Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001684.1 Hibiscus syriacus cultivar Beakdansim tig00003362_pilon, whole genome shotgun sequence
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: 91295
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2052 original size:43 final size:43
Alignment explanation
Indices: 1949--2145 Score: 278
Period size: 43 Copynumber: 4.6 Consensus size: 43
1939 GCAAAAACGA
* *
1949 TAAGGTCTTATCC-TTGCACATAGCAAA-AGAGCCTGGGGAAACTG
1 TAAGG-CTTA-CCATTGCACACAGCAAAGGGA-CCTGGGGAAACTG
*
1993 T-AGGCTTACCATTGCACACAACAAAGGGACCTGGGGAAACTG
1 TAAGGCTTACCATTGCACACAGCAAAGGGACCTGGGGAAACTG
2035 TAAGGCTTACCATTGCACACAGCAAAGGGACCTGGGGAAACTG
1 TAAGGCTTACCATTGCACACAGCAAAGGGACCTGGGGAAACTG
* *
2078 TAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GTGAAACTG
1 TAAGGCTTACCATTGCACACAGCAAAGGGACCTGGGGAAACTG
2120 TAAGGCTTA-CACTTGCACACAGCAAA
1 TAAGGCTTACCA-TTGCACACAGCAAA
2146 AGAACCTGCT
Statistics
Matches: 142, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
41 3 0.02
42 61 0.43
43 77 0.54
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (43 bp):
TAAGGCTTACCATTGCACACAGCAAAGGGACCTGGGGAAACTG
Found at i:2059 original size:85 final size:85
Alignment explanation
Indices: 1949--2153 Score: 283
Period size: 85 Copynumber: 2.4 Consensus size: 85
1939 GCAAAAACGA
*
1949 TAAGGTCTTATCC-TTGCACATAGCAAAAGAGCCTGGGGAAACTGT-AGGCTTACCATTGCACAC
1 TAAGG-CTTA-CCATTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTTACCATTGCACAC
2012 AACAAAGGGACCTGGGGAAACTG
64 AACAAAGGGACCT-GGGAAACTG
* *
2035 TAAGGCTTACCATTGCACACAGC-AAAGGGACCTGGGGAAACTGTAAGGCTTACCCTTGCACACA
1 TAAGGCTTACCATTGCACACAGCAAAAGAG-CCTGGGGAAACTGTAAGGCTTACCATTGCACACA
* *
2099 GCAAAGGGACCTGTGAAACTG
65 ACAAAGGGACCTGGGAAACTG
*
2120 TAAGGCTTA-CACTTGCACACAGCAAAAGAACCTG
1 TAAGGCTTACCA-TTGCACACAGCAAAAGAGCCTG
2154 CTGTAACGGT
Statistics
Matches: 107, Mismatches: 7, Indels: 11
0.86 0.06 0.09
Matches are distributed among these distances:
84 9 0.08
85 60 0.56
86 38 0.36
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (85 bp):
TAAGGCTTACCATTGCACACAGCAAAAGAGCCTGGGGAAACTGTAAGGCTTACCATTGCACACAA
CAAAGGGACCTGGGAAACTG
Found at i:5963 original size:32 final size:31
Alignment explanation
Indices: 5922--6022 Score: 89
Period size: 31 Copynumber: 3.2 Consensus size: 31
5912 AGTCGAGGGT
5922 TTACCTATGTTATACGAAACATATGAACAAAA
1 TTACCTATGTT-TACGAAACATATGAACAAAA
* * * * *
5954 TTACCTATGTCTTTCGAGACATACGGACAATA
1 TTACCTATGT-TTACGAAACATATGAACAAAA
* * *
5986 -TACCTATGTTCTAAGGAACATATGAAC-AAT
1 TTACCTATGTT-TACGAAACATATGAACAAAA
6016 TTACCTA
1 TTACCTA
6023 GGTTCTTCGG
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
30 2 0.04
31 25 0.47
32 25 0.47
33 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (31 bp):
TTACCTATGTTTACGAAACATATGAACAAAA
Found at i:6851 original size:21 final size:21
Alignment explanation
Indices: 6826--6868 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6816 TGTTGAGGTA
*
6826 CTGTAGCAAGGTATCGGTACC
1 CTGTAGCAAGGTATCGATACC
*
6847 CTGTAGCAGGGTATCGATACC
1 CTGTAGCAAGGTATCGATACC
6868 C
1 C
6869 CTCCAGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (21 bp):
CTGTAGCAAGGTATCGATACC
Found at i:6942 original size:12 final size:12
Alignment explanation
Indices: 6899--6943 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
6889 TTAACATTCG
6899 GGTACTG-TCAT
1 GGTACTGTTCAT
*
6910 GGTACTGTTTAT
1 GGTACTGTTCAT
*
6922 --TAATGTTCAT
1 GGTACTGTTCAT
6932 GGTACTGTTCAT
1 GGTACTGTTCAT
6944 ACAGTATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
10 8 0.30
11 7 0.26
12 12 0.44
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.44
Consensus pattern (12 bp):
GGTACTGTTCAT
Found at i:8825 original size:60 final size:59
Alignment explanation
Indices: 8727--8899 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 59
8717 TATGGCATTT
* * *
8727 ATTTTAAATTAGTTCTTCAACTTTT-ACATGTTTTAATTTCATCCCAAAACTATGAT-TATC
1 ATTTTAAATTAGTCCTTAAACTTTTAACA--TTTCAATTTCATCCCAAAACTATGATAT-TC
* *
8787 ATTTTAAATTAGTCCTTAAACTTTTGAACATTTCAATTTCATCCCCAATCTATGATATTC
1 ATTTTAAATTAGTCCTTAAACTTTT-AACATTTCAATTTCATCCCAAAACTATGATATTC
* * * * *
8847 -TTCTAAATTTGTCCCTAAACTTTTTAAACATTCCAATTTCATCTCAAAACTAT
1 ATTTTAAATTAGTCCTTAAAC-TTTT-AACATTTCAATTTCATCCCAAAACTAT
8900 AAATACCCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
59 17 0.18
60 75 0.78
61 1 0.01
62 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (59 bp):
ATTTTAAATTAGTCCTTAAACTTTTAACATTTCAATTTCATCCCAAAACTATGATATTC
Found at i:9967 original size:2 final size:2
Alignment explanation
Indices: 9960--9985 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9950 TGAAAACTGA
9960 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9986 CAGTTGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10679 original size:28 final size:28
Alignment explanation
Indices: 10648--10702 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
10638 ATCATATGAT
10648 CACTTCAACTATAACAATTGATAGTGAG
1 CACTTCAACTATAACAATTGATAGTGAG
10676 CACTTCAACTATAACAATTGATAGTGA
1 CACTTCAACTATAACAATTGATAGTGA
10703 TATCAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (28 bp):
CACTTCAACTATAACAATTGATAGTGAG
Found at i:13406 original size:23 final size:22
Alignment explanation
Indices: 13380--13435 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
13370 TTGTGGTGTA
* *
13380 CTATGGTTTTTTTTTGGTTTTGG
1 CTATGGTTTTTGTTT-GTGTTGG
*
13403 CTATGGTTGTTGTTTGTGTTGG
1 CTATGGTTTTTGTTTGTGTTGG
13425 CTAT-GTTTTTG
1 CTATGGTTTTTG
13436 GATTGTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 10 0.34
23 13 0.45
ACGTcount: A:0.05, C:0.05, G:0.29, T:0.61
Consensus pattern (22 bp):
CTATGGTTTTTGTTTGTGTTGG
Found at i:14119 original size:12 final size:12
Alignment explanation
Indices: 14102--14131 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14092 TGACTGGATT
14102 TGGACCCGTTTC
1 TGGACCCGTTTC
*
14114 TGGACCCGTTTT
1 TGGACCCGTTTC
14126 TGGACC
1 TGGACC
14132 TGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.30, G:0.27, T:0.33
Consensus pattern (12 bp):
TGGACCCGTTTC
Found at i:14177 original size:5 final size:5
Alignment explanation
Indices: 14169--14194 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14159 AAATTAAATT
14169 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
14195 TAATATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:14197 original size:19 final size:19
Alignment explanation
Indices: 14134--14194 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
14124 TTTGGACCTG
* * *
14134 AAAAGAAAAAAAAATATAT
1 AAAATAAAATAAAATAAAT
* * * *
14153 GAAATTAAATTAAATTAAT
1 AAAATAAAATAAAATAAAT
14172 AAAATAAAATAAAATAAAAT
1 AAAATAAAATAAAAT-AAAT
14192 AAA
1 AAA
14195 TAATATGATA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAAATAAAATAAAT
Found at i:14207 original size:19 final size:18
Alignment explanation
Indices: 14185--14224 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
14175 ATAAAATAAA
14185 ATAAAATAAATAATATGAT
1 ATAAAATAAATAATAT-AT
* *
14204 ATAAACTATATAATATAT
1 ATAAAATAAATAATATAT
14222 ATA
1 ATA
14225 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAAAATAAATAATATAT
Found at i:14249 original size:39 final size:37
Alignment explanation
Indices: 14206--14484 Score: 150
Period size: 37 Copynumber: 7.8 Consensus size: 37
14196 AATATGATAT
14206 AAACTATATAATATATATATTTCAAAAATATGTTTTAGA
1 AAACTATATAATATATATATTTCAAAAA-ATGTTTTA-A
* ** **
14245 AAAC--TAT-ATAT-TATACTT-AAAAAAAATTTCCA
1 AAACTATATAATATATATATTTCAAAAAATGTTTTAA
* * * *
14277 AAACTATATATTACATAGT-TTTC--AAAACGCTTTAA
1 AAACTATATAATATATA-TATTTCAAAAAATGTTTTAA
*
14312 AAA-TAT-T-ATATA-AGT-TTTCAAAAAAATGTTTTTA
1 AAACTATATAATATATA-TATTTC-AAAAAATGTTTTAA
* *
14346 AAACTATATATTATATA-ATTTCACAAAAAATGTTTTTTA
1 AAACTATATAATATATATATTT--CAAAAAATG-TTTTAA
* *
14385 AAACTATATACTATATATGTTTTC--AAAATGTTTTTAA
1 AAACTATATAATATATAT-ATTTCAAAAAATG-TTTTAA
* *
14422 AAACTATATAATATATAAACGGTTTC--AAAATGTTTTCA
1 AAACTATATAATATATATA---TTTCAAAAAATGTTTTAA
14460 AAACTATAT-ATATATAT-TTT-AAAAA
1 AAACTATATAATATATATATTTCAAAAA
14485 CTATATAATA
Statistics
Matches: 189, Mismatches: 27, Indels: 53
0.70 0.10 0.20
Matches are distributed among these distances:
31 7 0.04
32 8 0.04
33 8 0.04
34 26 0.14
35 21 0.11
36 9 0.05
37 46 0.24
38 23 0.12
39 38 0.20
41 3 0.02
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (37 bp):
AAACTATATAATATATATATTTCAAAAAATGTTTTAA
Found at i:14374 original size:37 final size:37
Alignment explanation
Indices: 14314--14439 Score: 139
Period size: 39 Copynumber: 3.3 Consensus size: 37
14304 CGCTTTAAAA
*
14314 ATATTATATAAGTTTTCAAAAAAATGTTTTTAAAACTAT
1 ATATTATATAA--TTTCACAAAAATGTTTTTAAAACTAT
14353 ATATTATATAATTTCACAAAAAATGTTTTTTAAAACTAT
1 ATATTATATAATTTCAC-AAAAATG-TTTTTAAAACTAT
* **
14392 ATACTATAT-ATGTTTTC-AAAATGTTTTTAAAAACTAT
1 ATATTATATAAT-TTCACAAAAATGTTTTT-AAAACTAT
*
14429 ATAATATATAA
1 ATATTATATAA
14440 ACGGTTTCAA
Statistics
Matches: 77, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
36 5 0.06
37 27 0.35
38 10 0.13
39 35 0.45
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
ATATTATATAATTTCACAAAAATGTTTTTAAAACTAT
Found at i:14479 original size:22 final size:23
Alignment explanation
Indices: 14454--14498 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
14444 TTTCAAAATG
*
14454 TTTTCAAAACTATAT-ATATATA
1 TTTTAAAAACTATATAATATATA
14476 TTTTAAAAACTATATAATATATA
1 TTTTAAAAACTATATAATATATA
14499 AATTTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAAACTATATAATATATA
Found at i:14518 original size:60 final size:60
Alignment explanation
Indices: 14416--14540 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
14406 TTCAAAATGT
*
14416 TTTTAAAAACTATATAATATATAAACGGTTTCAAAATGTTTTC-AAAACTATATATATATA
1 TTTTAAAAACTATATAATATATAAACGGTTTCAAAATATTTTCGAAAACTATATAT-TATA
** * *
14476 TTTTAAAAACTATATAATATATAAA-TTTTTGAAAATCATTTTCTGAAAATTATATATTATA
1 TTTTAAAAACTATATAATATATAAACGGTTTCAAAAT-ATTTTC-GAAAACTATATATTATA
14537 TTTT
1 TTTT
14541 GTCAAAAACA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
59 8 0.14
60 30 0.53
61 8 0.14
62 11 0.19
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (60 bp):
TTTTAAAAACTATATAATATATAAACGGTTTCAAAATATTTTCGAAAACTATATATTATA
Found at i:15420 original size:165 final size:165
Alignment explanation
Indices: 15156--15983 Score: 1117
Period size: 165 Copynumber: 5.1 Consensus size: 165
15146 TTGAGCTATA
* * * *
15156 CTGCAAATGATGTGCCCTCGAAGTTGAGTGCAATCGAA--C-----TCTTTGGCAGATAACCCTT
1 CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
* * *
15214 CTCGACTTAAGCTATGCTGCAAATGATGTACCGTT-GAGCTGAGCGTTGTCGAACTCAAAGGTCT
66 CTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
15278 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
130 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
* *
15314 CTGCAAATGAGGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
1 CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
15379 CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
66 CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* *
15444 TGGTTGGTAGATAACCCTTCTCGACTTAAGTTATG
131 TGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
*
15479 CTGCAAATAACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
1 CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
15544 CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
66 CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
15609 TGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
131 TGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
*
15644 CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGATCTCGGGGGTCTTTGGCAGATAGCCCTT
1 CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
* *
15709 CTCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCT
66 CTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
* * * *
15773 TTTGTTGCCAGACAACCCTTCTAGACTTAAGTTGTG
130 TTGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
** * * * * ** * ** *
15809 CTGCAAATGATATG-CCTTGGAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGTTGGCAGATAAC
1 CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAGATAGC
* * * * * **
15873 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
62 CCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * * *
15938 GTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATA
126 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
15974 CTGCAAATGA
1 CTGCAAATGA
15984 TTTGGTTTTA
Statistics
Matches: 604, Mismatches: 51, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
158 35 0.06
160 1 0.00
164 25 0.04
165 471 0.78
166 3 0.00
167 1 0.00
168 44 0.07
169 24 0.04
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (165 bp):
CTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTT
CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
TGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTG
Found at i:15982 original size:249 final size:248
Alignment explanation
Indices: 15131--15984 Score: 1054
Period size: 249 Copynumber: 3.5 Consensus size: 248
15121 TTATTGACAT
* * * * * *
15131 ATAACCCTTCTTGCCTTGAGCTATACTGCAAATGATGTGCCCTCGAAGTTGAGTGCAATCGAA--
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
* *
15194 C-----TCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCGTTGAGCT
66 CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCT
* *
15254 GAGCGTTGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTGTGCTGCA
131 GAGCGTAGTCGAACTCAAAGGTCTTTTGTT-GCAGATAACCCTTCTCGACTTAAGTTGTGCTGCA
* * * * * **
15319 AATGAGGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAG
195 AATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
* * * * *
15370 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
** * * * * * * *
15434 CGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATAACGTGCCCTCG
66 CGGGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTG
* * * *** * * *
15499 AAGATGAGTGTAATCGAACTCGGGGGTC-TTTG--GCAGATAGCCCTTCTCGACTTAAGCTATGC
127 -AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCAGATAACCCTTCTCGACTTAAGTTGTGC
15561 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
191 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
* * * * *
15619 ATAACCCTTCTCGACTTAAGTTGTGCTGCAAATGACGTGCCCTCGAAGATGAGTGTAATCGATCT
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
*
15684 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCT
66 CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCT
* *
15749 GAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCCAGACAACCCTTCTAGACTTAAGTTGTGCTGCA
131 GAGCGTAGTCGAACTCAAAGGTCTTTTGTTG-CAGATAACCCTTCTCGACTTAAGTTGTGCTGCA
* * *
15814 AATGATATGCCTTGGAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGTTGGCAG
195 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
*
15868 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
*
15933 CGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGAT
66 CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGAT
15985 TTGGTTTTAA
Statistics
Matches: 520, Mismatches: 74, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
238 17 0.03
239 34 0.07
240 1 0.00
245 50 0.10
246 87 0.17
247 2 0.00
248 2 0.00
249 282 0.54
250 45 0.09
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (248 bp):
ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCT
GAGCGTAGTCGAACTCAAAGGTCTTTTGTTGCAGATAACCCTTCTCGACTTAAGTTGTGCTGCAA
ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
Found at i:19065 original size:19 final size:19
Alignment explanation
Indices: 19041--19086 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
19031 AGTTTATGTG
19041 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
19060 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
19079 AATGCAAA
1 AATGCAAA
19087 ATGTCTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:22449 original size:39 final size:37
Alignment explanation
Indices: 22406--22684 Score: 141
Period size: 37 Copynumber: 7.8 Consensus size: 37
22396 AAAATGATAT
22406 AAACTATATAATATATATATTTCAAAAATATGTTTTAGA
1 AAACTATATAATATATATATTTCAAAAA-ATGTTTTA-A
* ** **
22445 AAAC--TAT-ATAT-TATACTT-AAAAAAAATTTCCA
1 AAACTATATAATATATATATTTCAAAAAATGTTTTAA
* * * *
22477 AAACTATATATTACATAGT-TTTC--AAAACGCTTTAA
1 AAACTATATAATATATA-TATTTCAAAAAATGTTTTAA
* *
22512 AAA-TAT-T-ATATA-AGT-TTTCAAAAAAATATTTTTA
1 AAACTATATAATATATA-TATTTC-AAAAAATGTTTTAA
* *
22546 AAACTATATATTATATA-ATTTCACAAAAAATGTTTTTTA
1 AAACTATATAATATATATATTT--CAAAAAATG-TTTTAA
* *
22585 AAACTATATACTATATATGTTTTC--AAAATGTTTTTAA
1 AAACTATATAATATATAT-ATTTCAAAAAATG-TTTTAA
* *
22622 AAACTATATAATATATAAACGGTTTC--AAAATGTTTTCA
1 AAACTATATAATATATATA---TTTCAAAAAATGTTTTAA
22660 AAACTATAT-ATATATAT-TTT-AAAAA
1 AAACTATATAATATATATATTTCAAAAA
22685 CTATATAATA
Statistics
Matches: 187, Mismatches: 29, Indels: 53
0.70 0.11 0.20
Matches are distributed among these distances:
31 7 0.04
32 8 0.04
33 8 0.04
34 25 0.13
35 21 0.11
36 9 0.05
37 46 0.25
38 22 0.12
39 38 0.20
41 3 0.02
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (37 bp):
AAACTATATAATATATATATTTCAAAAAATGTTTTAA
Found at i:22574 original size:37 final size:37
Alignment explanation
Indices: 22514--22639 Score: 121
Period size: 39 Copynumber: 3.3 Consensus size: 37
22504 CGCTTTAAAA
*
22514 ATATTATATAAGTTTTCAAAAAAATATTTTTAAAACTAT
1 ATATTATATAA--TTTCACAAAAATATTTTTAAAACTAT
*
22553 ATATTATATAATTTCACAAAAAATGTTTTTTAAAACTAT
1 ATATTATATAATTTCAC-AAAAAT-ATTTTTAAAACTAT
* ** *
22592 ATACTATAT-ATGTTTTC-AAAATGTTTTTAAAAACTAT
1 ATATTATATAAT-TTCACAAAAATATTTTT-AAAACTAT
*
22629 ATAATATATAA
1 ATATTATATAA
22640 ACGGTTTCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
36 5 0.07
37 26 0.35
38 9 0.12
39 35 0.47
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
ATATTATATAATTTCACAAAAATATTTTTAAAACTAT
Found at i:22679 original size:22 final size:23
Alignment explanation
Indices: 22654--22698 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
22644 TTTCAAAATG
*
22654 TTTTCAAAACTATAT-ATATATA
1 TTTTAAAAACTATATAATATATA
22676 TTTTAAAAACTATATAATATATA
1 TTTTAAAAACTATATAATATATA
22699 AATTTTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAAACTATATAATATATA
Found at i:22718 original size:60 final size:59
Alignment explanation
Indices: 22616--22740 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 59
22606 TTCAAAATGT
*
22616 TTTTAAAAACTATATAATATATAAACGGTTTCAAAATGTTTTC-AAAACTATATATATATA
1 TTTTAAAAACTATATAATATATAAAC-GTTTCAAAATATTTTCGAAAACTATATAT-TATA
* *
22676 TTTTAAAAACTATATAATATATAAA-TTTTCGAAAATCATTTTCTGAAAATTATATATTATA
1 TTTTAAAAACTATATAATATATAAACGTTTC-AAAAT-ATTTTC-GAAAACTATATATTATA
22737 TTTT
1 TTTT
22741 GTCAAAAACA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
58 4 0.07
59 5 0.09
60 30 0.52
61 8 0.14
62 11 0.19
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (59 bp):
TTTTAAAAACTATATAATATATAAACGTTTCAAAATATTTTCGAAAACTATATATTATA
Found at i:23495 original size:20 final size:20
Alignment explanation
Indices: 23472--23535 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
23462 TAGTATTTAG
23472 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
23492 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
23512 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
23531 TTAAA
1 ATAAA
23536 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:23505 original size:19 final size:20
Alignment explanation
Indices: 23481--23530 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
23471 GATAAATTTA
*
23481 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
23500 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
23521 TT-ATAATTTT
1 TTAATAATTTT
23531 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:23533 original size:31 final size:30
Alignment explanation
Indices: 23448--23534 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
23438 TTCGATAATA
* *
23448 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
23479 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
23510 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
23535 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:24292 original size:31 final size:31
Alignment explanation
Indices: 24257--24324 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
24247 TCAATAAAGT
*
24257 TTAAAAAATTATAAAA-TACTTATTAAATTTA
1 TTAAAAAATTATAAAATTA-TTAATAAATTTA
*
24288 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAATTATTAATAAATTTA
24319 TCTAAA
1 T-TAAA
24325 TACTATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (31 bp):
TTAAAAAATTATAAAATTATTAATAAATTTA
Found at i:24319 original size:20 final size:20
Alignment explanation
Indices: 24252--24319 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
24242 TTTCATCAAT
*
24252 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
24270 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
24291 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
24310 ATAA-ATTTAT
1 A-AAGATTTAT
24320 CTAAATACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:24332 original size:31 final size:31
Alignment explanation
Indices: 24257--24342 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 31
24247 TCAATAAAGT
* * *
24257 TTAAAAAATTATAAAA-TACTTATTAAATTTA
1 TTAAAAGACTATAAAATTA-TTAATAAATTTA
*
24288 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAGACTATAAAATTATTAATAAATTTA
*
24319 TCT-AAATACTATAAATAATTATTA
1 T-TAAAAGACTAT-AA-AATTATTA
24343 TATTATCGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 34 0.72
32 5 0.11
33 8 0.17
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (31 bp):
TTAAAAGACTATAAAATTATTAATAAATTTA
Found at i:29360 original size:53 final size:51
Alignment explanation
Indices: 29262--29372 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 51
29252 GCCCGTAAGC
*
29262 AATTTTAACTAATCATGTTGCACTGTCTCTGTGTCAATGATAAAAATTTTA
1 AATTTTAACTAATCATGTTGCACTGTCTCTGTGTCAATGATAAAAAATTTA
29313 AATTTTAACTAATCATGTTGCACTCTGTCTCTGTGTCAATGATAAAAAATTTA
1 AATTTTAACTAATCATGTTGCA--CTGTCTCTGTGTCAATGATAAAAAATTTA
29366 AATTTTA
1 AATTTTA
29373 TACAATTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 22 0.39
53 35 0.61
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (51 bp):
AATTTTAACTAATCATGTTGCACTGTCTCTGTGTCAATGATAAAAAATTTA
Found at i:32679 original size:14 final size:15
Alignment explanation
Indices: 32651--32691 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32641 TTCGATGTTA
32651 AAAAATAAA-TA-TT
1 AAAAATAAATTATTT
*
32664 -AAAATAATTTATTT
1 AAAAATAAATTATTT
32678 AAAAATAAATTATT
1 AAAAATAAATTATT
32692 ATTTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.30
13 2 0.09
14 2 0.09
15 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAATAAATTATTT
Found at i:34138 original size:11 final size:10
Alignment explanation
Indices: 34108--34148 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
34098 GGGCTTTGTA
34108 ATTTAATATT
1 ATTTAATATT
34118 ATTTATATATGT
1 ATTTA-ATAT-T
34130 ATTTAATATAT
1 ATTTAATAT-T
34141 ATTTAATA
1 ATTTAATA
34149 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:34152 original size:3 final size:3
Alignment explanation
Indices: 34144--34226 Score: 130
Period size: 3 Copynumber: 27.7 Consensus size: 3
34134 AATATATATT
*
34144 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
34192 TGA TAA TAA TAA TAA TAA TAA TAA TTA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
34227 TGGGTAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:34681 original size:116 final size:113
Alignment explanation
Indices: 34544--35410 Score: 1158
Period size: 113 Copynumber: 7.6 Consensus size: 113
34534 GATAGAATTA
* * *
34544 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTTTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * * * * *
34609 GAACTCTATCTGGCAATGTTGATACATCAAATGATGAATTCAAACAAAAGA
63 GAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGG
*
34660 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* ** * * * *
34725 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGA
63 GAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGG
*
34776 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *
34841 CTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTTTTTCTGGAAAAGCTGATCCATCAA-ATGATGAATTCAAGCAAAAGG
*
34890 TTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * * *
34955 CCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTTTTTCTGGAAAAGCTGATCCATCAA-ATGATGAATTCAAGCAAAAGG
* *
35004 TTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTATTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * **
35069 CTTTTTCTGGAAAATCTGATCCATCAAATGATGGATTTGAGCAAAAGG
66 CTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGG
** *
35117 TTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * **
35182 CTTTTTCTGGAAAAGCTGATCCACCAGATGATGGATTTGAGCAAAAGG
66 CTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGG
*
35230 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * **
35295 CTTTTTCTGGAAAAGCTGATCTATCAGATGATGGATTTGAGCAAAAGG
66 CTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGG
* *
35343 TTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
35408 CTT
66 CTT
35411 GAACTGGTAC
Statistics
Matches: 700, Mismatches: 50, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
113 331 0.47
114 212 0.30
116 157 0.22
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGG
Found at i:35925 original size:22 final size:22
Alignment explanation
Indices: 35847--35920 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
35837 GATAAAACTT
* * *
35847 TCATCTTTGAAAAGATAATCTG
1 TCATCTTTAAAAAGAGAATCTA
*
35869 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
35891 TCATCTTTAAAGAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
35913 TCATCTTT
1 TCATCTTT
35921 GAAGAATGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:38701 original size:114 final size:114
Alignment explanation
Indices: 38501--38724 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
38491 GATCATTCAG
* * *
38501 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAAATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAAATCAGATAACTCAAAGA
* *
38566 ACACTTCGAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGAAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGAAAA
* * *
38615 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAAATCAGATAACTCAAAGA
*
38680 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAG
38725 CACATGGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAAATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGAAAA
Found at i:40981 original size:17 final size:16
Alignment explanation
Indices: 40959--40991 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
40949 CTTGATTCAA
40959 TTTTCCTTTTTCTTTTT
1 TTTTCCTTTTT-TTTTT
40976 TTTTCCTTTTTTTTTT
1 TTTTCCTTTTTTTTTT
40992 CTTCTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCCTTTTTTTTTT
Found at i:44210 original size:14 final size:14
Alignment explanation
Indices: 44188--44225 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
44178 CAAAGATGCC
44188 AAATGTAAATATG-
1 AAATGTAAATATGT
*
44201 AAATTGTAAAAATGT
1 AAA-TGTAAATATGT
44216 AAATGTAAAT
1 AAATGTAAAT
44226 TATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (14 bp):
AAATGTAAATATGT
Found at i:46597 original size:14 final size:15
Alignment explanation
Indices: 46569--46609 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46559 TTCGATGTTA
46569 AAAAATAAA-TA-TT
1 AAAAATAAATTATTT
*
46582 -AAAATAATTTATTT
1 AAAAATAAATTATTT
46596 AAAAATAAATTATT
1 AAAAATAAATTATT
46610 ATTTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.30
13 2 0.09
14 2 0.09
15 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAATAAATTATTT
Found at i:48054 original size:11 final size:10
Alignment explanation
Indices: 48024--48064 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
48014 GGGCTTTGTA
48024 ATTTAATATT
1 ATTTAATATT
48034 ATTTATATATGT
1 ATTTA-ATAT-T
48046 ATTTAATATAT
1 ATTTAATAT-T
48057 ATTTAATA
1 ATTTAATA
48065 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:48068 original size:3 final size:3
Alignment explanation
Indices: 48060--48145 Score: 145
Period size: 3 Copynumber: 28.7 Consensus size: 3
48050 AATATATATT
*
48060 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
48108 TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48146 TGGGTAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:53715 original size:257 final size:249
Alignment explanation
Indices: 53257--53800 Score: 736
Period size: 257 Copynumber: 2.1 Consensus size: 249
53247 TTTATTCATA
* *
53257 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGGGTTTCTAATTCATATATT
1 TATTGAATAAAAATAATTTTTTATTA-TT----TCGGGTCGGGTCGGATTTCTAATTCATATATT
*
53322 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTAGGGTCG
61 CGGGTCGGGTGAAACTTTATTTTGGT---GTCGGGTCGGGTTTTTTAAGTGTGATATTAGGGTCG
* * * *
53387 GGTTGAGTTCGAGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATA
123 GGTGGAGTTCGAGTTTAGGGTGAAAAAAACCCGACCCGAAAAAATATATAATTTTACCTTATATA
* *
53452 TTTAGGAATAATTACAATAATACCC-CTATATATATATATTTTTTCAATTAAGTTATTGTTTT
188 TTTAGGAATAATTACAATAATACCCTCTATATATA-ATATTTTTTCAATTAAGTCAATGTTTT
53514 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGAT
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATA-T----T
*
53579 CGGGTCGGGTGAAACTTTATTTT-GT-TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGT
61 CGGGTCGGGTGAAACTTTATTTTGGTGTCGGGTCGGGTTTTTTAAGTGTGATATTAGGGTCGGGT
* *
53642 CGGA-TTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAAAAGTATATAATTTTACTTTAT
126 -GGAGTTCGAGTTTAGGGTGAAAAAAA-C---CCGACCCGAAAAAA-TATATAATTTTACCTTAT
* *
53706 ATGTTTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTTCAATTAAGTCAATGTTT
185 ATATTTAGGAATAATTACAATAATACCC-TCTATATATAATATTTTTTCAATTAAGTCAATGTTT
53771 T
249 T
*
53772 TATTGAATAAAAATAATTTTTCATTATTT
1 TATTGAATAAAAATAATTTTTTATTATTT
53801 TGTGTCATGT
Statistics
Matches: 259, Mismatches: 15, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
252 85 0.33
253 4 0.02
256 16 0.06
257 93 0.36
258 52 0.20
259 9 0.03
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (249 bp):
TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
CGGGTGAAACTTTATTTTGGTGTCGGGTCGGGTTTTTTAAGTGTGATATTAGGGTCGGGTGGAGT
TCGAGTTTAGGGTGAAAAAAACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAA
TAATTACAATAATACCCTCTATATATAATATTTTTTCAATTAAGTCAATGTTTT
Found at i:54196 original size:17 final size:18
Alignment explanation
Indices: 54171--54217 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
54161 TATAGAATTG
* *
54171 GATTCCAATTCC-TGACA
1 GATTTCAATTCCTTCACA
54188 GATTTCAATTCCTTCACA
1 GATTTCAATTCCTTCACA
54206 GATTTCAATTCC
1 GATTTCAATTCC
54218 CTCATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (18 bp):
GATTTCAATTCCTTCACA
Found at i:59162 original size:16 final size:17
Alignment explanation
Indices: 59131--59165 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59121 TTTCGGTTTG
*
59131 AAAAAAACCGATTTTTT
1 AAAAAAACCGAGTTTTT
59148 AAAAAAACC-AGTTTTT
1 AAAAAAACCGAGTTTTT
59164 AA
1 AA
59166 TCTGGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (17 bp):
AAAAAAACCGAGTTTTT
Found at i:69911 original size:26 final size:26
Alignment explanation
Indices: 69875--69928 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
69865 CCTGTATTTG
69875 CCGGAATTCTTCACATGCATCCCCAT
1 CCGGAATTCTTCACATGCATCCCCAT
69901 CCGGAATTCTTCACATGCATCCCCAT
1 CCGGAATTCTTCACATGCATCCCCAT
69927 CC
1 CC
69929 CATGCACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.26
Consensus pattern (26 bp):
CCGGAATTCTTCACATGCATCCCCAT
Found at i:73277 original size:14 final size:14
Alignment explanation
Indices: 73258--73287 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73248 CATGTGGTAC
*
73258 ATTTTTATGGATAA
1 ATTTTTATGAATAA
73272 ATTTTTATGAATAA
1 ATTTTTATGAATAA
73286 AT
1 AT
73288 CACTCAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATTTTTATGAATAA
Found at i:74945 original size:17 final size:17
Alignment explanation
Indices: 74919--74952 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74909 TAAAAATATA
74919 AAATTATTATATATTTT
1 AAATTATTATATATTTT
* *
74936 AAATTTTTATGTATTTT
1 AAATTATTATATATTTT
74953 TTATTGAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
AAATTATTATATATTTT
Found at i:75012 original size:30 final size:30
Alignment explanation
Indices: 74977--75033 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
74967 TTTTCGTTCT
* *
74977 TTAAAATTTTATAAGTTCAAGTTTATCGAC
1 TTAAAATATTATAAGTTAAAGTTTATCGAC
75007 TTAAAATATTATAAGTTAAAGTTTATC
1 TTAAAATATTATAAGTTAAAGTTTATC
75034 CCCCTAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (30 bp):
TTAAAATATTATAAGTTAAAGTTTATCGAC
Found at i:77856 original size:20 final size:20
Alignment explanation
Indices: 77833--77884 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
77823 AACGCGATCC
77833 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
77853 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
77873 CCAAAATCGCAA
1 CCAGAATCGCAA
77885 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:77965 original size:20 final size:20
Alignment explanation
Indices: 77940--78133 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
77930 GATTTTCCAT
* *
77940 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
77960 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
77980 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
78000 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
78020 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
78040 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
78060 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
78080 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
78101 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
78121 AATCGCAACGCGA
1 AATCGCAACGCGA
78134 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:77985 original size:40 final size:39
Alignment explanation
Indices: 77936--78133 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
77926 TTGCGATTTT
* ** *
77936 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
77974 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
78015 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
78055 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
78094 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
78134 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:78023 original size:60 final size:60
Alignment explanation
Indices: 77940--78132 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
77930 GATTTTCCAT
* ** * *
77940 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
78000 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
78060 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
78121 AATCGCAACGCG
1 AATCGCAACGCG
78133 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:78552 original size:33 final size:33
Alignment explanation
Indices: 78513--78583 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
78503 TTCACTTAGA
*
78513 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
78546 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
78579 TTTCA
1 TTTCA
78584 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:78723 original size:14 final size:14
Alignment explanation
Indices: 78704--78758 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
78694 AGAATGACTG
78704 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
78718 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
78737 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
78751 TCGCAACG
1 TCGCAACG
78759 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:78741 original size:33 final size:33
Alignment explanation
Indices: 78704--78774 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
78694 AGAATGACTG
**
78704 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
78737 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
78770 TCGCA
1 TCGCA
78775 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:78792 original size:19 final size:19
Alignment explanation
Indices: 78770--78867 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
78760 GAAACCAAAA
*
78770 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
78789 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
78803 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
78822 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
78836 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
78855 TCGCGTTGCGATT
1 TCGCGTTGCGATT
78868 CTGTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:78811 original size:14 final size:14
Alignment explanation
Indices: 78792--78881 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
78782 TTTCATTTCG
78792 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
78806 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
78825 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
78839 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
*
78856 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTCT
78872 CGTTGCGATT
1 CGTTGCGATT
78882 TTCATTTCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 7 0.11
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:78817 original size:33 final size:33
Alignment explanation
Indices: 78775--78889 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
78765 CAAAATCGCA
78775 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
78808 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
78841 TTGCGATTGTCATCTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
78874 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
78890 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:80895 original size:92 final size:93
Alignment explanation
Indices: 80575--80949 Score: 699
Period size: 91 Copynumber: 4.1 Consensus size: 93
80565 TAGATTGCTT
*
80575 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80640 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
80668 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80732 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
80759 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80824 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
80851 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80916 TTTGTC-TTG-TTTGTCTTTTGG-TGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
80941 AGTAAATTT
1 AGTAAATTT
80950 ATCCATTCAA
Statistics
Matches: 279, Mismatches: 1, Indels: 7
0.97 0.00 0.02
Matches are distributed among these distances:
90 13 0.05
91 101 0.36
92 99 0.35
93 66 0.24
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:80901 original size:183 final size:183
Alignment explanation
Indices: 80575--80951 Score: 697
Period size: 183 Copynumber: 2.1 Consensus size: 183
80565 TAGATTGCTT
80575 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80640 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
80705 GTGTATTCTTTAACACTGTGAAATA-TA-TTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTC-TTG-TTTGTCTTTTGG-TGAA
*
80759 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
80824 TTTGTC-TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
80888 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTGTTTGTCTTTTGGTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTGTTTGTCTTTTGGTGAA
80941 AGTAAATTTAT
1 AGTAAATTTAT
80952 CCATTCAAGT
Statistics
Matches: 189, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
182 14 0.07
183 95 0.50
184 75 0.40
185 5 0.03
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTGTTTGTCTTTTGGTGAA
Found at i:81033 original size:19 final size:19
Alignment explanation
Indices: 80993--81121 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
80983 TAGTTTACTT
* *
80993 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
81013 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
81032 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
81051 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
81065 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
81084 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
81098 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
81117 TCGCA
1 TCGCA
81122 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:81072 original size:33 final size:32
Alignment explanation
Indices: 81029--81121 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
81019 CGCGAAACCA
**
81029 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
81061 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
81094 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
81122 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:81119 original size:52 final size:52
Alignment explanation
Indices: 80993--81121 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
80983 TAGTTTACTT
**
80993 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
81045 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
81098 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
81122 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:81158 original size:14 final size:14
Alignment explanation
Indices: 81139--81194 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
81129 TTTCATTTCG
81139 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
81153 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TTT
*
81169 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
81185 CGTTGCGATT
1 CGTTGCGATT
81195 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 9 0.24
17 3 0.08
18 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:81203 original size:33 final size:33
Alignment explanation
Indices: 81122--81213 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
81112 CAAAATCGCA
*
81122 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
81155 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
81187 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
81214 TGGTTTCGCG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:83189 original size:13 final size:14
Alignment explanation
Indices: 83163--83193 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
83153 GTTTAATTGA
83163 TTGTAAAAGATGAT
1 TTGTAAAAGATGAT
83177 TTGTAAAAG-TGAT
1 TTGTAAAAGATGAT
83190 TTGT
1 TTGT
83194 GTAATTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (14 bp):
TTGTAAAAGATGAT
Found at i:83315 original size:19 final size:19
Alignment explanation
Indices: 83299--83400 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
83289 AAAAATGACT
83299 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
83318 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
83332 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
83351 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
83370 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
83390 ATCGCAATGCG
1 ATCGCAATGCG
83401 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:83341 original size:33 final size:36
Alignment explanation
Indices: 83299--83396 Score: 139
Period size: 33 Copynumber: 2.7 Consensus size: 36
83289 AAAAATGACT
*
83299 ATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
83332 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
83370 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGC-GAAATGAAAATCGCAA
83397 TGCGTTTATA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
33 26 0.45
35 2 0.03
37 1 0.02
38 13 0.22
39 16 0.28
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:83465 original size:19 final size:19
Alignment explanation
Indices: 83429--83680 Score: 289
Period size: 19 Copynumber: 14.4 Consensus size: 19
83419 GATTATCTCG
83429 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
83447 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
83466 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
83480 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
83499 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
83518 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
83537 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
83556 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
83570 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
83589 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
83607 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
83621 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
83641 TTGCGA-TTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
83654 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
83673 TTGCGATT
1 TTGCGATT
83681 GTATTTTCCG
Statistics
Matches: 203, Mismatches: 8, Indels: 45
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.02
14 23 0.11
15 1 0.00
16 23 0.11
17 21 0.10
18 32 0.16
19 92 0.45
20 6 0.03
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:83468 original size:51 final size:52
Alignment explanation
Indices: 83407--83614 Score: 232
Period size: 52 Copynumber: 3.9 Consensus size: 52
83397 TGCGTTTATA
* *
83407 ATTTCACATTGCGATTATCTCGTTGCGATTTTCA-TTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
83458 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
83510 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
83565 -TGTCG--TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCATTGCGATT
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATT
83615 CTCTCGTTGC
Statistics
Matches: 142, Mismatches: 7, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
51 48 0.34
52 56 0.39
54 6 0.04
55 8 0.06
57 24 0.17
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:83530 original size:71 final size:70
Alignment explanation
Indices: 83429--83680 Score: 310
Period size: 71 Copynumber: 3.6 Consensus size: 70
83419 GATTATCTCG
83429 TTGCGATTTTCATTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATT
1 TTGCGATTTTCATTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATT
83494 TCGCA
66 TCGCA
*
83499 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCA-TTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
83562 TTC-TGTCG--
60 TTCATTTCGCA
*
83570 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCA-TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
83634 TTCCGCA
65 TT-CGCA
* *
83641 TTGCGA-TTTCA-T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTCGCATTGCGATTTTCATTTCGCATTGCGATT
83681 GTATTTTCCG
Statistics
Matches: 162, Mismatches: 7, Indels: 30
0.81 0.04 0.15
Matches are distributed among these distances:
65 11 0.07
66 19 0.12
67 8 0.05
68 5 0.03
69 2 0.01
70 35 0.22
71 62 0.38
73 6 0.04
74 8 0.05
76 6 0.04
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (70 bp):
TTGCGATTTTCATTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATT
TCGCA
Found at i:83624 original size:51 final size:52
Alignment explanation
Indices: 83429--83649 Score: 258
Period size: 52 Copynumber: 4.2 Consensus size: 52
83419 GATTATCTCG
*
83429 TTGCGATTTTCA-TTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
83480 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
83537 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
83589 TTGCGA-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
83641 TTGCGATTT
1 TTGCGATTT
83650 CATGTTGGGA
Statistics
Matches: 158, Mismatches: 4, Indels: 14
0.90 0.02 0.08
Matches are distributed among these distances:
51 51 0.32
52 66 0.42
53 2 0.01
54 7 0.04
55 8 0.05
57 24 0.15
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:83675 original size:52 final size:50
Alignment explanation
Indices: 83510--83680 Score: 211
Period size: 52 Copynumber: 3.3 Consensus size: 50
83500 TGCGATTTTC
* *
83510 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
1 ATTTCGCGTTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCATTGCG
83561 A-TTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCG
1 ATTTC-G-CGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCG
* * * *
83612 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTCATGTTGGGATTTTC-
1 ATT-TCGCGTTGCGATTTTCATTT-CGCATTGCGATTTCAT-TTCGCA-TTGCG
83665 ATTTCGCGTTGCGATT
1 ATTTCGCGTTGCGATT
83681 GTATTTTCCG
Statistics
Matches: 106, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
50 3 0.03
51 36 0.34
52 55 0.52
53 9 0.08
54 3 0.03
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (50 bp):
ATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCG
Found at i:83687 original size:141 final size:139
Alignment explanation
Indices: 83391--83680 Score: 430
Period size: 141 Copynumber: 2.1 Consensus size: 139
83381 GAAATGAAAA
*
83391 TCGCAATGCG-TTTATAATTTCACATTGCGATTATCTCGTTGCGATTTTCATTCGCATTGCGATT
1 TCGCATTGCGATTT-TAATTTCACATTGCGATTATCTCGTTGCGATTTTCATTCGCATTGCGATT
*
83455 TTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
65 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCA-TTCG-ATT
83520 GCGATTTTCATT
128 GCGATTTTCATT
* * *
83532 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGA-T
1 TCGCATTGCGATTTTAATTTCACATTGCGATTATCTCGTTGCGATTTTCA-TTCGCATTGCGATT
83596 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA-TTTCA-T-G-TTG
65 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTCGATTG
*
83657 GGATTTTCATT
129 CGATTTTCATT
*
83668 TCGCGTTGCGATT
1 TCGCATTGCGATT
83681 GTATTTTCCG
Statistics
Matches: 139, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
136 25 0.18
138 1 0.01
139 1 0.01
141 87 0.63
142 25 0.18
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (139 bp):
TCGCATTGCGATTTTAATTTCACATTGCGATTATCTCGTTGCGATTTTCATTCGCATTGCGATTT
TCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTCGATTGCG
ATTTTCATT
Found at i:86184 original size:24 final size:24
Alignment explanation
Indices: 86150--86196 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
86140 CTGAAACATC
86150 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
86174 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
86197 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:86920 original size:20 final size:20
Alignment explanation
Indices: 86878--87285 Score: 486
Period size: 20 Copynumber: 20.4 Consensus size: 20
86868 AAATTTCAGT
* * *
86878 GTTGTGATTTACAGAT-CTC
1 GTTGCGATTTACGGATACGC
*
86897 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
86917 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
86937 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
86957 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
86977 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
86997 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
87017 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
87037 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
87057 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
87077 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
87097 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
87117 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
87137 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
87157 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
87177 ATTGCGATTTACCTATACGC
1 GTTGCGATTTACGGATACGC
*
87197 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
87217 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
87237 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
87257 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
87277 GTTGCGATT
1 GTTGCGATT
87286 ATGTAAAATC
Statistics
Matches: 343, Mismatches: 35, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
19 19 0.06
20 319 0.93
21 5 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:87366 original size:20 final size:20
Alignment explanation
Indices: 87341--87392 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
87331 AAGAATCGCG
*
87341 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
87361 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
87381 TTGCGATTCTGG
1 TTGCGATTCTGG
87393 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:90312 original size:16 final size:16
Alignment explanation
Indices: 90290--90328 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
90280 TGGTTAACCG
90290 AATTGTTAC-AAAATA
1 AATTGTTACTAAAATA
90305 ATATTGTT-CTAAAATA
1 A-ATTGTTACTAAAATA
90321 AATTGTTA
1 AATTGTTA
90329 GCATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (16 bp):
AATTGTTACTAAAATA
Done.