4149 TTTTGTTTT-
1 TTTT-TTTTG
4158 TTTTGGTTTTG
1 TTTT--TTTTG
4169 TTTTTTTT
1 TTTTTTTT
4177 TGTCTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 6 0.13
9 28 0.60
10 9 0.19
11 4 0.09
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4152 original size:15 final size:15
Alignment explanation
Indices: 4114--4176 Score: 78
Period size: 14 Copynumber: 4.3 Consensus size: 15
4104 ATCCAGACCA
4114 TTTTTGTTGTTT-TTT
1 TTTTTGTT-TTTGTTT
*
4129 TCTTT-TTTTTGTTT
1 TTTTTGTTTTTGTTT
4143 TTTTTG-TTTTGTTT
1 TTTTTGTTTTTGTTT
*
4157 TTTTTGGTTTTGTTT
1 TTTTTGTTTTTGTTT
4172 TTTTT
1 TTTTT
4177 TGTCTATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.07
14 23 0.53
15 17 0.40
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.86
Consensus pattern (15 bp):
TTTTTGTTTTTGTTT
Found at i:4157 original size:29 final size:29
Alignment explanation
Indices: 4114--4190 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
4104 ATCCAGACCA
*
4114 TTTTTGTTGTTTTTTTCTTT-TTTTTGTTT
1 TTTTTGTTGTTTTTTT-TTTGGTTTTGTTT
4143 TTTTTGTT-TTGTTTTTTTTGGTTTTGTTTT
1 TTTTTGTTGTT-TTTTTTTTGGTTTTG-TTT
*
4173 TTTTTGTCTATTTTTTTT
1 TTTTTGT-TGTTTTTTTT
4191 GCGGGGGACG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 5 0.12
29 18 0.43
30 10 0.24
31 7 0.17
32 2 0.05
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (29 bp):
TTTTTGTTGTTTTTTTTTTGGTTTTGTTT
Found at i:8015 original size:51 final size:51
Alignment explanation
Indices: 7910--8057 Score: 242
Period size: 51 Copynumber: 2.9 Consensus size: 51
7900 CGAAATATGA
7910 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTT-ATAGTGTATCGATACATCTGGGC
*
7962 AAATTTGCCTGTATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
***
8013 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAT-AGTGTATCGATACA
8058 ATGTATAGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 49 0.54
52 41 0.46
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTTATAGTGTATCGATACATCTGGGC
Found at i:8145 original size:18 final size:19
Alignment explanation
Indices: 8122--8170 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
8112 AGCGATACAT
*
8122 TGTATCAATACAA-ACTTA
1 TGTATCGATACAACACTTA
8140 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
8159 TGTATCGATACA
1 TGTATCGATACA
8171 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:8178 original size:32 final size:32
Alignment explanation
Indices: 8140--8202 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
8130 TACAAACTTA
8140 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
* * *
8172 TGTATCGATATAACATTTTTGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
8203 AATCATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:16717 original size:20 final size:20
Alignment explanation
Indices: 16692--16833 Score: 119
Period size: 20 Copynumber: 6.8 Consensus size: 20
16682 TTTTTACAAT
*
16692 TTGTATTGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
16712 TTGTATCGATATATTGTTCA
1 TTGTATCGATACATTGTTCA
16732 TTGTATCGATAC-TCTGGGTTTACTTAA
1 TTGTATCGATACAT-T--G-TT-C---A
*
16759 ATGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
*
16779 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
16799 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
* *
16819 ATGTATCGAAACATT
1 TTGTATCGATACATT
16834 CAGGCATTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
19 2 0.02
20 77 0.76
21 1 0.01
22 1 0.01
23 5 0.05
24 1 0.01
27 13 0.13
28 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:20779 original size:4 final size:4
Alignment explanation
Indices: 20772--20798 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20762 ATGAATAGCA
20772 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
20799 AATGAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:24145 original size:22 final size:23
Alignment explanation
Indices: 24117--24168 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
24107 CATGTTAAAT
24117 ATGCATGAAACATAAT-AAAAAA
1 ATGCATGAAACATAATAAAAAAA
24139 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
24162 ATGCATG
1 ATGCATG
24169 GTCAAAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:25126 original size:20 final size:20
Alignment explanation
Indices: 25079--25153 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
25069 AAAAAGACAT
*
25079 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
25098 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
25119 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
25139 AATGTATCGATACAT
1 AATGTATCGATACAT
25154 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:25147 original size:40 final size:39
Alignment explanation
Indices: 25076--25153 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
25066 GGTAAAAAGA
* *
25076 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
25115 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
25154 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:32833 original size:22 final size:23
Alignment explanation
Indices: 32805--32860 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
32795 TGGACATGTT
32805 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
32827 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
32850 AAAAATGCATG
1 AAAAATGCATG
32861 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:33819 original size:20 final size:20
Alignment explanation
Indices: 33772--33846 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
33762 AAAAGGACAT
*
33772 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
33791 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
33812 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
33832 AATGTATCGATACAT
1 AATGTATCGATACAT
33847 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:33840 original size:40 final size:39
Alignment explanation
Indices: 33769--33846 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
33759 GGTAAAAGGA
* *
33769 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
33808 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
33847 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:42726 original size:52 final size:52
Alignment explanation
Indices: 42656--42776 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
42646 GAAAATTTAT
*
42656 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* * *
42708 TTGCATGTATCGCTACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
42760 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
42777 AAGATTGGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:42789 original size:52 final size:52
Alignment explanation
Indices: 42656--42794 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 52
42646 GAAAATTTAT
* *
42656 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACAATTATTAGTGTATCGATACATCTGGGCAAATTTGC
* * * *
42708 TTGCATGTATCGCTAC-ATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACAATTAT-TAGTGTATCGATACATCTGGGCAAATTTGC
** *
42760 CTGCATGTATCGATACAAAGATTGGTGTATCGATA
1 CTGCATGTATCGATACAATTATTAGTGTATCGATA
42795 TAATGTATCG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
51 2 0.03
52 68 0.94
53 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACAATTATTAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:42878 original size:20 final size:19
Alignment explanation
Indices: 42849--42917 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
42839 GCAGTAGCTT
42849 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
*
42868 AAATATGTATCAATAC----
1 AAAT-TGTATCGATACAAAA
42884 --ATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
42901 AAATATGTATCGATACA
1 AAAT-TGTATCGATACA
42918 TTGTATCGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.25
14 2 0.05
19 6 0.15
20 22 0.55
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:42893 original size:33 final size:33
Alignment explanation
Indices: 42851--42983 Score: 185
Period size: 33 Copynumber: 4.0 Consensus size: 33
42841 AGTAGCTTAA
*
42851 ATTGTATCGATACAAAAAAATATGTATCAATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
42884 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
42917 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
42950 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
42983 A
1 A
42984 AATCGTTGAA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 95 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:42924 original size:13 final size:13
Alignment explanation
Indices: 42906--42963 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
42896 CAAAAAAATA
42906 TGTATCGATACAT
1 TGTATCGATACAT
42919 TGTATCGATACAACATTTT
1 TGTATCGAT---ACA---T
42938 ATGTATCGATACAT
1 -TGTATCGATACAT
42952 TGTATCGATACA
1 TGTATCGATACA
42964 ACATTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42944 original size:20 final size:20
Alignment explanation
Indices: 42919--42984 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
42909 ATCGATACAT
42919 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
42939 TGTATCGAT---ACA---T-
1 TGTATCGATACAACATTTTA
42952 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
42972 TGTATCGATACAA
1 TGTATCGATACAA
42985 ATCGTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 22 0.56
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAACATTTTA
Found at i:44078 original size:49 final size:49
Alignment explanation
Indices: 43868--44524 Score: 902
Period size: 49 Copynumber: 13.7 Consensus size: 49
43858 AAAATGATGT
*
43868 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
*
43920 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
43963 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
44011 CAATGTGATGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
44060 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
44109 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
44158 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
44207 CAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
44256 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
44299 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
44348 CAATATGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
44397 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
44440 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
44489 CAATATGCTGATTCAAGGCCAACTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
44525 GAAGGGTTGC
Statistics
Matches: 540, Mismatches: 46, Indels: 41
0.86 0.07 0.07
Matches are distributed among these distances:
43 118 0.22
45 2 0.00
47 2 0.00
48 47 0.09
49 338 0.63
52 33 0.06
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:44354 original size:141 final size:142
Alignment explanation
Indices: 43868--44524 Score: 979
Period size: 141 Copynumber: 4.6 Consensus size: 142
43858 AAAATGATGT
* *
43868 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
* *
43933 CAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
63 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
43992 GGACTTAAAGGTGAGGTGC
128 GGACTTAAA----AGGTGC
* * * *
44011 CAATGTGATGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
44076 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
66 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
44141 CTTAATGGTGAAGGTGC
131 CTTAA-----AAGGTGC
* *
44158 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
44223 GGCTAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
66 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
44288 CTT-AAAGGTGC
131 CTTAAAAGGTGC
44299 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * *
44364 GGCCAGTTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
66 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
44429 CTT-AAAGGTGC
131 CTTAAAAGGTGC
44440 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
44505 GGCCAACTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
44525 GAAGGGTTGC
Statistics
Matches: 473, Mismatches: 30, Indels: 24
0.90 0.06 0.05
Matches are distributed among these distances:
140 38 0.08
141 222 0.47
142 1 0.00
143 38 0.08
144 1 0.00
146 43 0.09
147 129 0.27
151 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (142 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
CTTAAAAGGTGC
Found at i:44566 original size:33 final size:33
Alignment explanation
Indices: 44524--44644 Score: 201
Period size: 33 Copynumber: 3.7 Consensus size: 33
44514 TATTGGGCTT
*
44524 AGAAGGGTTGCCACCGACTTGTGTGAGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
44557 AGAATGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
44589 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
44622 AAGAA-GGTTGCCACCGACTTGTG
1 -AGAAGGGTTGCCACCGACTTGTG
44645 GACTTAAAAG
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
32 31 0.37
33 48 0.58
34 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:44605 original size:65 final size:63
Alignment explanation
Indices: 44517--44644 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 63
44507 CCAACTATAT
44517 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGAGCTTTAG-AGAATGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGAGCTTTAGAAGAA-GGTTGCCACCGACTTGTG
*
44580 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGAGCTTTAGAAGAAGGTTGCCACCGACTTGTG
44645 GACTTAAAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
63 5 0.08
64 2 0.03
65 50 0.82
66 4 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (63 bp):
TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGAGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:44791 original size:34 final size:31
Alignment explanation
Indices: 44625--45210 Score: 285
Period size: 34 Copynumber: 18.6 Consensus size: 31
44615 GCTTTAGAAG
* * *
44625 AAGGTTGCCACCGACTTGTGGACTTAAAAGGAA
1 AAGG-TGCCACGGAGTTGTGGGCTT-AAAGGAA
* *
44658 AAGAGTGCCACGTAGTTGTGGGCTTTAAAGCAAAA
1 AAG-GTGCCACGGAGTTGTGGGC-TTAAAG--GAA
* *
44693 AAGGGTGCCACTGGAGTCGTGGACTT--A--AA
1 AA-GGTGCCAC-GGAGTTGTGGGCTTAAAGGAA
44722 AAGGTGCCACGGAGTTGTGGGCTTAAACGG--
1 AAGGTGCCACGGAGTTGTGGGCTTAAA-GGAA
*
44752 -A--TGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTA-AAGGAA
* *
44781 AACGAGTGCCACGAAGTTGTGGGCTT-TA--AA
1 AA-G-GTGCCACGGAGTTGTGGGCTTAAAGGAA
* * * ** * *
44811 AGGGTGCCACGAAGTTGTGGACTTTGATGAG
1 AAGGTGCCACGGAGTTGTGGGCTTAAAGGAA
* *
44842 AAGGTGCCACTGAGTTGTGGACTT--A--AA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAGGAA
*
44869 AGGGTGCCACGGAGTTGTGGGCTTAAACGGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTAAA--GGAA
* *
44902 AAGAGTGCCACGGAGCTGTGGGCTTTAAAAAGAAA
1 AAG-GTGCCACGGAGTTGTGGGC-TT--AAAGGAA
* *
44937 AAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGC-TT--AAAGGAA
* *
44971 AAGGTGCCATGGAGTTGTGGACTTAAAGATGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAG--G-AA
*
45005 AAAGTGCCACGGAGTTGTGGGCTT--A-G-A
1 AAGGTGCCACGGAGTTGTGGGCTTAAAGGAA
* *
45032 AGGGTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAG--G-AA
* * *
45066 AAAGTGTCACAGAGTTGTGGGCTT--A--AA
1 AAGGTGCCACGGAGTTGTGGGCTTAAAGGAA
* *
45093 AGGGTGCCACGGAGTTGTGGGCTTTGAAA--AG
1 AAGGTGCCACGGAGTTGTGGGC-TT-AAAGGAA
* ** *
45124 AAGGTGCCAC-AAGGTCATGGACTTTAAAAGGGAAA
1 AAGGTGCCACGGA-GTTGTGGGC-TT-AAA-GG-AA
45159 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAGG--
1 AAG-GTGCCACGGAGTTGTGGGC-TT-AAAGGAA
*
45191 AAGGTGCCACGGAGTCGTGG
1 AAGGTGCCACGGAGTTGTGG
45211 ACTTTGAGCA
Statistics
Matches: 437, Mismatches: 63, Indels: 108
0.72 0.10 0.18
Matches are distributed among these distances:
27 98 0.22
28 32 0.07
29 12 0.03
30 5 0.01
31 65 0.15
32 7 0.02
33 28 0.06
34 130 0.30
35 27 0.06
36 29 0.07
37 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (31 bp):
AAGGTGCCACGGAGTTGTGGGCTTAAAGGAA
Found at i:44877 original size:120 final size:115
Alignment explanation
Indices: 44625--44931 Score: 337
Period size: 120 Copynumber: 2.5 Consensus size: 115
44615 GCTTTAGAAG
* * * *
44625 AAGGTTGCCACCGACTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGCA
1 AAGGATGCCACGGAGTTGTGGACTT-AAAGGAAAAGAGTGCCACGAAGTTGTGGGCTTT------
* *
44690 AAAAAGGGTGCCACTGGAGTCGTGGACTTAAAAAGGTGCCACGGAGTTGTGGGCTTAA
59 -AAAAGGGTGCCACTGAAGTCGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAA
*
44748 ACGGATGCCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACGAAGTTGTGGGCTTTAAAAG
1 AAGGATGCCACGGAGTTGTGGACTTA-AAGGAAAA-GAGTGCCACGAAGTTGTGGGCTTTAAAAG
* * *
44813 GGTGCCAC-GAAGTTGTGGACTTTGATGAGAAGGTGCCACTGAGTTGTGGACTTAA
64 GGTGCCACTGAAGTCGTGGAC-TT-A--AAAAGGTGCCACGGAGTTGTGGACTTAA
* * * *
44868 AAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTTTAAAA
1 AAGGATGCCACGGAGTTGTGGACTTAAA--GGAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA
44932 AGAAAAAGGT
Statistics
Matches: 161, Mismatches: 15, Indels: 19
0.83 0.08 0.10
Matches are distributed among these distances:
116 10 0.06
117 15 0.09
118 1 0.01
119 2 0.01
120 74 0.46
121 6 0.04
122 1 0.01
123 29 0.18
124 23 0.14
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.22
Consensus pattern (115 bp):
AAGGATGCCACGGAGTTGTGGACTTAAAGGAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAGGG
TGCCACTGAAGTCGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAA
Found at i:44971 original size:68 final size:68
Alignment explanation
Indices: 44866--45189 Score: 233
Period size: 61 Copynumber: 5.0 Consensus size: 68
44856 TTGTGGACTT
* * ** *
44866 AAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTTTAAA
1 AAAAAGGTGCCACGAAGTTGTGGGCTTAAA-AAGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
44931 -AAG
65 GAAG
* *
44934 AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAA-AGGTGCCATGGAGTTGTGGAC-TTAA
1 AAAAAGGTGCCACGAAGTTGTGGGC-TTAAAAAGAAAAGA-GTGCCACGGAGTTGTGGGCTTTAA
*
44997 AGATG
64 AGAAG
* * * *
45002 AAAAAAGTGCCACGGAGTTGTGGGCTT----AG--AAGGGTGCCACGGAGTTGTGGAC-TTAAAG
1 AAAAAGGTGCCACGAAGTTGTGGGCTTAAAAAGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAG
*
45060 ATG
66 AAG
* *
45063 AAAAAAGTGTCAC-AGAGTTGTGGGCTT-AAAAG----G-GTGCCACGGAGTTGTGGGCTTT---
1 AAAAAGGTGCCACGA-AGTTGTGGGCTTAAAAAGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
45118 GAA-
65 GAAG
* ** * *
45121 AAGAAGGTGCCAC-AAGGTCATGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGAA-GTTGTGGGC-TTAAAA-AG-AAAAGAGTGCCACGGAGTTGTGGGCTTT
45185 GAAAG
62 -AAAG
45190 GAAGGTGCCA
Statistics
Matches: 210, Mismatches: 23, Indels: 43
0.76 0.08 0.16
Matches are distributed among these distances:
57 1 0.00
58 17 0.08
59 4 0.02
60 3 0.01
61 72 0.34
62 3 0.01
63 2 0.01
64 2 0.01
66 1 0.00
67 30 0.14
68 69 0.33
69 5 0.02
71 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (68 bp):
AAAAAGGTGCCACGAAGTTGTGGGCTTAAAAAGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAG
AAG
Found at i:45049 original size:61 final size:61
Alignment explanation
Indices: 44968--45112 Score: 245
Period size: 61 Copynumber: 2.4 Consensus size: 61
44958 CTTTAAAAAG
* * *
44968 AAAAAGGTGCCATGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAGAGTTGTGGGCTT
* *
45029 AGAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGTCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAGAGTTGTGGGCTT
45090 AAAAGGGTGCCACGGAGTTGTGG
1 AAAAGGGTGCCACGGAGTTGTGG
45113 GCTTTGAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 78 1.00
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.22
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAGAGTTGTGGGCTT
Found at i:45087 original size:163 final size:156
Alignment explanation
Indices: 44697--45214 Score: 453
Period size: 163 Copynumber: 3.3 Consensus size: 156
44687 GCAAAAAAGG
* * * * *
44697 GTGCCACTGGAGTCGTGGACTTAAAAAGGTGCCACGGAGTTGTGGGCTTAAAC-GG-----A-TG
1 GTGCCAC-GGAGTTGTGGGCTTAGAAGGGTGCCACGGAGTTGTGGACTTAAACGGGAAAAAAGTG
* * * *
44755 CCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACGAAGTTGTGGGCTTTAAAAG--GGTGC
65 CCACAGAGTTGTGGGCTTAAAAAGAAAA-G-GTGCCACGAAGTTGTGGGCTTTAAAAGAAGGTGC
* * *
44818 CACGAAGTTGTGGACTT--TGATG-AGAAG
128 CA-GAAGTTGTGGACTTAAAGATGAAAAAA
* * * * *
44845 GTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTGC
1 GTGCCACGGAGTTGTGGGCTTAGAAGGGTGCCACGGAGTTGTGGACTTAAACGGGAAAAAAGTGC
* *
44910 CACGGAGCTGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGG
66 CACAGAGTTGTGGGC-TTAAAAAG-AAAAGGTGCCACGAAGTTGTGGGCTTT-AAAAG---AAGG
*
44975 TGCCATGGAGTTGTGGACTTAAAGATGAAAAAA
125 TGCCA-GAAGTTGTGGACTTAAAGATGAAAAAA
*
45008 GTGCCACGGAGTTGTGGGCTTAGAAGGGTGCCACGGAGTTGTGGACTTAAA-GATGAAAAAAGTG
1 GTGCCACGGAGTTGTGGGCTTAGAAGGGTGCCACGGAGTTGTGGACTTAAACG-GGAAAAAAGTG
* *
45072 TCACAGAGTTGTGGGCTT-AAAAG----GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCC
65 CCACAGAGTTGTGGGCTTAAAAAGAAAAGGTGCCACGAAGTTGTGGGCTTT-AAAAGAAGGTGCC
* ** *
45132 ACAAGGTCATGGACTTTAAA-AGGGAAAAAGA
129 AGAA-GTTGTGGAC-TTAAAGA-TGAAAAA-A
* *
45163 GTGCCACGGAGTTGTGGGCTTTGAAAGGAAGGTGCCACGGAGTCGTGGACTT
1 GTGCCACGGAGTTGTGGGCTTAG-AA-G--GGTGCCACGGAGTTGTGGACTT
45215 TGAGCAAAGA
Statistics
Matches: 313, Mismatches: 30, Indels: 43
0.81 0.08 0.11
Matches are distributed among these distances:
147 42 0.13
148 9 0.03
152 1 0.00
153 18 0.06
154 49 0.16
155 35 0.11
156 33 0.11
157 1 0.00
159 21 0.07
160 20 0.06
161 5 0.02
162 7 0.02
163 72 0.23
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.22
Consensus pattern (156 bp):
GTGCCACGGAGTTGTGGGCTTAGAAGGGTGCCACGGAGTTGTGGACTTAAACGGGAAAAAAGTGC
CACAGAGTTGTGGGCTTAAAAAGAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAGAAGGTGCCAG
AAGTTGTGGACTTAAAGATGAAAAAA
Found at i:45254 original size:283 final size:278
Alignment explanation
Indices: 44641--45277 Score: 609
Period size: 283 Copynumber: 2.3 Consensus size: 278
44631 GCCACCGACT
* * * * * * *
44641 TGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGCAAAAAAGGGTGCCACTG
1 TGTGGACTTTAAAGAAAAAG-GTGCCACGAAGTCGTGGACTTTAAA--AGAAAAGGATGCCACT-
*
44706 GAGTCGTGGAC-T-----T-AAAAAGGTGCCACGGAGTTGTGGGCTTAAACGGATGCCACGGAGT
62 GAGTCGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAACGGATGCCACGGAGT
*
44764 TGTGGACTTAGAAGGAAAACGAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTTGT
127 TGTGGACTTAGAAGGAAAACAAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTTGT
** * **
44829 GGACTTTGATGAGAAGGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTA
192 GGACTTTGAAAAGAAGGTGCCACAGAGTCATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTA
44894 AACGGGAAAAGAGTGCCACGGAGC
257 AAC-GG-AAAGAGTGCCACGGAGC
* * *
44918 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGG-TGCCA-T
1 TGTGGACTTT--AAAGAAAAAGGTGCCACGAAGTCGTGGACTTT-AAAAG-AAAAGGATGCCACT
* *
44981 GGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAGAA-GGGTGCCACGGA
62 -GAGTCGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTA-AACGGATGCCACGGA
* *
45045 GTTGTGGACTTA-AAGATGAAAA-AAGTGTCAC-AGAGTTGTGGGC-TTAAAAGGGTGCCACGGA
125 GTTGTGGACTTAGAAG--GAAAACAAGTGCCACGA-AGTTGTGGGCTTTAAAAGGGTGCCACGAA
*
45106 GTTGTGGGCTTTGAAAAGAAGGTGCCACA-AGGTCATGGACTTTAAAAGGGAAAAAGAGTGCCAC
187 GTTGTGGACTTTGAAAAGAAGGTGCCACAGA-GTCATGGAC-TTAAAA--G-----G-GTGCCAC
45170 GGAGTTGTGGGCTTTGAAA-GG-AAG-GTGCCACGGAG-
242 GGAGTTGTGGGC-TT-AAACGGAAAGAGTGCCACGGAGC
* * * *
45205 TCGTGGACTTT-GAG-CAAAGATTGCCACTG-AGTCGTGGACTTT-GAAGAAAAGGATGCCACTG
1 T-GTGGACTTTAAAGAAAAAG-GTGCCAC-GAAGTCGTGGACTTTAAAAGAAAAGGATGCCACTG
45266 AGTCGTGGACTT
63 AGTCGTGGACTT
45278 TGAGAAGAAG
Statistics
Matches: 303, Mismatches: 25, Indels: 58
0.78 0.06 0.15
Matches are distributed among these distances:
276 12 0.04
277 15 0.05
278 27 0.09
279 12 0.04
281 1 0.00
282 60 0.20
283 93 0.31
284 12 0.04
285 20 0.07
286 1 0.00
287 1 0.00
288 19 0.06
289 3 0.01
290 1 0.00
291 21 0.07
292 2 0.01
293 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (278 bp):
TGTGGACTTTAAAGAAAAAGGTGCCACGAAGTCGTGGACTTTAAAAGAAAAGGATGCCACTGAGT
CGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAACGGATGCCACGGAGTTGTG
GACTTAGAAGGAAAACAAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTTGTGGAC
TTTGAAAAGAAGGTGCCACAGAGTCATGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAACG
GAAAGAGTGCCACGGAGC
Found at i:45276 original size:63 final size:62
Alignment explanation
Indices: 44655--45314 Score: 232
Period size: 61 Copynumber: 10.6 Consensus size: 62
44645 GACTTAAAAG
* * * *
44655 GAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGCAAAAAAGGGTGCCACTGGAGTCGTGGAC-TT
1 GAAAAGAGTGCCACGGAGTCGTGGACTTTGAAG---AAAA-GGTGCCAC-GGAGTCGTGGACTTT
44719 -A
61 GA
* * * * *
44720 -AAAAG-GTGCCACGGAGTTGTGGGC-TT----AAACGGATGCCACGGAGTTGTGGACTTAGAA
1 GAAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGG-TGCCACGGAGTCGTGGACTTTG-A
* * * * * *
44777 GGAAAACGAGTGCCACGAAGTTGTGGGCTTT--A-AAAGGGTGCCACGAAGTTGTGGACTTTGA
1 -GAAAA-GAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGGTGCCACGGAGTCGTGGACTTTGA
* * * * * * *
44838 TGAGAAG-GTGCCACTGAGTTGTGGAC-TT--A-AAAGGGTGCCACGGAGTTGTGGGCTTAAACG
1 -GAAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGGTGCCACGGAGTCGTGGACTT---TG
*
44898 G
62 A
* * * * *
44899 GAAAAGAGTGCCACGGAG-CTGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTA
1 GAAAAGAGTGCCACGGAGTC-GTGGACTTT--GAAG-AAAAGGTGCCACGGAGTCGTGGACTTT-
*
44963 AAAA
61 --GA
* * * * * * *
44967 GAAAA-AGGTGCCATGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGC-TT-
1 GAAAAGA-GTGCCACGGAGTCGTGGACTT--TGAAG-AAAAGGTGCCACGGAGTCGTGGACTTTG
45029 A
62 A
* * * * * * * * *
45030 G--AAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGTCACAGAGTTGTGGGC-TT--
1 GAAAAGAGTGCCACGGAGTCGTGGACTT--TGAAG-AAAAGGTGCCACGGAGTCGTGGACTTTGA
* * * * *
45090 -AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAGGTGCCAC-AAGGTCATGGACTTTAAA
1 GAAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAA-AAGGTGCCACGGA-GTCGTGGACTTT---
*
45152 AGG
61 -GA
* * *
45155 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-AGGAAGGTGCCACGGAGTCGTGGACTTTGA
1 G-AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGA-AAAGGTGCCACGGAGTCGTGGACTTTGA
* * * *
45218 GCAAAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGA
1 GAAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGA
*
45281 GAAGAAG-GTGCCACGGAGTCATGGACTTT-AAGAA
1 GAA-AAGAGTGCCACGGAGTCGTGGACTTTGAAGAA
45315 GGTATTTGAA
Statistics
Matches: 484, Mismatches: 63, Indels: 99
0.75 0.10 0.15
Matches are distributed among these distances:
54 13 0.03
55 10 0.02
57 4 0.01
58 41 0.08
59 24 0.05
60 7 0.01
61 117 0.24
62 61 0.13
63 71 0.15
64 8 0.02
66 1 0.00
67 55 0.11
68 72 0.15
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (62 bp):
GAAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGGTGCCACGGAGTCGTGGACTTTGA
Found at i:48928 original size:54 final size:53
Alignment explanation
Indices: 48867--48970 Score: 154
Period size: 53 Copynumber: 1.9 Consensus size: 53
48857 CCTTGATTGT
* * *
48867 GAAAAATTAGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
1 GAAAAATTAGT-GTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAG
* *
48921 GAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 GAAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTA
48971 TGAAAAGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 35 0.78
54 10 0.22
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (53 bp):
GAAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAG
Found at i:49005 original size:51 final size:51
Alignment explanation
Indices: 48880--49016 Score: 141
Period size: 51 Copynumber: 2.6 Consensus size: 51
48870 AAATTAGTAT
* *** *
48880 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTG
1 TTTTGAAAATAAAATCGG-GTTGGAGTATCCCCGATT-AAGGAAAAATCAATA
* * *
48933 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATGAAAAGTCAATA
1 TTTTGAAAATAAAATC-GGGTTGGAGTATCCCCGATTAAGGAAAAATCAATA
* *
48984 TTTTGAAAATAAAGTCAGGGTTAGAGTATCCCC
1 TTTTGAAAATAAAATC-GGGTTGGAGTATCCCC
49017 TCGGAAATAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
51 37 0.52
53 32 0.45
54 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (51 bp):
TTTTGAAAATAAAATCGGGTTGGAGTATCCCCGATTAAGGAAAAATCAATA
Found at i:49038 original size:28 final size:27
Alignment explanation
Indices: 49022--49073 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
49012 TCCCCTCGGA
49022 AATAACGGGGTTGGAGTATCCCCGACG
1 AATAACGGGGTTGGAGTATCCCCGACG
*
49049 ATTAACGGGGTTGGAGTATCCCCGA
1 AATAACGGGGTTGGAGTATCCCCGA
49074 TTGTGAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (27 bp):
AATAACGGGGTTGGAGTATCCCCGACG
Found at i:51578 original size:33 final size:33
Alignment explanation
Indices: 51532--51598 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
51522 AAAATTTCCA
* ***
51532 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCCATACAAAGAAAAATGTATCGATAC
*
51565 AATGTATCCATACACAGAAAAATGTATCGATAC
1 AATGTATCCATACAAAGAAAAATGTATCGATAC
51598 A
1 A
51599 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCCATACAAAGAAAAATGTATCGATAC
Found at i:51642 original size:19 final size:18
Alignment explanation
Indices: 51618--51685 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
51608 CAGTAGCTAA
51618 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
51637 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
51652 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
51669 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
51686 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:51658 original size:13 final size:13
Alignment explanation
Indices: 51640--51664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51630 ACAATACTTA
51640 TGTATCGATACAT
1 TGTATCGATACAT
51653 TGTATCGATACA
1 TGTATCGATACA
51665 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51662 original size:32 final size:32
Alignment explanation
Indices: 51621--51683 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
51611 TAGCTAATTA
*
51621 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
51653 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
51684 AATTGTTGAA
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:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:55417 original size:52 final size:52
Alignment explanation
Indices: 55332--55456 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
55322 ATATGAAAAG
* * *
55332 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAACT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
55384 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
55436 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
55457 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:55469 original size:52 final size:51
Alignment explanation
Indices: 55332--55476 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
55322 ATATGAAAAG
* *
55332 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAACT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
55384 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
55436 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
55477 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:55483 original size:13 final size:13
Alignment explanation
Indices: 55465--55489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55455 CAAAGATCAG
55465 TGTATCGATACAA
1 TGTATCGATACAA
55478 TGTATCGATACA
1 TGTATCGATACA
55490 TGTGAGTAAT
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:55579 original size:33 final size:33
Alignment explanation
Indices: 55534--55600 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
55524 AGTAGCTTAA
55534 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
55567 ATTGTATTGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
55600 A
1 A
55601 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:56111 original size:119 final size:115
Alignment explanation
Indices: 55901--56112 Score: 261
Period size: 119 Copynumber: 1.8 Consensus size: 115
55891 GGGTGTCCAC
* * *
55901 TTTTCAAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAAGACCAAGGAAGAGAAGA
1 TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCCTGCTCCTTGAAGACAAAGGAAGAG-AGA
55966 AAAGCAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
65 AAAGCAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
* *
56017 TTTTCCAAGGACAAAGGAAAAAGGGAAATGAAATACGTCCTGCT-CTCTGAGGACAAAAGGAAGA
1 TTTT-CAAGGACAAAGG-AAAAGAG-AATGAAATACGTCCTGCTCCT-TGAAGAC-AAAGGAAGA
*
56081 G-GAAAA-TAAAGTGTATCCTGC-TCTTTGAGGAC
61 GAGAAAAGCAAAGTG--TCCTGCTTC-TTGAGGAC
56113 TAAAAAGTGC
Statistics
Matches: 82, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
116 4 0.05
117 18 0.22
118 15 0.18
119 36 0.44
120 9 0.11
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (115 bp):
TTTTCAAGGACAAAGGAAAAGAGAATGAAATACGTCCTGCTCCTTGAAGACAAAGGAAGAGAGAA
AAGCAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCCCA
Found at i:56147 original size:28 final size:28
Alignment explanation
Indices: 56116--56202 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
56106 TGAGGACTAA
56116 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** * **
56144 AAAG-GCGTCCTGCTC-TTTGAGGAC-TAA
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
56171 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
56199 AAAG
1 AAAG
56203 GCGTCCTGCT
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 3 0.08
27 15 0.38
28 19 0.47
29 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:56180 original size:55 final size:55
Alignment explanation
Indices: 56096--56792 Score: 934
Period size: 55 Copynumber: 12.5 Consensus size: 55
56086 ATAAAGTGTA
* * *
56096 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
56151 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
56206 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
56261 TCCTGCTCTTTCAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
56316 TCCTGCTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
56371 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
56426 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
56481 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* ** * *
56536 TCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * * * *
56591 TCCTGCTCTTTGGGGACAGAAAGGTGCCATCAACTGGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
**
56651 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* ** * *
56712 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGCGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
56767 TCCTGCTCTTTGAGGACTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTG
56793 GAAGAAGAAG
Statistics
Matches: 578, Mismatches: 49, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
54 10 0.02
55 459 0.79
56 11 0.02
60 47 0.08
61 51 0.09
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:56336 original size:26 final size:26
Alignment explanation
Indices: 56307--56451 Score: 64
Period size: 26 Copynumber: 5.3 Consensus size: 26
56297 GTGTGGGCTT
56307 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** ** *
56333 TGAAAAATG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
56360 TTTGAAAGGGGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
56388 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
56415 TTTGAGAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGGGGAC
56443 TGAAAGGTG
1 TGAAAGGTG
56452 CCACCAACTT
Statistics
Matches: 82, Mismatches: 23, Indels: 28
0.62 0.17 0.21
Matches are distributed among these distances:
25 6 0.07
26 29 0.35
27 10 0.12
28 11 0.13
29 20 0.24
30 6 0.07
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:57789 original size:13 final size:13
Alignment explanation
Indices: 57768--57813 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
57758 TTTTCTCTCT
57768 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
57782 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
57795 TTTTTTT-TTTTG
1 TTTTTTTGTTTTG
57807 TTTTTTT
1 TTTTTTT
57814 TTGAAGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.38
13 16 0.50
14 4 0.12
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:57813 original size:12 final size:12
Alignment explanation
Indices: 57777--57815 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
57767 TTTTTCTTTG
57777 TTTTGTTTTTTT
1 TTTTGTTTTTTT
57789 GTTTTGTTTTTTT
1 -TTTTGTTTTTTT
57802 TTTTGTTTTTTT
1 TTTTGTTTTTTT
57814 TT
1 TT
57816 GAAGAGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:57814 original size:13 final size:13
Alignment explanation
Indices: 57752--57815 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 13
57742 AAGCAGGTTC
*
57752 TTTTTTTTTTCTCTC
1 TTTTTTTTTT-T-TG
57767 TTTTTCTTTGTTTTG
1 TTTTT-TTT-TTTTG
*
57782 TTTTTTTGTTTTG
1 TTTTTTTTTTTTG
57795 -TTTTTTTTTTTG
1 TTTTTTTTTTTTG
57807 TTTTTTTTT
1 TTTTTTTTT
57816 GAAGAGAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
12 11 0.26
13 13 0.30
14 2 0.05
15 11 0.26
16 4 0.09
17 2 0.05
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:70361 original size:79 final size:80
Alignment explanation
Indices: 70206--70392 Score: 196
Period size: 79 Copynumber: 2.4 Consensus size: 80
70196 TGGATGATTA
* * * * *
70206 GAAAAAAAATCGGGATTAGAGTTTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAG
1 GAAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAA
70271 AAATCAATA-TTTTG
66 AAATCAATATTTTTG
* * * * * * * *
70285 GGAATAAAGCCGGGGTTAGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTGTCCTCGATTGTGAA
1 GAAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAA
***
70350 AAATTGGTATTTTTG
66 AAATCAATATTTTTG
* * *
70365 GAAATAAAATCGGAGTTGGAGTATCCCC
1 GAAATAAAACCGGGGTTAGAGTATCCCC
70393 GATTAAAGGA
Statistics
Matches: 86, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
79 58 0.67
80 28 0.33
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (80 bp):
GAAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAA
AAATCAATATTTTTG
Found at i:70426 original size:53 final size:52
Alignment explanation
Indices: 70347--70660 Score: 159
Period size: 51 Copynumber: 5.9 Consensus size: 52
70337 CCTCGATTGT
* *
70347 GAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
1 GAAAAATTGGT-GTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATT-AAG
* * *
70401 GAAAAATTGGTGTTTTGAAAATAAAA-CCGAGGTTGGAGTATCCTCGATT-AT
1 GAAAAATTGGTGTTTTGAAAATAAAATCGGA-GTTGGAGTATCCCCGATTAAG
* *** * * * * *
70452 GAAAAGTCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCC---T-CG
1 GAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAG
* * * ** * *
70500 GAAATAA-CGG-GGTTGGAGTATCCCCAACGATTAACGGGGTTGGAGTATCCCCGATT--G
1 GAAA-AATTGGTGTTTTGAAAAT----AA--A--ATCGGAGTTGGAGTATCCCCGATTAAG
*
70557 TGAAGAAATTGGTGTTTTTTCG-AAATAAAATCGGAGTTAGAGTATCCCCGATTATA-
1 -GAA-AAATTGGTG--TTTT-GAAAATAAAATCGGAGTTGGAGTATCCCCGATTA-AG
* *
70613 G-AAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 GAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATT
70661 GTGGAGAATT
Statistics
Matches: 196, Mismatches: 39, Indels: 53
0.68 0.14 0.18
Matches are distributed among these distances:
47 5 0.03
48 6 0.03
49 1 0.01
50 1 0.01
51 68 0.35
52 5 0.03
53 39 0.20
54 33 0.17
55 19 0.10
56 1 0.01
57 1 0.01
58 8 0.04
59 3 0.02
60 1 0.01
62 4 0.02
63 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
GAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAG
Found at i:70542 original size:27 final size:28
Alignment explanation
Indices: 70479--70551 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
70469 GAAATAAAGT
*
70479 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCACGGAAATAA
*
70507 CGGGGTTGGAGTATCCCCAAC-G-ATTAA
1 CGGGGTTGGAGTATCCCC-ACGGAAATAA
70534 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
70552 GATTGTGAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
27 22 0.52
28 19 0.45
29 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCACGGAAATAA
Found at i:70671 original size:51 final size:52
Alignment explanation
Indices: 70538--70671 Score: 164
Period size: 51 Copynumber: 2.6 Consensus size: 52
70528 GATTAACGGG
* *
70538 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTCGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAG-AATTAGTG-TTTTTCGAAATAAAATCGGA
* * * *
70592 GTTAGAGTATCCCCGATTATAGAAAATTAGTG-TTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAGAATTAGTGTTTTTCG-AAATAAAATCGGA
*
70643 GTTGGAATATCCCCGATTGTGGAGAATTA
1 GTTGGAGTATCCCCGATTGTGGAGAATTA
70672 AGAAACTCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.01
51 41 0.60
53 7 0.10
54 19 0.28
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGGAGAATTAGTGTTTTTCGAAATAAAATCGGA
Found at i:73056 original size:33 final size:33
Alignment explanation
Indices: 73010--73076 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
73000 AAAATTTCCA
* ***
73010 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
*
73043 AATGTATCAATACACAGAAAAATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
73076 A
1 A
73077 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCAATACAAAGAAAAATGTATCGATAC
Found at i:73120 original size:19 final size:19
Alignment explanation
Indices: 73096--73150 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
73086 CAGTAGCTAA
*
73096 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
73115 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
73134 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
73151 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:73212 original size:21 final size:21
Alignment explanation
Indices: 73186--73238 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
73176 GTTGGGACCC
73186 TGTATCGATACATCCCACAAA
1 TGTATCGATACATCCCACAAA
* *
73207 TGTATCGATACATTCTACAAA
1 TGTATCGATACATCCCACAAA
73228 TGTATCGATAC
1 TGTATCGATAC
73239 TTTTGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATCCCACAAA
Found at i:74179 original size:51 final size:50
Alignment explanation
Indices: 74057--74192 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 50
74047 AAAATTAGTA
* * *
74057 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * * *
74108 TTCTAAAAAATAAAATCGGGGTTAGAGTATCCCTGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
74160 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
74193 TCAGAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
51 36 0.51
52 34 0.49
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:74255 original size:79 final size:79
Alignment explanation
Indices: 74124--74745 Score: 1048
Period size: 79 Copynumber: 7.9 Consensus size: 79
74114 AAAATAAAAT
* *
74124 CGGGGTTAGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74189 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
*
74203 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74268 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * * * *
74282 CGTGGTTGTAGTATCCCCGATTGTGAAAAATTAATATTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74347 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
74361 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74426 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
74440 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74505 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * *
74519 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAATTAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
74584 CCTCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
74598 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74663 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
74677 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
74742 CCCC
66 CCCC
74746 GATTATGAGC
Statistics
Matches: 505, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
79 504 1.00
80 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:75746 original size:43 final size:43
Alignment explanation
Indices: 75699--75794 Score: 183
Period size: 43 Copynumber: 2.2 Consensus size: 43
75689 TCTCGCTGGA
75699 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
*
75742 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGTTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
75785 GCTGCTGTTG
1 GCTGCTGTTG
75795 GAGCTGCTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.06, C:0.22, G:0.40, T:0.32
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTGGAGCTGCAGTCGCTGCTGGAGTTGCT
Found at i:76253 original size:26 final size:26
Alignment explanation
Indices: 76166--76245 Score: 133
Period size: 26 Copynumber: 3.1 Consensus size: 26
76156 TGTCTCCAAT
*
76166 TGCAATTTTTATTTCCTTTCCAATGC
1 TGCATTTTTTATTTCCTTTCCAATGC
*
76192 TGCATTTTTTATTTCCTTTCTAATGC
1 TGCATTTTTTATTTCCTTTCCAATGC
*
76218 TGCATTTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCAATGC
76244 TG
1 TG
76246 TAAGTTTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.54
Consensus pattern (26 bp):
TGCATTTTTTATTTCCTTTCCAATGC
Found at i:76285 original size:4 final size:4
Alignment explanation
Indices: 76278--76321 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
76268 TTTTTTTAAA
76278 ATTT ATTT ATTTT ATTT -TATT ATTT ATTT ATTT ATTT A-TT ATTT
1 ATTT ATTT A-TTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT
76322 TTTTTATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 4 0.11
4 27 0.75
5 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:76290 original size:21 final size:21
Alignment explanation
Indices: 76266--76314 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
76256 CGTTTGCAGG
*
76266 TTTTTTTTTAAAATTTATTTA
1 TTTTATTTTAAAATTTATTTA
**
76287 TTTTATTTTATTATTTATTTA
1 TTTTATTTTAAAATTTATTTA
76308 -TTTATTT
1 TTTTATTT
76315 ATTATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTTTAAAATTTATTTA
Found at i:76433 original size:6 final size:6
Alignment explanation
Indices: 76399--76425 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
76389 ATTATTATTT
76399 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
76426 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:77264 original size:173 final size:170
Alignment explanation
Indices: 77049--77529 Score: 668
Period size: 173 Copynumber: 2.8 Consensus size: 170
77039 AAGTGTATCC
*
77049 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* *
77114 GAACTGAAAGGTGCCACCAACTGGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGAC
66 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGAC
*
77179 TGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCA
130 TGAAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCA
* * * *
77221 TGCTCTTTGAGGACTAAAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACGTCTTGCTCTTTG
1 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
*
77286 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGA
65 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTGAGGA
*
77351 CTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
129 CT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCA
* * * *
77394 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTTTGGGCTTTAAAAGGAAAAGGTGTCCTGCT
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCT
**
77459 CTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCTCTTT
60 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTT
77519 GAGGACT-AAAA
124 GAGGACTGAAAA
77530 GGGTGAAAGG
Statistics
Matches: 278, Mismatches: 21, Indels: 21
0.87 0.07 0.07
Matches are distributed among these distances:
171 4 0.01
172 43 0.15
173 175 0.63
174 6 0.02
177 1 0.00
178 22 0.08
179 27 0.10
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (170 bp):
TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT
GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCA
Found at i:77271 original size:117 final size:114
Alignment explanation
Indices: 77046--77529 Score: 628
Period size: 117 Copynumber: 4.2 Consensus size: 114
77036 ATAAAGTGTA
*
77046 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTT-G-AAAGGCGTCCTGCT
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCT
* ** *
77108 CTTTGAGAACT-GAAAGGTGCCACCAACTGGTGTGGGCTTTGAAAAGAAAAGGCG
66 CTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
*
77162 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGCGTCATGCT
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCT
* * *
77225 CTTTGAGGACTA-AAAAATTGCCACCAACTTATGTGGGCTTTGAAAGACG
66 CTTTGAGGACTAGAAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
77274 TCTTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTCC
77338 TGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
62 TGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
77391 TCCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTTTGGGCTTTAAAAGGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTCC
77455 TGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
62 TGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
77508 TCCTGCTCTTTGAGGACT-AAAA
1 TCCTGCTCTTTGAGGACTGAAAA
77530 GGGTGAAAGG
Statistics
Matches: 339, Mismatches: 18, Indels: 21
0.90 0.05 0.06
Matches are distributed among these distances:
111 27 0.08
112 24 0.07
116 19 0.06
117 243 0.72
118 26 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (114 bp):
TCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCT
CTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:77560 original size:40 final size:40
Alignment explanation
Indices: 77505--77606 Score: 204
Period size: 40 Copynumber: 2.5 Consensus size: 40
77495 GCTTTAAAAG
77505 GCGTCCTGCTCTTTGAGGACTAAAAGGGTGAAAGGAGAGA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGGTGAAAGGAGAGA
77545 GCGTCCTGCTCTTTGAGGACTAAAAGGGTGAAAGGAGAGA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGGTGAAAGGAGAGA
77585 GCGTCCTGCTCTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTA
77607 GGAAAGTAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (40 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGGTGAAAGGAGAGA
Found at i:78585 original size:11 final size:11
Alignment explanation
Indices: 78569--78602 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
78559 TTAAGCAGGT
78569 TTTTTTTTTTG
1 TTTTTTTTTTG
78580 TTTTTTTTTTG
1 TTTTTTTTTTG
78591 TTGATTTTTTTT
1 TT--TTTTTTTT
78603 TAGAAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
13 8 0.38
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:78587 original size:14 final size:15
Alignment explanation
Indices: 78568--78603 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
78558 CTTAAGCAGG
78568 TTTTTTTTT-TTG-T
1 TTTTTTTTTGTTGAT
78581 TTTTTTTTTGTTGAT
1 TTTTTTTTTGTTGAT
78596 TTTTTTTT
1 TTTTTTTT
78604 AGAAGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.43
14 3 0.14
15 9 0.43
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTGTTGAT
Found at i:91108 original size:51 final size:51
Alignment explanation
Indices: 90975--91121 Score: 154
Period size: 51 Copynumber: 2.8 Consensus size: 51
90965 CGACGAGAAA
* * *
90975 AAAAATTAGTATTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGG
1 AAAAATTAGTGTTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGG
** * * *
91027 AAAAA-CGGTGTTCTAAAAAATAAAATCGGGGTTAGAGTATCCCTGATTAT-G
1 AAAAATTAGTGTT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGG
* *
91078 AAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 AAAAATTAGTGTTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
91122 TCGAAAATAA
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
51 38 0.50
52 38 0.50
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAATTAGTGTTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGG
Found at i:91144 original size:79 final size:79
Alignment explanation
Indices: 91053--91279 Score: 373
Period size: 79 Copynumber: 2.9 Consensus size: 79
91043 AAAATAAAAT
* *
91053 CGGGGTTAGAGTATCCCTGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
91118 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
**
91132 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
91197 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* ** *
91211 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATACTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
91276 CCCC
66 CCCC
91280 GATTATGAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 137 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:91289 original size:51 final size:51
Alignment explanation
Indices: 91211--91330 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
91201 TCGGAAATAA
* *
91211 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATACTTTAGAGATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATACTTTAGAAATAAAAC
* ** *
91262 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATACTTTAGAAATAAAAC
91313 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
91331 TCAAAAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATACTTTAGAAATAAAAC
Found at i:91345 original size:79 final size:79
Alignment explanation
Indices: 91262--91409 Score: 278
Period size: 79 Copynumber: 1.9 Consensus size: 79
91252 GAGATAAAAC
*
91262 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
91327 CCCCTCAAAAATAA
66 CCCCTCAAAAATAA
*
91341 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
91406 CCCC
66 CCCC
91410 GATTATGAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCAAAAATAA
Found at i:91425 original size:130 final size:130
Alignment explanation
Indices: 91132--91417 Score: 500
Period size: 130 Copynumber: 2.2 Consensus size: 130
91122 TCGAAAATAA
*
91132 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
** *
91197 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATACTTTAGAGATAAAAC
66 CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATACTTTAGAGATAAAAC
*
91262 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* **
91327 CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAAC
66 CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATACTTTAGAGATAAAAC
91392 CGGGGTTGGAGTATCCCCGATTATGA
1 CGGGGTTGGAGTATCCCCGATTATGA
91418 GCAATTGAGA
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 148 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATACTTTAGAGATAAAAC
Found at i:92396 original size:22 final size:21
Alignment explanation
Indices: 92370--92439 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
92360 TAGAACTGCT
92370 GTTGCGTGCTGGAGCTGCAATC
1 GTTGCGTGCTGGAGCTGC-ATC
** **
92392 GTTGC-TGGAGTTGCTGC-TGC
1 GTTGCGTGCTGGAGCTGCAT-C
92412 TGTTGCGTGCTGGAGCTGCAGTC
1 -GTTGCGTGCTGGAGCTGCA-TC
92435 GTTGC
1 GTTGC
92440 TGGAGTTGCT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 13 0.37
22 18 0.51
23 1 0.03
24 1 0.03
ACGTcount: A:0.09, C:0.21, G:0.39, T:0.31
Consensus pattern (21 bp):
GTTGCGTGCTGGAGCTGCATC
Found at i:92414 original size:43 final size:43
Alignment explanation
Indices: 92365--92465 Score: 193
Period size: 43 Copynumber: 2.3 Consensus size: 43
92355 CTCGCTAGAA
92365 CTGCTGTTGCGTGCTGGAGCTGCAATCGTTGCTGGAGTTGCTG
1 CTGCTGTTGCGTGCTGGAGCTGCAATCGTTGCTGGAGTTGCTG
*
92408 CTGCTGTTGCGTGCTGGAGCTGCAGTCGTTGCTGGAGTTGCTG
1 CTGCTGTTGCGTGCTGGAGCTGCAATCGTTGCTGGAGTTGCTG
92451 CTGCTGTTGCGTGCT
1 CTGCTGTTGCGTGCT
92466 AGAACTGTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.07, C:0.22, G:0.38, T:0.34
Consensus pattern (43 bp):
CTGCTGTTGCGTGCTGGAGCTGCAATCGTTGCTGGAGTTGCTG
Found at i:92485 original size:43 final size:43
Alignment explanation
Indices: 92395--92499 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
92385 TGCAATCGTT
* * * ***
92395 GCTGGAGTTGCTGCTGCTGTTGCGTGCTGGAGCTGCAGTCGTT
1 GCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACTGCAGCCACC
**
92438 GCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACTGTTGCCACC
1 GCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACTGCAGCCACC
* *
92481 GCTGGAGCTGGTGCTGCTG
1 GCTGGAGTTGCTGCTGCTG
92500 CTGGAGCTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.09, C:0.23, G:0.38, T:0.30
Consensus pattern (43 bp):
GCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACTGCAGCCACC
Found at i:92855 original size:26 final size:26
Alignment explanation
Indices: 92819--92898 Score: 133
Period size: 26 Copynumber: 3.1 Consensus size: 26
92809 TGTCTCCAAT
* *
92819 TGCAATTTTTATTTCCTTTCCAATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
92845 TGCATTTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
*
92871 TGCATTTTCTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
92897 TG
1 TG
92899 TAAGTTTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.14, C:0.26, G:0.09, T:0.51
Consensus pattern (26 bp):
TGCATTTTTTATTTCCTTTCCCATGC
Found at i:92937 original size:4 final size:4
Alignment explanation
Indices: 92930--92973 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
92920 TTTTTTTTAA
92930 ATTT ATTT ATTTT ATTT -TATT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT A-TTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATT
92974 ATTATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 1 0.03
4 31 0.84
5 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:92947 original size:21 final size:22
Alignment explanation
Indices: 92919--92966 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
92909 CGTTTGCAGG
92919 TTTT-TTTTTA-AATTTATTTA
1 TTTTATTTTTATAATTTATTTA
*
92939 TTTTA-TTTTATTATTTATTTA
1 TTTTATTTTTATAATTTATTTA
92960 -TTTATTT
1 TTTTATTT
92967 ATTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTATTTTTATAATTTATTTA
Found at i:92957 original size:12 final size:11
Alignment explanation
Indices: 92930--92980 Score: 63
Period size: 12 Copynumber: 4.7 Consensus size: 11
92920 TTTTTTTTAA
92930 ATTTATTTA-T
1 ATTTATTTATT
92940 -TTTATTTTATT
1 ATTTA-TTTATT
92951 ATTTATTTATTT
1 ATTTATTTA-TT
92963 ATTTATTTATT
1 ATTTATTTATT
92974 A-TTATTT
1 ATTTATTT
92981 TTTTTATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.11
10 10 0.27
11 8 0.22
12 15 0.41
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:92987 original size:12 final size:12
Alignment explanation
Indices: 92931--92987 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 12
92921 TTTTTTTAAA
92931 TTTATTTATTTTAT
1 TTTA-TTATTTT-T
*
92945 TTTATTA-TTTA
1 TTTATTATTTTT
92956 TTTATTTATTTATT
1 TTTA-TTATTT-TT
92970 TATTATTATTTTT
1 T-TTATTATTTTT
92983 TTTAT
1 TTTAT
92988 GCATGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 4 0.11
12 10 0.27
13 8 0.22
14 12 0.32
15 3 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTATTTTT
Found at i:93067 original size:6 final size:6
Alignment explanation
Indices: 93058--93084 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
93048 ATTATTATTT
93058 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
93085 TTAACTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:93919 original size:60 final size:59
Alignment explanation
Indices: 93801--94580 Score: 986
Period size: 59 Copynumber: 13.3 Consensus size: 59
93791 TCCGCTTTTT
* * *
93801 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
93863 AGTCCTTAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
93923 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
93982 AGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
94041 AGTCCTTAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
94100 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
94159 AGTCTTCAAATAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTC
* * *
94219 TAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
94281 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
*
94340 AGTCCTCAAAGAGC-GAGATGCCTTTTC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
94398 AGTCC-CTAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTC-AAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C
*
94453 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* ** * *
94508 AGTCCTCAAAGAGCAAGACGCC-TTTC----AAAGCCCACATGAGGTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
94563 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
94581 TACACTTTAT
Statistics
Matches: 658, Mismatches: 44, Indels: 39
0.89 0.06 0.05
Matches are distributed among these distances:
53 2 0.00
54 4 0.01
55 128 0.19
56 4 0.01
57 32 0.05
58 21 0.03
59 226 0.34
60 140 0.21
61 67 0.10
62 34 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:95480 original size:21 final size:21
Alignment explanation
Indices: 95432--95488 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
95422 GCCAAGGGAA
*
95432 TGTATCGATACAT-TTTTCTG
1 TGTATCGATACATCTATTCTG
*
95452 TGTATCGATACATCTATTCTT
1 TGTATCGATACATCTATTCTG
*
95473 TGTGTCGATACATCTA
1 TGTATCGATACATCTA
95489 GGAAGTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.46
Consensus pattern (21 bp):
TGTATCGATACATCTATTCTG
Found at i:97888 original size:51 final size:54
Alignment explanation
Indices: 97824--98219 Score: 197
Period size: 51 Copynumber: 7.5 Consensus size: 54
97814 AGTTTCTCAA
* * * *
97824 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AA-AACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAAT
*
97875 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAAT
* * * * * **
97929 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCTAAC-CCTGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC---CA-A-AC-AACACCAAT
* * * * * ***
97987 TAT-TTC-CGA--GGAGATACTCCAACCCCGACTTTATTTCC-AA-AATATTGAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAAT
* * * * *
98036 TT-TTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAA-AACACCAACTTT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAA---T
* ** * * *
98090 TTTTTCACAATCGGGGATACTTTAACCCCGGTTTTATTTTC-AA-AACACCAATT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAA-T
* * *
98143 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCTAAA-AACATCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAAT
*
98195 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
98220 CTCGTTATTT
Statistics
Matches: 267, Mismatches: 49, Indels: 57
0.72 0.13 0.15
Matches are distributed among these distances:
48 6 0.02
49 3 0.01
50 7 0.03
51 62 0.23
52 53 0.20
53 22 0.08
54 29 0.11
55 60 0.22
56 6 0.02
57 7 0.03
58 8 0.03
59 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (54 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAACAACACCAAT
Found at i:97968 original size:27 final size:25
Alignment explanation
Indices: 97938--98013 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 25
97928 TTTCTTCACA
97938 ATCGGGGATACTCCAACCCCGTTAAT
1 ATCGGGGATACTCCAACCCCGTT-AT
* *
97964 CATCGGGGATACTCTAACCCTGTTAT
1 -ATCGGGGATACTCCAACCCCGTTAT
*
97990 TTCCGAGGAGATACTCCAACCCCG
1 AT-CG-GG-GATACTCCAACCCCG
98014 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 23 0.56
28 13 0.32
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (25 bp):
ATCGGGGATACTCCAACCCCGTTAT
Found at i:98117 original size:55 final size:54
Alignment explanation
Indices: 98035--98220 Score: 197
Period size: 55 Copynumber: 3.5 Consensus size: 54
98025 AAAATATTGA
*
98035 TTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCT-AAAACACCAACTTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATT-CTAAAAACACCAA-TTT
** * *
98090 TTTTTCACAATCGGGGATACTTTAACCCCGGTTTTATTTTCAAAACACCAATTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTCTAAAAACACCAATTT
* * * *
98144 TCCTTT---AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACATCAA---
1 T-TTTTCACAATCGGGGATACTCCAACCCCGGTTTTA-TTCTAAAAACACCAATTT
*
98194 TTTTTCACAATCGAGGATACTCCAACC
1 TTTTTCACAATCGGGGATACTCCAACC
98221 TCGTTATTTC
Statistics
Matches: 110, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
49 3 0.03
50 1 0.01
52 41 0.37
53 12 0.11
54 5 0.05
55 48 0.44
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (54 bp):
TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTCTAAAAACACCAATTT
Found at i:98239 original size:28 final size:28
Alignment explanation
Indices: 98203--98279 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
98193 ATTTTTCACA
* * *
98203 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
98231 ATCGGGGATACTCTAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
98259 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
98280 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:98303 original size:266 final size:266
Alignment explanation
Indices: 97829--98330 Score: 794
Period size: 266 Copynumber: 1.9 Consensus size: 266
97819 CTCAATTCTC
* *
97829 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
*
97894 CTCCAACTCCGATTTTATTTCCAAACAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAACAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* * *
97959 TTAATCATCGGGGATACTCTAACCCTGTTATTTCCGAGGAGATACTCCAACCCCGACTTTATTTC
131 TTAATCATCGGGGATACTCTAACCCCGTTACTTCCGAGGAGATACTCCAACCCCGACTTTATTCC
*
98024 CAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACCAACTT
196 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACCAACTT
98089 TTTTTT
261 TTTTTT
* * *
98095 CACAATCGGGGATACTT-TAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
1 CACAATCGGGGATA-TTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGA
* * *
98159 TACTCCAACTCCGATTTTATTTCTAAA-AACATCAATTT-TTCACAATCGAGGATACTCCAACCT
64 TACTCCAACTCCGATTTTATTTCCAAACAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
98222 CGTTATTTCATCGGGGATACTCTAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
129 CGTTA-ATCATCGGGGATACTCTAACCCCGTTACTTCCGAGGAGATACTCCAACCCCGACTTTAT
* *
98287 TCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAGCCCCG
193 TCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
98331 TTATTTTCAA
Statistics
Matches: 215, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
265 28 0.13
266 147 0.68
267 40 0.19
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (266 bp):
CACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAACAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGGGGATACTCTAACCCCGTTACTTCCGAGGAGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACCAACTT
TTTTTT
Found at i:98372 original size:79 final size:80
Alignment explanation
Indices: 98234--98388 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 80
98224 TTATTTCATC
* * * *
98234 GGGGATACTCTAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCCCAAAATATT
*
98299 -GATTTCTCATAATT
66 AAATTTCTCATAATT
* * * *
98313 GGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCC-GTTATTA-TCTCCAAAATA
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCT-TTATTC-CCAAAATA
98376 TTAAATTTCTCAT
64 TTAAATTTCTCAT
98389 CGGGAAATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 4 0.06
79 51 0.80
80 9 0.14
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCCCAAAATATT
AAATTTCTCATAATT
Found at i:108460 original size:13 final size:13
Alignment explanation
Indices: 108442--108467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108432 TACAGCAAGT
108442 ATGTATCGATACA
1 ATGTATCGATACA
108455 ATGTATCGATACA
1 ATGTATCGATACA
108468 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:110713 original size:21 final size:21
Alignment explanation
Indices: 110680--110724 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
110670 TTGCAAGTTG
*
110680 AAATAAGGAAGTTGGCTAATGA
1 AAATAAGGAAGTTAGCTAA-GA
*
110702 AAATAATG-AGTTAGCTAAGA
1 AAATAAGGAAGTTAGCTAAGA
110722 AAA
1 AAA
110725 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.22
Consensus pattern (21 bp):
AAATAAGGAAGTTAGCTAAGA
Found at i:112518 original size:15 final size:15
Alignment explanation
Indices: 112498--112528 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
112488 TAAAAATGTC
*
112498 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
112513 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
112528 C
1 C
112529 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:114627 original size:13 final size:13
Alignment explanation
Indices: 114609--114647 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
114599 CATTTTTTCT
114609 TTGTATCGATACA
1 TTGTATCGATACA
114622 TTGTATCGATACA
1 TTGTATCGATACA
114635 TTGTATCGATACA
1 TTGTATCGATACA
114648 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:114811 original size:20 final size:20
Alignment explanation
Indices: 114768--114813 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
114758 AAATCTTTTG
114768 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
114789 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
114809 CAAAA
1 CAAAA
114814 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:117214 original size:13 final size:13
Alignment explanation
Indices: 117196--117221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117186 TACAGCAAGT
117196 ATGTATCGATACA
1 ATGTATCGATACA
117209 ATGTATCGATACA
1 ATGTATCGATACA
117222 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:120436 original size:1 final size:1
Alignment explanation
Indices: 120425--120484 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
120415 CCTTCTCTTC
* * * * * * *
120425 AAAAAAGAAAAAAAAAAACAAAAAGAAAAAAAAACAAAACAAAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
120485 TCTGCTTAAG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:120448 original size:19 final size:19
Alignment explanation
Indices: 120424--120478 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
120414 ACCTTCTCTT
120424 CAAAAAAGAAAAAAAAAAA
1 CAAAAAAGAAAAAAAAAAA
120443 C-AAAAAGAAAAAAAAACAA
1 CAAAAAAGAAAAAAAAA-AA
*
120462 -AACAAAGAAAAAAAAAA
1 CAAAAAAGAAAAAAAAAA
120479 GAAAAATCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.87, C:0.07, G:0.05, T:0.00
Consensus pattern (19 bp):
CAAAAAAGAAAAAAAAAAA
Found at i:120455 original size:16 final size:16
Alignment explanation
Indices: 120434--120484 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 16
120424 CAAAAAAGAA
120434 AAAAAAAAACAAAAAG
1 AAAAAAAAACAAAAAG
*
120450 AAAAAAAAAC-AAAAC
1 AAAAAAAAACAAAAAG
*
120465 AAAGAAAAA-AAAAAG
1 AAAAAAAAACAAAAAG
120480 AAAAA
1 AAAAA
120485 TCTGCTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAG
Found at i:120458 original size:21 final size:21
Alignment explanation
Indices: 120426--120484 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
120416 CTTCTCTTCA
120426 AAAAAGAAAAAAAAAAACAAA-
1 AAAAA-AAAAAAAAAAACAAAG
*
120447 AAGAAAAAAAAACAAAACAAAG
1 AA-AAAAAAAAAAAAAACAAAG
*
120469 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAA
120485 TCTGCTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAACAAAG
Found at i:121563 original size:60 final size:59
Alignment explanation
Indices: 121449--122106 Score: 743
Period size: 55 Copynumber: 11.3 Consensus size: 59
121439 TTCGCTTTTT
* * * *
121449 AGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
*
121511 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
*
121571 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
121630 AGTCTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTT-C
* * *
121692 A-TCCCCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACATAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TC
* * * * *
121746 AGTCCTCAAAAAGCAGGATGACTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
121807 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
121866 AGTCCTCAAAGAGCGGGATGCCTTTTC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
121924 AGTCCCCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
121978 TAGTCCTCAAAGAGTAGGACACC---TC--TTAAAACCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
122034 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGGTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
122089 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
122107 TACACTTTAT
Statistics
Matches: 528, Mismatches: 47, Indels: 49
0.85 0.08 0.08
Matches are distributed among these distances:
53 2 0.00
54 10 0.02
55 162 0.31
56 10 0.02
57 31 0.06
58 22 0.04
59 54 0.10
60 139 0.26
61 73 0.14
62 25 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:121801 original size:236 final size:231
Alignment explanation
Indices: 121475--122107 Score: 899
Period size: 236 Copynumber: 2.7 Consensus size: 231
121465 GATGCCTTTT
* * *
121475 CCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-GACTTCTCTT
121540 TTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
64 TTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
* *
121605 GCCCACACAAGTTGGTGGCACCTTTAGTCTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCA
129 GCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTC--TT-AAAGCCCA
*
121670 CACAAGTTGGTGGCACCTTTCCA-TCCCCAAAGAGCAGGACC
191 CACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACA
* * * *
121711 CCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGATGACTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-GACTTCT-CTT
*
121776 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
64 TTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
* *
121841 GCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTAAAGCCCACAC
129 GCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTAAAGCCCACAC
121906 AAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
194 AAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
* * * *
121944 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGGACAC--CTC--TT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAGACTTCTCTTTT
* ** *
122005 AAAACCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGC
66 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGC
* * *
122065 CCACACGAGGTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAT
131 CCACACAAGTTGGTGGCAC-CTTTAGTCCTCAAAGAGCAGGAT
122108 ACACTTTATT
Statistics
Matches: 362, Mismatches: 32, Indels: 19
0.88 0.08 0.05
Matches are distributed among these distances:
222 22 0.06
223 20 0.06
226 4 0.01
227 48 0.13
229 1 0.00
230 2 0.01
232 4 0.01
233 91 0.25
234 2 0.01
235 47 0.13
236 121 0.33
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (231 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAGACTTCTCTTTT
AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGC
CCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTAAAGCCCACACAA
GTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
Found at i:122995 original size:13 final size:13
Alignment explanation
Indices: 122977--123002 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122967 CATTTTTCTA
122977 TGTATCGATACAT
1 TGTATCGATACAT
122990 TGTATCGATACAT
1 TGTATCGATACAT
123003 CTATTCTTTG
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:123020 original size:34 final size:33
Alignment explanation
Indices: 122957--123023 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
122947 GCCAAGGGAA
*
122957 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATTATTCTATGTATCGATACAT
*
122990 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTATGTATCGATACAT
123024 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTATGTATCGATACAT
Found at i:123567 original size:11 final size:11
Alignment explanation
Indices: 123538--123569 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
123528 TCCTTTAGCA
*
123538 AAAAAAAAACC
1 AAAAAAACACC
123549 AAAAAAACACC
1 AAAAAAACACC
123560 AAAAAAACAC
1 AAAAAAACAC
123570 TATACCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACACC
Found at i:125425 original size:51 final size:53
Alignment explanation
Indices: 125361--125754 Score: 231
Period size: 51 Copynumber: 7.5 Consensus size: 53
125351 AGTTTCTCAA
* * * * *
125361 TTCTCCACAATCGGGGATATTCCAACTTCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
125412 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
125466 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** * *** * * * ***
125518 CCCTGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGAT
1 TTCT-TCACAATCG--GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * * * * *
125573 TT-TTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA--T
* * * *
125626 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-T
* * *
125679 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTT-CTAAAACATCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
125730 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
125755 CTCGTTATTT
Statistics
Matches: 269, Mismatches: 52, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
49 2 0.01
50 5 0.02
51 82 0.30
52 44 0.16
53 36 0.13
54 71 0.26
55 23 0.09
56 2 0.01
57 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:125546 original size:28 final size:27
Alignment explanation
Indices: 125475--125550 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
125465 TTTCTTCACA
125475 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
125502 ATCGGGGATACTCCAACCCTGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
125528 TTCGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
125551 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 22 0.51
28 16 0.37
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:125777 original size:28 final size:28
Alignment explanation
Indices: 125743--125814 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
125733 TCACAATCGA
* *
125743 GGATACTCCAACCTCGTTATTTCATCG-GG
1 GGATACTCCAACCCCGTTACTTC--CGAGG
125772 GG-TACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
125799 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
125815 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 31 0.79
29 2 0.05
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Found at i:125837 original size:264 final size:265
Alignment explanation
Indices: 125366--125859 Score: 778
Period size: 264 Copynumber: 1.9 Consensus size: 265
125356 CTCAATTCTC
* ** *
125366 CACAATCGGGGATATTCCAACTTCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
*
125431 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* * *
125496 TTAATCATCGGGGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTTC
131 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGACTTTATTTC
*
125561 CAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
196 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
125626 TTTTT
261 TTTTT
* *
125631 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGAT
* * *
125696 ACTCCAACTCCGATTTTATTT-C-TAAAACATCAATTT-TTCACAATCGAGGATACTCCAACCTC
65 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
* * * *
125758 GTTATTTCATCGGGGGTACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATT
130 GTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGACTTTATT
*
125823 TCCAAAATATTGATTTCTCATAATTGGGGATACTCCA
194 TCCAAAATATTGATTTCTCATAATCGGGGATACTCCA
125860 GCCTCGTTAT
Statistics
Matches: 208, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
263 28 0.13
264 100 0.48
265 46 0.22
266 34 0.16
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (265 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGACTTTATTTC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
TTTTT
Done.