Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015228.1 Kokia drynarioides strain JFW-HI SEQ_130273, 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: 217377
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 267 characters in sequence are not A, C, G, or T
Found at i:8564 original size:55 final size:55
Alignment explanation
Indices: 8498--8655 Score: 156
Period size: 55 Copynumber: 2.9 Consensus size: 55
8488 CAATTTTTGT
* * * * * *
8498 AAGAAAACCTTTCTAGTTGAT-TCTGTTAAAGGAATCTTCGTGGCTAATTTTTTTA
1 AAGAAAGCCTTTCTAGCT-ATCTCTATTAAAGGAACCTTCGTGGCTAATTCTGTTA
* * * *
8553 AAGGAAGCCTTTTTGGCTATCTCTATTAAAGGAGCCTTCGTGGCTAATTCTGTTA
1 AAGAAAGCCTTTCTAGCTATCTCTATTAAAGGAACCTTCGTGGCTAATTCTGTTA
* * * * *
8608 AAGAAAGTCTTTCTGGCTATCTCTATTAAAAGACGCCTTCATGGCTAA
1 AAGAAAGCCTTTCTAGCTATCTCTATTAAAGGA-ACCTTCGTGGCTAA
8656 CTCTAAGGAA
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
54 2 0.02
55 71 0.83
56 13 0.15
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (55 bp):
AAGAAAGCCTTTCTAGCTATCTCTATTAAAGGAACCTTCGTGGCTAATTCTGTTA
Found at i:8581 original size:28 final size:28
Alignment explanation
Indices: 8550--8660 Score: 102
Period size: 28 Copynumber: 4.0 Consensus size: 28
8540 GCTAATTTTT
**
8550 TTAAAGGAAGCCTTTTTGGCTATCTCTA
1 TTAAAGGAAGCCTTCATGGCTATCTCTA
* *
8578 TTAAAGG-AGCCTTCGTGGCTAAT-TCTG
1 TTAAAGGAAGCCTTCATGGCT-ATCTCTA
* *
8605 TTAAAGAAAGTCTTTC-TGGCTATCTCTA
1 TTAAAGGAAG-CCTTCATGGCTATCTCTA
* * *
8633 TTAAAAGACGCCTTCATGGCTAACTCTA
1 TTAAAGGAAGCCTTCATGGCTATCTCTA
8661 AGGAATGACC
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
27 26 0.39
28 37 0.55
29 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (28 bp):
TTAAAGGAAGCCTTCATGGCTATCTCTA
Found at i:12787 original size:22 final size:22
Alignment explanation
Indices: 12754--12810 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
12744 TCGAGAAAAT
* * *
12754 AGAACAAG-AAAATGAGCGCGAG
1 AGAA-AAGAAAAATGAGAGAGAA
12776 AGAAAAGAAAAA-GAGAGAGAA
1 AGAAAAGAAAAATGAGAGAGAA
12797 AGAAAAAGAAAAAT
1 AG-AAAAGAAAAAT
12811 AGGTGGTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.65, C:0.05, G:0.26, T:0.04
Consensus pattern (22 bp):
AGAAAAGAAAAATGAGAGAGAA
Found at i:12795 original size:17 final size:16
Alignment explanation
Indices: 12773--12805 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12763 AAATGAGCGC
12773 GAGAGA-AAAGAAAAA
1 GAGAGAGAAAGAAAAA
12788 GAGAGAGAAAGAAAAA
1 GAGAGAGAAAGAAAAA
12804 GA
1 GA
12806 AAAATAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
GAGAGAGAAAGAAAAA
Found at i:13911 original size:35 final size:35
Alignment explanation
Indices: 13872--13946 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
13862 AGAAACTGGG
13872 ATTTAAATGGGAAGAGGCACAAGAAAAAGCTTTTA
1 ATTTAAATGGGAAGAGGCACAAGAAAAAGCTTTTA
13907 ATTTAAATGGGAAGAGGCACAAGAAAAAGCTTTTA
1 ATTTAAATGGGAAGAGGCACAAGAAAAAGCTTTTA
13942 ATTTA
1 ATTTA
13947 CTTAAGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (35 bp):
ATTTAAATGGGAAGAGGCACAAGAAAAAGCTTTTA
Found at i:16515 original size:2 final size:2
Alignment explanation
Indices: 16508--16544 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16498 AAGGAGTTGA
16508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16545 ATTTGGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17824 original size:3 final size:3
Alignment explanation
Indices: 17812--17847 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
17802 AACCCAAAAC
17812 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
17848 TATCTCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:28545 original size:21 final size:21
Alignment explanation
Indices: 28498--28557 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
28488 AATAGTGCAG
**
28498 ACTTCTACCGATACTTGTGAT
1 ACTTCTACCGATACAAGTGAT
*
28519 AGTTCTACCGATACAAGTG-T
1 ACTTCTACCGATACAAGTGAT
*
28539 AACTTCTACCGAAACAAGT
1 -ACTTCTACCGATACAAGT
28558 CCTGCTTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAT
Found at i:29387 original size:44 final size:42
Alignment explanation
Indices: 29229--29500 Score: 185
Period size: 42 Copynumber: 6.4 Consensus size: 42
29219 CAGGTTCATA
* * *
29229 AGTCTTCCTTTTTAAACA-A-TCTTATGCTC-TACC-GAGGCATA
1 AGTCTTCC--TTTAAACATATTCTCATGCTCAT-CCTGAGACATG
* * * * ** *
29270 AGTCTTCCTTTCAAACATAATCGCACGCTTATTTTGAGACGTG
1 AGTCTTCCTTT-AAACATATTCTCATGCTCATCCTGAGACATG
* * *
29313 AGTCTTCCTTTAAACATAATCTCATTCTCATCCTGGGACATG
1 AGTCTTCCTTTAAACATATTCTCATGCTCATCCTGAGACATG
* ** * **
29355 AGTCTTCCTTTTTAAACATATTTTCATGCTCATTTTGAGTCACA
1 AGTCTTCC--TTTAAACATATTCTCATGCTCATCCTGAGACATG
* *
29399 AGTCTTCCTTTAAACTTATTCTCATGCTCATTCC-GAGACATT
1 AGTCTTCCTTTAAACATATTCTCATGCTCA-TCCTGAGACATG
* * * * * *
29441 AGTCTTCCTTTAAACATACTCTCGTGCTTATCCCGAGTCACG
1 AGTCTTCCTTTAAACATATTCTCATGCTCATCCTGAGACATG
*
29483 AGTCTTCCATTTATACAT
1 AGTCTTCC-TTTAAACAT
29501 CAAGTGTTTC
Statistics
Matches: 180, Mismatches: 41, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
39 3 0.02
40 5 0.03
41 12 0.07
42 101 0.56
43 26 0.14
44 33 0.18
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATATTCTCATGCTCATCCTGAGACATG
Found at i:29447 original size:128 final size:126
Alignment explanation
Indices: 29229--29463 Score: 292
Period size: 128 Copynumber: 1.8 Consensus size: 126
29219 CAGGTTCATA
*
29229 AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCATAAGTCTTCCTTTCAAACATAATCGC
1 AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCACAAGTCTTCCTTTCAAACATAATCGC
* ** *
29294 ACGCTTATTTTGAGACGTGAGTCTTCCTTTAAACATAATCTCATTCTCATCCTGGGACATG
66 ACGCTCATTCCGAGACATGAGTCTTCCTTTAAACATAATCTCATTCTCATCCTGGGACATG
* *** * * *
29355 AGTCTTCCTTTTTAAACATATTTTCATGCTCATTTTGAGTCACAAGTCTTCCTTT-AAACTTATT
1 AGTCTTCCTTTTTAAACA-ATCTT-ATGCTC-TACCGAGGCACAAGTCTTCCTTTCAAACATAAT
* * * *
29419 CTCATGCTCATTCCGAGACATTAGTCTTCCTTTAAACATACTCTC
63 CGCACGCTCATTCCGAGACATGAGTCTTCCTTTAAACATAATCTC
29464 GTGCTTATCC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
126 18 0.20
127 4 0.04
128 50 0.56
129 18 0.20
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.39
Consensus pattern (126 bp):
AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCACAAGTCTTCCTTTCAAACATAATCGC
ACGCTCATTCCGAGACATGAGTCTTCCTTTAAACATAATCTCATTCTCATCCTGGGACATG
Found at i:29486 original size:128 final size:126
Alignment explanation
Indices: 29229--29490 Score: 283
Period size: 128 Copynumber: 2.1 Consensus size: 126
29219 CAGGTTCATA
*
29229 AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCATAAGTCTTCCTTTCAAACATAATCGC
1 AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCACAAGTCTTCCTTTCAAACATAATCGC
* ** * * * * *
29294 ACGCTTATTTTGAGACGTGAGTCTTCCTTTAAACATAATCTCATTCTCATCCTGGGACATG
66 ACGCTCATTCCGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACG
* *** * * *
29355 AGTCTTCCTTTTTAAACATATTTTCATGCTCATTTTGAGTCACAAGTCTTCCTTT-AAACTTATT
1 AGTCTTCCTTTTTAAACA-ATCTT-ATGCTC-TACCGAGGCACAAGTCTTCCTTTCAAACATAAT
* * * * * * *
29419 CTCATGCTCATTCCGAGACATTAGTCTTCCTTTAAACATACTCTCGTGCTTATCCCGAGTCACG
63 CGCACGCTCATTCCGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACG
29483 AGTCTTCC
1 AGTCTTCC
29491 ATTTATACAT
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
126 18 0.16
127 4 0.04
128 70 0.64
129 18 0.16
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (126 bp):
AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCACAAGTCTTCCTTTCAAACATAATCGC
ACGCTCATTCCGAGACATGAGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACACG
Found at i:41628 original size:37 final size:37
Alignment explanation
Indices: 41578--41651 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
41568 CACTACAAGA
*
41578 GTGTGTGTCGACGCAATTACATACCTCCGGGGGTTTG
1 GTGTGTGTCGACGCAATTACATACCTCCGGGGATTTG
41615 GTGTGTGTCGACGCAATTACATACCTCCGGGGATTTG
1 GTGTGTGTCGACGCAATTACATACCTCCGGGGATTTG
41652 TTGCACCTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.30
Consensus pattern (37 bp):
GTGTGTGTCGACGCAATTACATACCTCCGGGGATTTG
Found at i:46972 original size:41 final size:40
Alignment explanation
Indices: 46906--47164 Score: 191
Period size: 42 Copynumber: 6.2 Consensus size: 40
46896 AGTCTTCCTT
* * * *
46906 TTTAAAC--AATCTTATGCTC-TACCGAGGCATAAGCCTTC
1 TTTAAACATAATCTCATGCTCAT-CCGAGACATGAGTCTTC
*
46944 TTTCAAACATAATCTCATGCTCATCCGAGACATGAGTCTCCC
1 TTT-AAACATAATCTCATGCTCATCCGAGACATGAGTCT-TC
* * *
46986 TTTAGACATAATCTCATTCTCATCCCGAAACATGAGTCTTCC
1 TTTAAACATAATCTCATGCTCAT-CCGAGACATGAGTCTT-C
* *
47028 TTTTTAAACATATTCTCATGCTCATTTCGAGACATGAGTCTTC
1 --TTTAAACATAATCTCATGCTCA-TCCGAGACATGAGTCTTC
** * * *
47071 TTATAAACATGCTCTCGTGCTCATCCCGAGTCACGAGTCTTCC
1 TT-TAAACATAATCTCATGCTCAT-CCGAGACATGAGTCTT-C
* * * * *
47114 TTTAAACTTATTCTTATGTTCATTCTGAGACATGAGTCTTCC
1 TTTAAACATAATCTCATGCTCA-TCCGAGACATGAGTCTT-C
*
47156 TATAAACAT
1 TTTAAACAT
47165 GCTCTTGTGC
Statistics
Matches: 176, Mismatches: 31, Indels: 24
0.76 0.13 0.10
Matches are distributed among these distances:
38 3 0.02
39 4 0.02
41 44 0.25
42 86 0.49
43 5 0.03
44 33 0.19
45 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (40 bp):
TTTAAACATAATCTCATGCTCATCCGAGACATGAGTCTTC
Found at i:47147 original size:128 final size:124
Alignment explanation
Indices: 46896--47156 Score: 283
Period size: 128 Copynumber: 2.1 Consensus size: 124
46886 CAGGTTCATA
* *
46896 AGTCTTCCTTTTTAAACAATCTTATGCTCTACCGAGGCATAAGCCTTCTTTCAAACATAATCTCA
1 AGTCTTCCTTTTTAAACAATCTCATGCTCTACCGAGACATAAGCCTTCTTTCAAACATAATCTCA
* *
46961 TGCTCATCCGAGACATGAGTCTCCCTTTAGACATAATCTCATTCTCATCCCGAAACATG
66 TGCTCATCCGAGACACGAGTCTCCCTTTAAACATAATCTCATTCTCATCCCGAAACATG
** * * **
47020 AGTCTTCCTTTTTAAACATATTCTCATGCTCATTTCGAGACATGAGTCTTCTTAT-AAACATGCT
1 AGTCTTCCTTTTTAAACA-A-TCTCATGCTC-TACCGAGACATAAGCCTTCTT-TCAAACATAAT
* * * * * * * * *
47084 CTCGTGCTCATCCCGAGTCACGAGTCTTCCTTTAAACTTATTCTTATGT-TCATTCTGAGACATG
62 CTCATGCTCAT-CCGAGACACGAGTCTCCCTTTAAACATAATCTCAT-TCTCATCCCGAAACATG
47148 AGTCTTCCT
1 AGTCTTCCT
47157 ATAAACATGC
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
124 18 0.16
125 1 0.01
126 9 0.08
127 33 0.29
128 50 0.45
129 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (124 bp):
AGTCTTCCTTTTTAAACAATCTCATGCTCTACCGAGACATAAGCCTTCTTTCAAACATAATCTCA
TGCTCATCCGAGACACGAGTCTCCCTTTAAACATAATCTCATTCTCATCCCGAAACATG
Found at i:47154 original size:84 final size:85
Alignment explanation
Indices: 46943--47207 Score: 302
Period size: 84 Copynumber: 3.1 Consensus size: 85
46933 CATAAGCCTT
* * * * * * ** * *
46943 CTTTCAAACATAATCTCATGCTCA-TCCGAGACATGAGTCTCCCTTTAGACATAATCTCATTCTC
1 CTTTTAAACATATTCTCATGCTCATTTCGAGACATGAGTCTTCCTATAAACATGCTCTCGTGCTC
** *
47007 ATCCCGAAACATGAGTCTTC
66 ATCCCGAGTCACGAGTCTTC
*
47027 CTTTTTAAACATATTCTCATGCTCATTTCGAGACATGAGTCTTCTTATAAACATGCTCTCGTGCT
1 C-TTTTAAACATATTCTCATGCTCATTTCGAGACATGAGTCTTCCTATAAACATGCTCTCGTGCT
47092 CATCCCGAGTCACGAGTCTTC
65 CATCCCGAGTCACGAGTCTTC
* * * *
47113 C-TTTAAACTTATTCTTATGTTCA-TTCTGAGACATGAGTCTTCCTATAAACATGCTCTTGTGCT
1 CTTTTAAACATATTCTCATGCTCATTTC-GAGACATGAGTCTTCCTATAAACATGCTCTCGTGCT
*
47176 CATCCCGAGTCACAAGTCTTC
65 CATCCCGAGTCACGAGTCTTC
* *
47197 CATTTATACAT
1 CTTTTAAACAT
47208 CAAGTGTTTC
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
83 3 0.02
84 75 0.48
85 28 0.18
86 49 0.32
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (85 bp):
CTTTTAAACATATTCTCATGCTCATTTCGAGACATGAGTCTTCCTATAAACATGCTCTCGTGCTC
ATCCCGAGTCACGAGTCTTC
Found at i:47194 original size:42 final size:42
Alignment explanation
Indices: 47063--47197 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 42
47053 TTCGAGACAT
* *
47063 GAGTCTTCTTATAAACATGCTCTCGTGCTCATCCCGAGTCAC
1 GAGTCTTCCTATAAACATGCTCTTGTGCTCATCCCGAGTCAC
* * ** * * * * * *
47105 GAGTCTTCCTTTAAACTTATTCTTATGTTCATTCTGAGACAT
1 GAGTCTTCCTATAAACATGCTCTTGTGCTCATCCCGAGTCAC
47147 GAGTCTTCCTATAAACATGCTCTTGTGCTCATCCCGAGTCAC
1 GAGTCTTCCTATAAACATGCTCTTGTGCTCATCCCGAGTCAC
*
47189 AAGTCTTCC
1 GAGTCTTCC
47198 ATTTATACAT
Statistics
Matches: 70, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (42 bp):
GAGTCTTCCTATAAACATGCTCTTGTGCTCATCCCGAGTCAC
Found at i:48263 original size:32 final size:31
Alignment explanation
Indices: 48203--48335 Score: 148
Period size: 32 Copynumber: 4.4 Consensus size: 31
48193 GGTTATTGGG
* *
48203 TTTGGGGA-TTTT-GGTTTTGGTTTAAAAAT
1 TTTGGGGATTTTTGGGTTTAGATTTAAAAAT
*
48232 TTTGGGGATTTTTGGGGTTTAGATTTTAAAAT
1 TTTGGGGATTTTT-GGGTTTAGATTTAAAAAT
* * *
48264 TTTGGGGA--TTTAGGTTTTGGTTTAAAAAT
1 TTTGGGGATTTTTGGGTTTAGATTTAAAAAT
* *
48293 TTTGGGGATTTTTGGGGTGTAGATTTTAAAAT
1 TTTGGGGATTTTT-GGGTTTAGATTTAAAAAT
48325 TTTGGGGATTT
1 TTTGGGGATTT
48336 AGGTTTTAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
29 30 0.35
30 7 0.08
31 3 0.03
32 46 0.53
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (31 bp):
TTTGGGGATTTTTGGGTTTAGATTTAAAAAT
Found at i:48268 original size:61 final size:61
Alignment explanation
Indices: 48203--48342 Score: 262
Period size: 61 Copynumber: 2.3 Consensus size: 61
48193 GGTTATTGGG
* *
48203 TTTGGGGATTTTGGTTTTGGTTTAAAAATTTTGGGGATTTTTGGGGTTTAGATTTTAAAAT
1 TTTGGGGATTTAGGTTTTGGTTTAAAAATTTTGGGGATTTTTGGGGTGTAGATTTTAAAAT
48264 TTTGGGGATTTAGGTTTTGGTTTAAAAATTTTGGGGATTTTTGGGGTGTAGATTTTAAAAT
1 TTTGGGGATTTAGGTTTTGGTTTAAAAATTTTGGGGATTTTTGGGGTGTAGATTTTAAAAT
48325 TTTGGGGATTTAGGTTTT
1 TTTGGGGATTTAGGTTTT
48343 AAAAAATTGG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 77 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (61 bp):
TTTGGGGATTTAGGTTTTGGTTTAAAAATTTTGGGGATTTTTGGGGTGTAGATTTTAAAAT
Found at i:48330 original size:22 final size:23
Alignment explanation
Indices: 48302--48356 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
48292 TTTTGGGGAT
48302 TTTTGGGG-TGTAGATTTTAAAA
1 TTTTGGGGATGTAGATTTTAAAA
* *
48324 TTTTGGGGATTTAGGTTTTAAAA
1 TTTTGGGGATGTAGATTTTAAAA
**
48347 AATTGGGGAT
1 TTTTGGGGAT
48357 TTTCGAGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (23 bp):
TTTTGGGGATGTAGATTTTAAAA
Found at i:48437 original size:62 final size:63
Alignment explanation
Indices: 48333--48475 Score: 209
Period size: 62 Copynumber: 2.3 Consensus size: 63
48323 ATTTTGGGGA
* *
48333 TTTAGGTTTTAAAAAA-TTGGGGATTTTCGAGATTTTTAGGGTTCTTAGGTTTGGGGATTTTTG
1 TTTAGG-TTTAAAAAATTTGGGAATTTTCGAGATTTTTAGGGTTCTTAGGTTTGGGGATTTTGG
* * *
48396 TTTAGGTTTAAAAAATTTGGGAATTTT-GGGATTTTTAGGGTTCTTGGGTTTGTGGATTTTGG
1 TTTAGGTTTAAAAAATTTGGGAATTTTCGAGATTTTTAGGGTTCTTAGGTTTGGGGATTTTGG
*
48458 TTTAGGTTTCAAAAATTT
1 TTTAGGTTTAAAAAATTT
48476 TGGGGCCTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 57 0.78
63 16 0.22
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (63 bp):
TTTAGGTTTAAAAAATTTGGGAATTTTCGAGATTTTTAGGGTTCTTAGGTTTGGGGATTTTGG
Found at i:50129 original size:30 final size:30
Alignment explanation
Indices: 50094--50166 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
50084 AGGTGATGAG
* *
50094 GGTGAGGGTTTGGATGATAGCAGTTAGGGT
1 GGTGAGGGTTTGGATAATAGCAGTAAGGGT
*
50124 GGTGAGGGTTTGGATAATGGCAGTAAGGGT
1 GGTGAGGGTTTGGATAATAGCAGTAAGGGT
*
50154 GGTGAAGGTTTGG
1 GGTGAGGGTTTGG
50167 GAGGTGGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.21, C:0.03, G:0.48, T:0.29
Consensus pattern (30 bp):
GGTGAGGGTTTGGATAATAGCAGTAAGGGT
Found at i:52368 original size:2 final size:2
Alignment explanation
Indices: 52361--52388 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52351 CTTTACTTGC
52361 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
52389 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:52790 original size:36 final size:36
Alignment explanation
Indices: 52750--52840 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
52740 AGCATATGAG
*
52750 ATGTTTTTTAATTTAAATTTAACAATAGACTTACTT
1 ATGTTTTTTAATTTAAATTTAACAACAGACTTACTT
* *
52786 ATGTTTTTTAATTTAAATTTGACAGCAGACTTACTT
1 ATGTTTTTTAATTTAAATTTAACAACAGACTTACTT
52822 ATGTTTTTTAATTTAAATT
1 ATGTTTTTTAATTTAAATT
52841 ACAGGATCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.52
Consensus pattern (36 bp):
ATGTTTTTTAATTTAAATTTAACAACAGACTTACTT
Found at i:54828 original size:21 final size:21
Alignment explanation
Indices: 54804--54845 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
54794 TCTTGGAGAA
* *
54804 GTTTTAACTTGTTTGAAAATG
1 GTTTTAACATATTTGAAAATG
54825 GTTTTAACATATTTGAAAATG
1 GTTTTAACATATTTGAAAATG
54846 TTTGACTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (21 bp):
GTTTTAACATATTTGAAAATG
Found at i:57321 original size:37 final size:37
Alignment explanation
Indices: 57246--57322 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
57236 TACACCCAAA
* * *
57246 TAAAACTTATACCACAAGGTCTTAATGGACAACTCCT
1 TAAAACTTATACCACAAAGTCTTAATGAACAACACCT
*
57283 TAAAACTTATACCTCAAAGTCTTAA-GAAGCAACACCT
1 TAAAACTTATACCACAAAGTCTTAATGAA-CAACACCT
57320 TAA
1 TAA
57323 GGTTTCTAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (37 bp):
TAAAACTTATACCACAAAGTCTTAATGAACAACACCT
Found at i:57778 original size:21 final size:22
Alignment explanation
Indices: 57745--57786 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
57735 TAGTGATCGT
*
57745 TGGACCAATATTATTGATACCA
1 TGGACCAATATTATCGATACCA
*
57767 TGGAGCAA-ATTATCGATACC
1 TGGACCAATATTATCGATACC
57787 TTATGGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (22 bp):
TGGACCAATATTATCGATACCA
Found at i:57938 original size:21 final size:21
Alignment explanation
Indices: 57914--57955 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
57904 TCCTGGAGCA
*
57914 GTTTTAACTTGTATGAAAATG
1 GTTTTAACATGTATGAAAATG
*
57935 GTTTTAACATGTTTGAAAATG
1 GTTTTAACATGTATGAAAATG
57956 TTTGACTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
GTTTTAACATGTATGAAAATG
Found at i:58259 original size:161 final size:159
Alignment explanation
Indices: 58075--58393 Score: 478
Period size: 161 Copynumber: 2.0 Consensus size: 159
58065 ATGTTCAACA
* * *
58075 AGAACGATAGAACACCACCATGCATTCAGCCTAACACAACTGGATCACAGGTATATCGTAAACAT
1 AGAACGACAGAACACCACCATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACAC
* * * *
58140 TTTCTCATTGTCAATTCCAAATTATA-ATAATCTAATTTCAGTTTTGATTTTTTGTGTCTTAATC
66 TTTCTCATTATCAATTCCAAATTATATA-AATCTAATTTCAGTTTTGA-TTGTTAT-TCTCAATC
*
58204 TGGTATGAGTACGAGAACTATAACCCAAAAAC
128 TGGTATGAGTACGAGAACTAGAACCCAAAAAC
*
58236 AGAACGACAGAACACCACCATGCATTCAGCCTAACACAACTGGATCACAAGTATTTCGTAAACAC
1 AGAACGACAGAACACCACCATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACAC
* **
58301 TTTCTCATTATCAATTCCAAATTATTTAAATCTAATTTGGGTTTTGATTGTTATTCTCAATCTGG
66 TTTCTCATTATCAATTCCAAATTATATAAATCTAATTTCAGTTTTGATTGTTATTCTCAATCTGG
* *
58366 TATGAGTATGAGAACTAGAAGCCAAAAA
131 TATGAGTACGAGAACTAGAACCCAAAAA
58394 AGGATGGCAT
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
159 35 0.24
160 5 0.03
161 102 0.71
162 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (159 bp):
AGAACGACAGAACACCACCATGCATTCAGCCTAACACAACTGGATCACAAGTATATCGTAAACAC
TTTCTCATTATCAATTCCAAATTATATAAATCTAATTTCAGTTTTGATTGTTATTCTCAATCTGG
TATGAGTACGAGAACTAGAACCCAAAAAC
Found at i:58627 original size:9 final size:9
Alignment explanation
Indices: 58613--58642 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
58603 TCTTACTGCT
58613 AATTGTTGA
1 AATTGTTGA
58622 AATTGTTGA
1 AATTGTTGA
*
58631 AATGGTTGA
1 AATTGTTGA
58640 AAT
1 AAT
58643 GATAACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTGTTGA
Found at i:60187 original size:22 final size:22
Alignment explanation
Indices: 60159--60207 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
60149 AAGAATAAAA
* *
60159 AAACAAAACAACGATATTGATT
1 AAACAAAACAACAACATTGATT
60181 AAACAAAACAACAACATTGATT
1 AAACAAAACAACAACATTGATT
60203 AAACA
1 AAACA
60208 TTATTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.59, C:0.16, G:0.06, T:0.18
Consensus pattern (22 bp):
AAACAAAACAACAACATTGATT
Found at i:60736 original size:17 final size:18
Alignment explanation
Indices: 60714--60752 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
60704 TTTTGTTTTG
60714 TTTTGTTTTAA-TTTAAT
1 TTTTGTTTTAACTTTAAT
60731 TTTTGTTTTAACTTTAAT
1 TTTTGTTTTAACTTTAAT
60749 TTTT
1 TTTT
60753 TTTGCTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTGTTTTAACTTTAAT
Found at i:63507 original size:15 final size:14
Alignment explanation
Indices: 63478--63514 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
63468 TTAATAAGAC
63478 AATAA-AAT-AATA
1 AATAATAATAAATA
63490 AATAATAATAAATAA
1 AATAATAATAAAT-A
63505 AATAATAATA
1 AATAATAATA
63515 TAATCATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 3 0.14
14 3 0.14
15 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:63509 original size:22 final size:22
Alignment explanation
Indices: 63448--63518 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
63438 ATATGAATAG
*
63448 AATAAATTAAATGAATACAATTAAT
1 AATAAATAAAAT-AATA-AA-TAAT
*
63473 AAGACAATAAAATAATAAATAAT
1 AATA-AATAAAATAATAAATAAT
63496 AATAAATAAAATAATAATATAAT
1 AATAAATAAAATAATAA-ATAAT
63519 CATGGTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.32
23 12 0.29
24 2 0.05
25 7 0.17
26 7 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (22 bp):
AATAAATAAAATAATAAATAAT
Found at i:63584 original size:23 final size:22
Alignment explanation
Indices: 63531--63585 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
63521 TGGTAATAAT
* *
63531 GGAAATAAATATCAATTAATTA
1 GGAAATAAATAACAATAAATTA
* *
63553 AGAATATAAATAACCATAAATATA
1 GGAA-ATAAATAACAATAAAT-TA
63577 GGAAATAAA
1 GGAAATAAA
63586 ATCATGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 5 0.19
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.25
Consensus pattern (22 bp):
GGAAATAAATAACAATAAATTA
Found at i:65329 original size:50 final size:50
Alignment explanation
Indices: 65233--66189 Score: 607
Period size: 50 Copynumber: 19.2 Consensus size: 50
65223 TTTAATCTAT
* * * * *
65233 CCCTCTAAAGCTTTA-GGGTATAAGATTCACTTTTAG-AACTTTAATCTGC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTT-GCAGCTTCAATCTGC
** * * *
65282 CTTTCTATAGCTTTAGGGGTATAAGATTCGCTTTTGCAGCTTCAATCTGT
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * * *
65332 CCCTCTACAGCTTTAAGGGTATAACATTC-TCTTT-CTTGACTTCAATCTTC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGC-AG-CTTCAATCTGC
* * * * * **
65382 CCTTTTACAGCTGTT-GGGATATAAGATTCGCTTTTGTAGCTTCAATCTAT
1 CCCTCTACAGCT-TTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * ** * *
65432 CCCTCTACAGCTTTAGGGGTATAAGATTCACCTTCGTGGTTTCAATCTTTC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATC-TGC
* ** * * ** * *
65483 CCCT-TAATAATTTTAAGGGTAT-AGATTTGCCTTTGTGGTTTCAATTTGC
1 CCCTCT-ACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * * * * * *
65532 CCCTTTATAACTTTAGGGGTATAAGATTCACC-TT-CACGATTTTAATTTTC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCA-G-CTTCAATCTGC
* * * *
65582 CCCTCTATAGCTTTAGGGTTATAAGATTCACCTTTACAGC-TCAATCTGC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * * ** *
65631 CTCTCTACAGCTTTAGAGGTATAAGATTTGCCTTCGTGGCTTCAGTCTGC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* ** *
65681 CTCTCTACAGCTTTAGGGGTATAAGATTCGCCTTCACAGCTTCAATCTAC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * ** * * * * * *
65731 CCCTCCATAATTTTAGGGGTATAGGATTCACCTTCGCGGTTTCAATTTGC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * ** *
65781 CTCTCTACAGCTTTAAGAGTATAAGATTCATCTTCGTG-A-CTTCAATCTTC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTT--TGCAGCTTCAATCTGC
* * ** * * *
65831 CCTTCTATAGCTTTAAAGGTATAATATTCGCTTTTGCAGCTTCAATCTAC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* ** ** * * *
65881 CTCTAC-ACAATTTTAGGGGGGTAAGATTTGCCTTTGCAACTTCAATTTGC
1 CCCT-CTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * * * *
65931 CTCTATACAGCTTTAGGGGTATAAGATTCACC-TT-CACGATTGTAAT-TTC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCA-GCTT-CAATCTGC
* * * * *
65980 CCCTTCTAAAGCTTTAGGGGTATAAGATTCACTTTTGTAGCTTCAATTTGC
1 CCC-TCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * * * *
66031 CCCTTTATAGCTTTAAGGGTATAAGATTCACCTTTGC-GACTTTAATCTGT
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAG-CTTCAATCTGC
* ** *
66081 CCCTCTACAACTTTAGGGGTATAAGATTCGCCTTTGTGGCTTCAATTTGC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
* * * *
66131 CCCTTTAAAGCTTTAAGGGTATAAGATTTGCCTTTGCAGCTTCAATCTGC
1 CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
*
66181 CCCTTTACA
1 CCCTCTACA
66190 ATTATAAGAT
Statistics
Matches: 701, Mismatches: 176, Indels: 61
0.75 0.19 0.07
Matches are distributed among these distances:
48 5 0.01
49 88 0.13
50 566 0.81
51 38 0.05
52 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (50 bp):
CCCTCTACAGCTTTAGGGGTATAAGATTCGCCTTTGCAGCTTCAATCTGC
Found at i:66187 original size:150 final size:149
Alignment explanation
Indices: 65233--66184 Score: 700
Period size: 150 Copynumber: 6.4 Consensus size: 149
65223 TTTAATCTAT
* * * * * **
65233 CCCTCTAAAGCTTT-AGGGTATAAGATTCACTTTTAG-AACTTTAATCTGCCTTTCTATAGCTTT
1 CCCTTTAAAGCTTTAAGGGTATAAGATTCGCTTTT-GCAGCTTCAATCTACCCCTCTATAGCTTT
* * *
65296 AGGGGTATAAGATTCGCTTTTGC-AGCTTCAATCTGTCC-CTCTACAGCTTTAAGGGTATAACAT
65 AGGGGTATAAGATTCACCTTTGCGA-CTTCAATCTG-CCTCTCTACAGCTTTAAGGGTATAAGAT
* * *
65359 TC-TCTTTCTTGACTTCAATCTTC
128 TCGCCTTT-GTGGCTTCAAT-TTC
* * * * *
65382 CCTTTTACAGCTGTT--GGGATATAAGATTCGCTTTTGTAGCTTCAATCTATCCCTCTACAGCTT
1 CCCTTTAAAGCT-TTAAGGG-TATAAGATTCGCTTTTGCAGCTTCAATCTACCCCTCTATAGCTT
* * ** * * * **
65445 TAGGGGTATAAGATTCACCTTCGTGGTTTCAATCTTTCCCCT-TAATAATTTTAAGGGTAT-AGA
64 TAGGGGTATAAGATTCACCTTTGCGACTTCAATC-TGCCTCTCT-ACAGCTTTAAGGGTATAAGA
* *
65508 TTTGCCTTTGTGGTTTCAATTTGC
127 TTCGCCTTTGTGGCTTCAATTT-C
* * * * * * *
65532 CCCTTTATAA-CTTTAGGGGTATAAGATTCAC-CTT-CACGATTTTAATTTTCCCCTCTATAGCT
1 CCCTTTA-AAGCTTTAAGGGTATAAGATTCGCTTTTGCA-G-CTTCAATCTACCCCTCTATAGCT
* *
65594 TTAGGGTTATAAGATTCACCTTTAC-AGC-TCAATCTGCCTCTCTACAGCTTT-AGAGGTATAAG
63 TTAGGGGTATAAGATTCACCTTTGCGA-CTTCAATCTGCCTCTCTACAGCTTTAAG-GGTATAAG
* * * *
65656 ATTTGCCTTCGTGGCTTCAGTCTGC
126 ATTCGCCTTTGTGGCTTCAAT-TTC
* * * * * ** * **
65681 CTCTCTACAGCTTTAGGGGTATAAGATTCGCCTTCACAGCTTCAATCTACCCCTCCATAATTTTA
1 CCCTTTAAAGCTTTAAGGGTATAAGATTCGCTTTTGCAGCTTCAATCTACCCCTCTATAGCTTTA
* * ** * * *
65746 GGGGTATAGGATTCACCTTCGCGGTTTCAATTTGCCTCTCTACAGCTTTAAGAGTATAAGATTCA
66 GGGGTATAAGATTCACCTTTGCGACTTCAATCTGCCTCTCTACAGCTTTAAGGGTATAAGATTCG
* * *
65811 TCTTCGTGACTTCAATCTT-
131 CCTTTGTGGCTTCAAT-TTC
* * * * * **
65830 CCCTTCTATAGCTTTAAAGGTATAATATTCGCTTTTGCAGCTTCAATCTACCTCTAC-ACAATTT
1 CCCTT-TAAAGCTTTAAGGGTATAAGATTCGCTTTTGCAGCTTCAATCTACCCCT-CTATAGCTT
** ** * * * *
65894 TAGGGGGGTAAGATTTGCCTTTGCAACTTCAATTTGCCTCTATACAGCTTTAGGGGTATAAGATT
64 TAGGGGTATAAGATTCACCTTTGCGACTTCAATCTGCCTCTCTACAGCTTTAAGGGTATAAGATT
* *** * *
65959 CACC-TTCACGATTGTAATTTC
129 CGCCTTTGTGGCTT-CAATTTC
* * * * * *
65980 CCCTTCTAAAGCTTTAGGGGTATAAGATTCACTTTTGTAGCTTCAATTTGCCCCTTTATAGCTTT
1 CCCTT-TAAAGCTTTAAGGGTATAAGATTCGCTTTTGCAGCTTCAATCTACCCCTCTATAGCTTT
* * * *
66045 AAGGGTATAAGATTCACCTTTGCGACTTTAATCTGTCC-CTCTACAACTTTAGGGGTATAAGATT
65 AGGGGTATAAGATTCACCTTTGCGACTTCAATCTG-CCTCTCTACAGCTTTAAGGGTATAAGATT
66109 CGCCTTTGTGGCTTCAATTTGC
129 CGCCTTTGTGGCTTCAATTT-C
* * *
66131 CCCTTTAAAGCTTTAAGGGTATAAGATTTGCCTTTGCAGCTTCAATCTGCCCCT
1 CCCTTTAAAGCTTTAAGGGTATAAGATTCGCTTTTGCAGCTTCAATCTACCCCT
66185 TTACAATTAT
Statistics
Matches: 624, Mismatches: 146, Indels: 65
0.75 0.17 0.08
Matches are distributed among these distances:
147 2 0.00
148 17 0.03
149 118 0.19
150 445 0.71
151 42 0.07
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (149 bp):
CCCTTTAAAGCTTTAAGGGTATAAGATTCGCTTTTGCAGCTTCAATCTACCCCTCTATAGCTTTA
GGGGTATAAGATTCACCTTTGCGACTTCAATCTGCCTCTCTACAGCTTTAAGGGTATAAGATTCG
CCTTTGTGGCTTCAATTTC
Found at i:71534 original size:51 final size:51
Alignment explanation
Indices: 71474--71577 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
71464 TCTACTTCTC
71474 ATCAGAGATGTTCTCTTGCCTTTGCGTAGTCATAAATTCTCTCGAAGGAGA
1 ATCAGAGATGTTCTCTTGCCTTTGCGTAGTCATAAATTCTCTCGAAGGAGA
71525 ATCAGAGATGTTCTCTTGCCTTTGCGTAGTCATAAATTCTCTCGAAGGAGA
1 ATCAGAGATGTTCTCTTGCCTTTGCGTAGTCATAAATTCTCTCGAAGGAGA
71576 AT
1 AT
71578 AACTCTAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (51 bp):
ATCAGAGATGTTCTCTTGCCTTTGCGTAGTCATAAATTCTCTCGAAGGAGA
Found at i:72849 original size:73 final size:73
Alignment explanation
Indices: 72704--72870 Score: 167
Period size: 73 Copynumber: 2.3 Consensus size: 73
72694 ATACAAAAAC
* * * * ** * *
72704 AGTGAGTTACATGGTCTGGATCCACGAGCGTGTGCCAAACCGTGTGGTTGTGTTGTTGTTGGAAA
1 AGTGAGTTACACGGTCTAGACCCACGAGCGTGTGCCAAACCGTGTGATCATGTTATTCTTGGAAA
72769 TGAGAAAT
66 TGAGAAAT
* *
72777 AGTGAGTTACACGGTCTAGACCCACG-GACGTGTGCCAGACCTTGTGATCATGTTATATCTTGGA
1 AGTGAGTTACACGGTCTAGACCCACGAG-CGTGTGCCAAACCGTGTGATCATGTTAT-TCTTGGA
*
72841 ATTG-GAAAT
64 AATGAGAAAT
** * *
72850 AACGAGTTACTCGGCCTAGAC
1 AGTGAGTTACACGGTCTAGAC
72871 AGACGGGCTT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 1 0.01
73 67 0.87
74 9 0.12
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (73 bp):
AGTGAGTTACACGGTCTAGACCCACGAGCGTGTGCCAAACCGTGTGATCATGTTATTCTTGGAAA
TGAGAAAT
Found at i:73062 original size:38 final size:38
Alignment explanation
Indices: 73020--73092 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
73010 ATTGTGAAAT
* * *
73020 AATACTTAGTTAACGGTAACACTGTAAATACCGTACTG
1 AATACTGAATTAACGGTAACACTGTAAACACCGTACTG
* * *
73058 AATACTGAATTGATGGTGACACTGTAAACACCGTA
1 AATACTGAATTAACGGTAACACTGTAAACACCGTA
73093 AAGCTGAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (38 bp):
AATACTGAATTAACGGTAACACTGTAAACACCGTACTG
Found at i:75542 original size:22 final size:22
Alignment explanation
Indices: 75482--75551 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
75472 AACATGCATG
*
75482 AATAG-AATAAATTAAATAAATA
1 AATAGTAATAAATAAAAT-AATA
* *
75504 CAATTAATAACACAATAAAATAATA
1 -AA-TAGTAATA-AATAAAATAATA
75529 AATAGTAATAAATAAAATAATA
1 AATAGTAATAAATAAAATAATA
75551 A
1 A
75552 TATAATCATG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 13 0.33
23 8 0.21
24 4 0.10
25 7 0.18
26 7 0.18
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (22 bp):
AATAGTAATAAATAAAATAATA
Found at i:75543 original size:30 final size:29
Alignment explanation
Indices: 75487--75557 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
75477 GCATGAATAG
* * *
75487 AATAAATTAAATAAATACAATTAATAACAC
1 AATAAAAT-AATAAATACAATAAATAAAAC
* *
75517 AATAAAATAATAAATAGTAATAAATAAAAT
1 AATAAAATAATAAATA-CAATAAATAAAAC
*
75547 AATAATATAAT
1 AATAAAATAAT
75558 CATGGTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 8 0.24
30 26 0.76
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (29 bp):
AATAAAATAATAAATACAATAAATAAAAC
Found at i:76467 original size:30 final size:29
Alignment explanation
Indices: 76408--76468 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
76398 AATTTATATC
**
76408 TTTATAATTTTAAAAGATTAAATCAAATT
1 TTTATAATTTTAAAAGACAAAATCAAATT
*
76437 TTTATTAATTTTAAAAGCCAAAAT-ACAATT
1 TTTA-TAATTTTAAAAGACAAAATCA-AATT
76467 TT
1 TT
76469 ATTCTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTATAATTTTAAAAGACAAAATCAAATT
Found at i:77199 original size:22 final size:23
Alignment explanation
Indices: 77174--77221 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
77164 ATAAAAAATG
77174 AATATTTTTAT-ATTGATATTTA
1 AATATTTTTATAATTGATATTTA
77196 AATATTTTTATAATTGATATTTA
1 AATATTTTTATAATTGATATTTA
77219 AAT
1 AAT
77222 TTTAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
AATATTTTTATAATTGATATTTA
Found at i:77774 original size:18 final size:19
Alignment explanation
Indices: 77748--77796 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
77738 TGATCCTAAT
*
77748 TATAAAAAATTCA-AAATA
1 TATAAAAAATACATAAATA
*
77766 TATATAAAATACATAAATA
1 TATAAAAAATACATAAATA
*
77785 TTTTAAAAAATA
1 -TATAAAAAATA
77797 TAATAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAAATACATAAATA
Found at i:77898 original size:3 final size:3
Alignment explanation
Indices: 77890--77916 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
77880 CTCTCCCTCT
77890 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
77917 ATGATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:78907 original size:21 final size:20
Alignment explanation
Indices: 78859--78907 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
78849 AATTATTAAA
*
78859 AAATA-TAAATAAAAAAGTT
1 AAATATTAAATAAAAAAATT
78878 AAATCATTAAACTAAAAAAATT
1 AAAT-ATTAAA-TAAAAAAATT
78900 AAATATTA
1 AAATATTA
78908 TTTAGAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 1 0.04
21 8 0.31
22 13 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATATTAAATAAAAAAATT
Found at i:82580 original size:21 final size:21
Alignment explanation
Indices: 82532--82595 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
82522 AACAATTCAT
* *
82532 GAAAC-AGTGTAGACTTCTACA
1 GAAACAAGTGAAG-CTTCTACC
*
82553 GATACAAGTGAAGCTTCTACC
1 GAAACAAGTGAAGCTTCTACC
* * *
82574 GAAACAAATCATGCTTCTACC
1 GAAACAAGTGAAGCTTCTACC
82595 G
1 G
82596 GTACTAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 29 0.83
22 6 0.17
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (21 bp):
GAAACAAGTGAAGCTTCTACC
Found at i:83284 original size:36 final size:36
Alignment explanation
Indices: 83226--83325 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
83216 CAATATCCGA
83226 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
* * * *
83262 TTTACTCTCTATTCACCTAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
83298 TTTACTCCCTGTTGACCCAAAGGTCATG
1 TTTACTCCCTGTTGACCCAAAGGTCATG
83326 CCTGTTACCA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAT
Found at i:88611 original size:17 final size:17
Alignment explanation
Indices: 88589--88622 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88579 GATACATCGG
88589 AATATACTATCTCTAGA
1 AATATACTATCTCTAGA
88606 AATATACTATCTCTAGA
1 AATATACTATCTCTAGA
88623 CTACTCGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
AATATACTATCTCTAGA
Found at i:89632 original size:10 final size:10
Alignment explanation
Indices: 89618--89666 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
89608 TATAACAATT
89618 TTTTTTTCTTC
1 TTTTTTT-TTC
*
89629 TTTTCTTTTC
1 TTTTTTTTTC
89639 TTTCTTTTTCTC
1 TTT-TTTTT-TC
89651 ATTTTTTTTTC
1 -TTTTTTTTTC
89662 TTTTT
1 TTTTT
89667 CAAGTGATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 11 0.33
11 12 0.36
12 7 0.21
13 3 0.09
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:89655 original size:23 final size:23
Alignment explanation
Indices: 89620--89664 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
89610 TAACAATTTT
89620 TTTTTCTTCTTTTCTTTTCTTTC
1 TTTTTCTTCTTTTCTTTTCTTTC
*
89643 TTTTTC-TCATTTTTTTTTCTTT
1 TTTTTCTTC-TTTTCTTTTCTTT
89665 TTCAAGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCTTCTTTTCTTTTCTTTC
Found at i:90423 original size:24 final size:24
Alignment explanation
Indices: 90394--90440 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
90384 ACCCTCTTCC
* *
90394 TTGTGCTTCTTCTTCTTTTTATCT
1 TTGTGCCTCTTCCTCTTTTTATCT
90418 TTGTGCCTCTTCCTCTTTTTATC
1 TTGTGCCTCTTCCTCTTTTTATC
90441 CCTCGAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.26, G:0.09, T:0.62
Consensus pattern (24 bp):
TTGTGCCTCTTCCTCTTTTTATCT
Found at i:90747 original size:3 final size:3
Alignment explanation
Indices: 90739--90783 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
90729 CATTTCATTC
* * *
90739 TCT TCT TCT TTT TCT TCC TCT TCT TCT TCT TCT TCCT TCT CCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TC
90784 ATGTGGTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:90759 original size:18 final size:18
Alignment explanation
Indices: 90738--90775 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
90728 TCATTTCATT
*
90738 CTCTTCTTCTTTTTCTTC
1 CTCTTCTTCTTCTTCTTC
90756 CTCTTCTTCTTCTTCTTC
1 CTCTTCTTCTTCTTCTTC
90774 CT
1 CT
90776 TCTCCTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
CTCTTCTTCTTCTTCTTC
Found at i:117747 original size:49 final size:48
Alignment explanation
Indices: 117614--117855 Score: 134
Period size: 49 Copynumber: 4.9 Consensus size: 48
117604 TCATTACCAT
* * * *
117614 GAAGCATGAAGGGAAATATTTAAGCTACAACA-ACGAATCTAGTACCTC
1 GAAGCATGAAAGGAAATATTTAAGCCACAA-AGGCGAACCTAGTACCTC
* * * * * * *
117662 GAAG-ATACAAAGGGAAATGTTTAAGTCTCAACGGCGAACCTTGTGCCTC
1 GAAGCAT-GAAA-GGAAATATTTAAGCCACAAAGGCGAACCTAGTACCTC
* * *
117711 AGAAGCATGAAAGGAAATATTTAAGCCGCAAAGGCGAATCTAGTACCAC
1 -GAAGCATGAAAGGAAATATTTAAGCCACAAAGGCGAACCTAGTACCTC
* * * * * *
117760 GAAG-ATACAAAGAGAAA-AGGTTTAAGTCGCAATGGTGAACCTTGTACCTC
1 GAAGCAT-GAAAG-GAAATA--TTTAAGCCACAAAGGCGAACCTAGTACCTC
* * * *
117810 -AGAGACATGAAGGGAAAGATTTAAGACCACGAAGGCGAATCTAGTA
1 GA-AG-CATGAAAGGAAATATTTAAG-CCACAAAGGCGAACCTAGTA
117856 TCATGAAGAT
Statistics
Matches: 144, Mismatches: 36, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
47 4 0.03
48 15 0.10
49 67 0.47
50 50 0.35
51 6 0.04
52 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (48 bp):
GAAGCATGAAAGGAAATATTTAAGCCACAAAGGCGAACCTAGTACCTC
Found at i:117791 original size:50 final size:49
Alignment explanation
Indices: 117647--117909 Score: 180
Period size: 50 Copynumber: 5.3 Consensus size: 49
117637 GCTACAACAA
* * * * *
117647 CGAATCTAGTACCTCGAAGATACAAAGGGAAATGTTTAAGTCTCAACGG
1 CGAACCTAGTACCTCGAAGATACAAAGGAAAAGGTTTAAGTCGCAAAGG
* * * *
117696 CGAACCTTGTGCCTCAGAAGCAT-GAAAGGAAATA--TTTAAGCCGCAAAGG
1 CGAACCTAGTACCTC-GAAG-ATACAAAGGAAA-AGGTTTAAGTCGCAAAGG
* * *
117745 CGAATCTAGTACCACGAAGATACAAAGAGAAAAGGTTTAAGTCGCAATGG
1 CGAACCTAGTACCTCGAAGATACAAAG-GAAAAGGTTTAAGTCGCAAAGG
* * * * * *
117795 TGAACCTTGTACCTC--AGAGACATGAAGGGAAAGATTTAAGAC-CACGAAGG
1 CGAACCTAGTACCTCGAAGATACA--AAGGAAAAGGTTTAAGTCGCA--AAGG
* * * *
117845 CGAATCTAGTATCAT-GAAGATACAAAGGGAAAAGGTTTAAGTCGTAATGG
1 CGAACCTAGTA-CCTCGAAGATACAAA-GGAAAAGGTTTAAGTCGCAAAGG
*
117895 CGAACCTTGTACCTC
1 CGAACCTAGTACCTC
117910 AGAGACATGA
Statistics
Matches: 160, Mismatches: 37, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
47 2 0.01
48 17 0.11
49 53 0.33
50 63 0.39
51 18 0.11
52 7 0.04
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (49 bp):
CGAACCTAGTACCTCGAAGATACAAAGGAAAAGGTTTAAGTCGCAAAGG
Found at i:117886 original size:100 final size:98
Alignment explanation
Indices: 117618--117934 Score: 394
Period size: 100 Copynumber: 3.2 Consensus size: 98
117608 TACCATGAAG
* * *
117618 CATGAAGGGAAATATTTAAGCTACAACAA--CGAATCTAGTACCTCGAAGATACAAAGGG-AAAT
1 CATGAAGGGAAATATTTAAG--ACCACAAGGCGAATCTAGTACAT-GAAGATACAAAGGGAAAAG
* * *
117680 GTTTAAGTCTCAACGGCGAACCTTGTGCCTCAGA-A
63 GTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGA
* * * *
117715 GCATGAAAGGAAATATTTAAG-CCGCAAAGGCGAATCTAGTACCACGAAGATACAAAGAGAAAAG
1 -CATGAAGGGAAATATTTAAGACCAC-AAGGCGAATCTAGTA-CATGAAGATACAAAGGGAAAAG
*
117779 GTTTAAGTCGCAATGGTGAACCTTGTACCTCAGAGA
63 GTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGA
*
117815 CATGAAGGGAAAGATTTAAGACCACGAAGGCGAATCTAGTATCATGAAGATACAAAGGGAAAAGG
1 CATGAAGGGAAATATTTAAGACCAC-AAGGCGAATCTAGTA-CATGAAGATACAAAGGGAAAAGG
*
117880 TTTAAGTCGTAATGGCGAACCTTGTACCTCAGAGA
64 TTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGA
117915 CATGAAGGGGAAA-ATTTAAG
1 CATGAA-GGGAAATATTTAAG
117935 TCGCAACGGT
Statistics
Matches: 191, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.01
96 2 0.01
98 43 0.23
99 52 0.27
100 86 0.45
101 6 0.03
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (98 bp):
CATGAAGGGAAATATTTAAGACCACAAGGCGAATCTAGTACATGAAGATACAAAGGGAAAAGGTT
TAAGTCGCAATGGCGAACCTTGTACCTCAGAGA
Found at i:117923 original size:50 final size:50
Alignment explanation
Indices: 117671--117940 Score: 177
Period size: 50 Copynumber: 5.5 Consensus size: 50
117661 CGAAGATACA
* * * *
117671 AAGGG-AAATGTTTAAGTCTCAACGGCGAACCTTGTGCCTCAGA-AGCATG
1 AAGGGAAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGA-CATG
* * * * * * *
117720 AAAGGAAATA--TTTAAGCCGCAAAGGCGAATCTAGTACCACGAAGATACA--
1 AAGGGAAA-AGGTTTAAGTCGCAATGGCGAACCTTGTACCTC--AGAGACATG
* *
117769 AAGAGAAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTCAGAGACATG
1 AAGGGAAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGACATG
* * * * * * **
117819 AAGGG-AAAGATTTAAGAC-CACGAAGGCGAATCTAGTA--TCATGAAGATACA
1 AAGGGAAAAGGTTTAAGTCGCA--ATGGCGAACCTTGTACCTCA-G-AGACATG
*
117869 AAGGGAAAAGGTTTAAGTCGTAATGGCGAACCTTGTACCTCAGAGACATG
1 AAGGGAAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGACATG
117919 AAGGGGAAAA--TTTAAGTCGCAA
1 AA-GGGAAAAGGTTTAAGTCGCAA
117941 CGGTGAATTT
Statistics
Matches: 166, Mismatches: 37, Indels: 36
0.69 0.15 0.15
Matches are distributed among these distances:
48 12 0.07
49 56 0.34
50 68 0.41
51 25 0.15
52 5 0.03
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (50 bp):
AAGGGAAAAGGTTTAAGTCGCAATGGCGAACCTTGTACCTCAGAGACATG
Found at i:118658 original size:18 final size:18
Alignment explanation
Indices: 118635--118669 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
118625 ACTGTTGACT
*
118635 CCTCTGTCCGAGACTCTC
1 CCTCTGCCCGAGACTCTC
118653 CCTCTGCCCGAGACTCT
1 CCTCTGCCCGAGACTCT
118670 TTGCTGCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.46, G:0.17, T:0.26
Consensus pattern (18 bp):
CCTCTGCCCGAGACTCTC
Found at i:125429 original size:21 final size:21
Alignment explanation
Indices: 125383--125436 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
125373 CTTATGACAA
* *
125383 TTCTATCGATACAAGTGAGAC
1 TTCTACCGATACAAGTCAGAC
* *
125404 ATCTACCGATACAAGTCATAC
1 TTCTACCGATACAAGTCAGAC
125425 TTCTACCGATAC
1 TTCTACCGATAC
125437 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTCAGAC
Found at i:126176 original size:25 final size:25
Alignment explanation
Indices: 126148--126255 Score: 128
Period size: 25 Copynumber: 4.2 Consensus size: 25
126138 TTGATCTCAT
*
126148 GAGCCAGATAGAATTATG-TCCTTAC
1 GAGCCAGATAGAATTACGCT-CTTAC
* * * *
126173 GAGCCAGACAAAATTATGTTCTTAC
1 GAGCCAGATAGAATTACGCTCTTAC
126198 GAGCCAGATAGAATTACGCTCTTAC
1 GAGCCAGATAGAATTACGCTCTTAC
*
126223 GAGCCAAAATCAGAATTACGCTCTTAC
1 GAGCC-AGAT-AGAATTACGCTCTTAC
126250 GAGCCA
1 GAGCCA
126256 AAATCAGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
25 47 0.64
26 5 0.07
27 21 0.29
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (25 bp):
GAGCCAGATAGAATTACGCTCTTAC
Found at i:126182 original size:50 final size:50
Alignment explanation
Indices: 126114--126228 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
126104 TAGAAATTTA
* * * *
126114 GCTCATACGAGCCTAGACAGAA-TATTGATCTCATGAGCCAGATAGAATTAT
1 GCTCTTACGAGCC-AGACAAAATTA-TGATCTCACGAGCCAGATAGAATTAC
* *
126165 G-TCCTTACGAGCCAGACAAAATTATGTTCTTACGAGCCAGATAGAATTAC
1 GCT-CTTACGAGCCAGACAAAATTATGATCTCACGAGCCAGATAGAATTAC
126215 GCTCTTACGAGCCA
1 GCTCTTACGAGCCA
126229 AAATCAGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
50 42 0.76
51 13 0.24
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
GCTCTTACGAGCCAGACAAAATTATGATCTCACGAGCCAGATAGAATTAC
Found at i:126245 original size:27 final size:27
Alignment explanation
Indices: 126192--126264 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
126182 AAAATTATGT
*
126192 TCTTACGAGCC-AGAT-AGAATTACGC
1 TCTTACGAGCCAAAATCAGAATTACGC
126217 TCTTACGAGCCAAAATCAGAATTACGC
1 TCTTACGAGCCAAAATCAGAATTACGC
126244 TCTTACGAGCCAAAATCAGAA
1 TCTTACGAGCCAAAATCAGAA
126265 ATTCTTCGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 11 0.24
26 3 0.07
27 31 0.69
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (27 bp):
TCTTACGAGCCAAAATCAGAATTACGC
Found at i:134695 original size:58 final size:58
Alignment explanation
Indices: 134605--134722 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
134595 TATTTCAAAG
134605 TTCATTGGTTAGTTGACCTATTTGATTCTCCAGATTTCTTAAAATGGCATCATTCTTC
1 TTCATTGGTTAGTTGACCTATTTGATTCTCCAGATTTCTTAAAATGGCATCATTCTTC
134663 TTCATTGGTTAGTTGACCTATTTGATTCTCCAGATTTCTTAAAATGGCATCATTCTTC
1 TTCATTGGTTAGTTGACCTATTTGATTCTCCAGATTTCTTAAAATGGCATCATTCTTC
134721 TT
1 TT
134723 TATGTATGCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.46
Consensus pattern (58 bp):
TTCATTGGTTAGTTGACCTATTTGATTCTCCAGATTTCTTAAAATGGCATCATTCTTC
Found at i:138479 original size:14 final size:14
Alignment explanation
Indices: 138460--138486 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
138450 GAATCATTTT
138460 GTAACAAACAAATA
1 GTAACAAACAAATA
138474 GTAACAAACAAAT
1 GTAACAAACAAAT
138487 GATGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (14 bp):
GTAACAAACAAATA
Found at i:140547 original size:14 final size:14
Alignment explanation
Indices: 140528--140554 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
140518 CATGAATTTG
140528 TAAATTTTATTTTT
1 TAAATTTTATTTTT
140542 TAAATTTTATTTT
1 TAAATTTTATTTT
140555 AAATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TAAATTTTATTTTT
Found at i:140809 original size:18 final size:19
Alignment explanation
Indices: 140764--140828 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 19
140754 TATTTAAAAA
*
140764 TTAAAAA-TATAAAAATATAT
1 TTAAAAATTATAAAAA-A-CT
* *
140784 TATAAAAATTTTAAGAAA-T
1 T-TAAAAATTATAAAAAACT
140803 TTAAAAA-TATAAAAAACT
1 TTAAAAATTATAAAAAACT
140821 TTAAAAAT
1 TTAAAAAT
140829 AAAACTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.19
18 14 0.38
19 2 0.05
20 1 0.03
21 7 0.19
22 6 0.16
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TTAAAAATTATAAAAAACT
Found at i:142321 original size:14 final size:14
Alignment explanation
Indices: 142274--142322 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
142264 AAAAATATAT
142274 TATTGTTTTGG-TGC
1 TATT-TTTTGGTTGC
**
142288 TATTTTTTTTTTGC
1 TATTTTTTGGTTGC
142302 TA--TTTTGGTTGC
1 TATTTTTTGGTTGC
142314 TATTTTTTG
1 TATTTTTTG
142323 CTGTTTTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 10 0.36
13 4 0.14
14 14 0.50
ACGTcount: A:0.08, C:0.06, G:0.18, T:0.67
Consensus pattern (14 bp):
TATTTTTTGGTTGC
Found at i:142359 original size:20 final size:20
Alignment explanation
Indices: 142325--142381 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
142315 ATTTTTTGCT
142325 GTTTTGATGTT-TTTTTACC
1 GTTTTGATGTTGTTTTTACC
* *
142344 GTTTTGGTGTTGTTTTTACT
1 GTTTTGATGTTGTTTTTACC
* *
142364 ATTTTGATGCTGTTTTTA
1 GTTTTGATGTTGTTTTTA
142382 TTGTTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.11, C:0.07, G:0.19, T:0.63
Consensus pattern (20 bp):
GTTTTGATGTTGTTTTTACC
Found at i:142391 original size:12 final size:12
Alignment explanation
Indices: 142376--142502 Score: 109
Period size: 12 Copynumber: 10.9 Consensus size: 12
142366 TTTGATGCTG
*
142376 TTTTTATTGTTA
1 TTTTTGTTGTTA
**
142388 TTTTTGTTCCTA
1 TTTTTGTTGTTA
142400 TTTTTGTTGTTA
1 TTTTTGTTGTTA
**
142412 TTTTTACTGTTA
1 TTTTTGTTGTTA
**
142424 TTTTTGTTACTA
1 TTTTTGTTGTTA
142436 TTTTTGTTG---
1 TTTTTGTTGTTA
* *
142445 TTTTTATTCTTA
1 TTTTTGTTGTTA
*
142457 -TTTTGTTATTA
1 TTTTTGTTGTTA
* *
142468 TTTTTGCTGTTT
1 TTTTTGTTGTTA
142480 TTTTTGTTGTTA
1 TTTTTGTTGTTA
*
142492 TTTTAGTTGTT
1 TTTTTGTTGTT
142503 TATATATATA
Statistics
Matches: 89, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
9 7 0.08
11 9 0.10
12 73 0.82
ACGTcount: A:0.11, C:0.05, G:0.12, T:0.72
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:142416 original size:36 final size:35
Alignment explanation
Indices: 142359--142495 Score: 147
Period size: 36 Copynumber: 3.9 Consensus size: 35
142349 GGTGTTGTTT
* *
142359 TTACTA-TTTTGATGCTGTTTTTATTGTTATTTTTG
1 TTACTATTTTTGTTG-TTTTTTTATTGTTATTTTTG
* *
142394 TTCCTATTTTTGTTGTTATTTTTACTGTTATTTTTG
1 TTACTATTTTTGTTGTT-TTTTTATTGTTATTTTTG
*
142430 TTACTATTTTTGTTG--TTTTTATTCTTA-TTTTG
1 TTACTATTTTTGTTGTTTTTTTATTGTTATTTTTG
* * *
142462 TTATTATTTTTGCTGTTTTTTTTGTTGTTATTTT
1 TTACTATTTTTGTTG-TTTTTTTATTGTTATTTT
142496 AGTTGTTTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
32 18 0.21
33 10 0.12
35 16 0.19
36 41 0.48
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (35 bp):
TTACTATTTTTGTTGTTTTTTTATTGTTATTTTTG
Found at i:142443 original size:21 final size:20
Alignment explanation
Indices: 142419--142466 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
142409 TTATTTTTAC
*
142419 TGTTATTTTTGTTAC-TATTTT
1 TGTTATTTTTATT-CTTA-TTT
*
142440 TGTTGTTTTTATTCTTATTT
1 TGTTATTTTTATTCTTATTT
142460 TGTTATT
1 TGTTATT
142467 ATTTTTGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.73
Consensus pattern (20 bp):
TGTTATTTTTATTCTTATTT
Found at i:142469 original size:56 final size:57
Alignment explanation
Indices: 142382--142503 Score: 156
Period size: 56 Copynumber: 2.2 Consensus size: 57
142372 GCTGTTTTTA
* * *
142382 TTGTTATTTTTGTTCCTATTTTTGTTGTTATTTTTACTGTTATTTTTGTTACTATTT
1 TTGTTGTTTTTATTCCTATTTTTGTTATTATTTTTACTGTTATTTTTGTTACTATTT
* * * **
142439 TTGTTGTTTTTATTCTTA-TTTTGTTATTATTTTTGCTGTTTTTTTTGTTGTTATTT
1 TTGTTGTTTTTATTCCTATTTTTGTTATTATTTTTACTGTTATTTTTGTTACTATTT
*
142495 TAGTTGTTT
1 TTGTTGTTT
142504 ATATATATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
56 41 0.73
57 15 0.27
ACGTcount: A:0.11, C:0.05, G:0.12, T:0.72
Consensus pattern (57 bp):
TTGTTGTTTTTATTCCTATTTTTGTTATTATTTTTACTGTTATTTTTGTTACTATTT
Found at i:145960 original size:20 final size:21
Alignment explanation
Indices: 145927--145966 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
145917 GAAAGTGAGA
145927 AAAAGTAAAAGTTTT-AGGGG
1 AAAAGTAAAAGTTTTGAGGGG
145947 AAAA-TAAAATGTTTTGAGGG
1 AAAAGTAAAA-GTTTTGAGGG
145967 TTTTTGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (21 bp):
AAAAGTAAAAGTTTTGAGGGG
Found at i:151330 original size:17 final size:17
Alignment explanation
Indices: 151302--151374 Score: 103
Period size: 17 Copynumber: 4.4 Consensus size: 17
151292 TTGGAAATTG
151302 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
151318 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
151335 AATTTATTTGAAATTTA
1 AATTTATTTTAAATTTA
* *
151352 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
151369 AATTTA
1 AATTTA
151375 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
16 5 0.10
17 45 0.90
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:151350 original size:7 final size:6
Alignment explanation
Indices: 151307--151374 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
151297 AATTGAATTT
* *
151307 ATTTAA ATTTAA GTTT-A TTTTAA ATTTAA ATTT-- ATTTGAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA
*
151353 ATTT-- ATTATAA AATTAA ATTTA
1 ATTTAA ATT-TAA ATTTAA ATTTA
151375 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
4 7 0.14
5 5 0.10
6 32 0.64
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:151428 original size:15 final size:15
Alignment explanation
Indices: 151405--151445 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
151395 AAAACAAAGT
151405 CCAATTACAAATGGC
1 CCAATTACAAATGGC
*
151420 CCAAATACAAATGGC
1 CCAATTACAAATGGC
151435 CCAATTACAAA
1 CCAATTACAAA
151446 CTACCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.27, G:0.10, T:0.17
Consensus pattern (15 bp):
CCAATTACAAATGGC
Found at i:152071 original size:18 final size:17
Alignment explanation
Indices: 152049--152096 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
152039 AAATGTTTTG
152049 ATATTAATAATAATATT
1 ATATTAATAATAATATT
152066 ATTATTAATAAT--TATT
1 A-TATTAATAATAATATT
152082 A-ATTAATAATTAATA
1 ATATTAATAA-TAATA
152097 AAAAAAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.30
15 1 0.04
16 5 0.19
17 3 0.11
18 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTAATAATAATATT
Found at i:152084 original size:7 final size:7
Alignment explanation
Indices: 152051--152097 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
152041 ATGTTTTGAT
152051 ATTAATA
1 ATTAATA
152058 A-TAAT-
1 ATTAATA
*
152063 ATT-ATT
1 ATTAATA
152069 ATTAATA
1 ATTAATA
*
152076 ATTATTA
1 ATTAATA
152083 ATTAATA
1 ATTAATA
152090 ATTAATA
1 ATTAATA
152097 A
1 A
152098 AAAAAAACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.09
6 8 0.24
7 23 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATTAATA
Found at i:153246 original size:29 final size:29
Alignment explanation
Indices: 153203--153459 Score: 210
Period size: 29 Copynumber: 8.8 Consensus size: 29
153193 GGAGGTCCTT
153203 GAACTTTCCAAAAATCACCA-TTTTACCCTC
1 GAAC-TTCCAAAAATCACCATTTTTACCC-C
*
153233 GAACTTCCAAAAATC-CTATTTTTAACCCC
1 GAACTTCCAAAAATCACCATTTTT-ACCCC
*
153262 AAACTTCCAAAAATC-CCATTTTTGACCCC
1 GAACTTCCAAAAATCACCATTTTT-ACCCC
* *
153291 GACCTTTCCAAAAATTACCA--TTTACCCC
1 GAAC-TTCCAAAAATCACCATTTTTACCCC
* *
153319 GAACTTCTAAAAA-CCCCATTTTTTACCCC
1 GAACTTCCAAAAATCACCA-TTTTTACCCC
* * * *
153348 AAACCTTTCAAAATTTACCA-TTTTACACCC
1 GAA-CTTCCAAAAATCACCATTTTTAC-CCC
*
153378 GAACTTCCAAAAATC-CCATTTTTGACCTCT
1 GAACTTCCAAAAATCACCATTTTT-ACC-CC
* * *
153408 GATCTTCTAAAAATTACCA-TTTTACCCTC
1 GAACTTCCAAAAATCACCATTTTTACCC-C
*
153437 GAACTTCCAAAAATC-CTATTTTT
1 GAACTTCCAAAAATCACCATTTTT
153460 GATTTCGAAC
Statistics
Matches: 181, Mismatches: 30, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
26 3 0.02
27 8 0.04
28 16 0.09
29 96 0.53
30 49 0.27
31 9 0.05
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (29 bp):
GAACTTCCAAAAATCACCATTTTTACCCC
Found at i:153301 original size:59 final size:57
Alignment explanation
Indices: 153203--153491 Score: 284
Period size: 59 Copynumber: 5.0 Consensus size: 57
153193 GGAGGTCCTT
*
153203 GAACTTTCCAAAAATCACCA-TTTT-ACCCTCGAACTTCCAAAAA-T-CCTATTTTTAACCCC
1 GAAC-TTCCAAAAATC-CCATTTTTGACCC-CGACCTTCCAAAAATTACC-A-TTTT-ACCCC
*
153262 AAACTTCCAAAAATCCCATTTTTGACCCCGACCTTTCCAAAAATTACCA-TTTACCCC
1 GAACTTCCAAAAATCCCATTTTTGACCCCGACC-TTCCAAAAATTACCATTTTACCCC
* * * * * *
153319 GAACTTCTAAAAACCCCATTTTTTACCCCAAACCTTTCAAAATTTACCATTTTACACCC
1 GAACTTCCAAAAATCCCATTTTTGACCCC-GACCTTCCAAAAATTACCATTTTAC-CCC
* * *
153378 GAACTTCCAAAAATCCCATTTTTGACCTCTGATCTTCTAAAAATTACCATTTTACCCTC
1 GAACTTCCAAAAATCCCATTTTTGACC-CCGACCTTCCAAAAATTACCATTTTACCC-C
* *** *
153437 GAACTTCCAAAAATCCTATTTTTGATTTCGAACATTCC-AAAATTACCATTTTACC
1 GAACTTCCAAAAATCCCATTTTTGACCCCG-ACCTTCCAAAAATTACCATTTTACC
153492 ACTCCATGCA
Statistics
Matches: 193, Mismatches: 26, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
57 46 0.24
58 50 0.26
59 92 0.48
60 3 0.02
61 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (57 bp):
GAACTTCCAAAAATCCCATTTTTGACCCCGACCTTCCAAAAATTACCATTTTACCCC
Found at i:153488 original size:29 final size:28
Alignment explanation
Indices: 153203--153491 Score: 139
Period size: 29 Copynumber: 9.9 Consensus size: 28
153193 GGAGGTCCTT
*
153203 GAACTTTCCAAAAATCACCATTTTACCCTC
1 GAAC-TTCC-AAAATTACCATTTTACCCTC
*
153233 GAACTTCCAAAAAT-CCTATTTTTAACCC-C
1 GAACTTCCAAAATTACC-A-TTTT-ACCCTC
* * *
153262 AAACTTCCAAAAATCCCATTTTTGACCC-C
1 GAACTTCCAAAATTACCA-TTTT-ACCCTC
*
153291 GACCTTTCCAAAAATTACCA-TTTACCC-C
1 GAAC-TTCC-AAAATTACCATTTTACCCTC
* ***
153319 GAACTTCTAAAAACCCCATTTTTTACCC-C
1 GAACTTCCAAAATTACCA--TTTTACCCTC
* *
153348 AAACCTTTCAAAATTTACCATTTTACACC-C
1 GAA-CTTCCAAAA-TTACCATTTTAC-CCTC
* *
153378 GAACTTCCAAAAATCCCATTTTTGA-CCTC
1 GAACTTCCAAAATTACCA-TTTT-ACCCTC
* *
153407 TGATCTTCTAAAAATTACCATTTTACCCTC
1 -GAACTTC-CAAAATTACCATTTTACCCTC
* **
153437 GAACTTCCAAAAAT-CCTATTTTTGA-TTTC
1 GAACTTCCAAAATTACC-A-TTTT-ACCCTC
153466 GAACATTCCAAAATTACCATTTTACC
1 GAAC-TTCCAAAATTACCATTTTACC
153492 ACTCCATGCA
Statistics
Matches: 201, Mismatches: 34, Indels: 49
0.71 0.12 0.17
Matches are distributed among these distances:
26 7 0.03
27 7 0.03
28 26 0.13
29 88 0.44
30 52 0.26
31 21 0.10
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (28 bp):
GAACTTCCAAAATTACCATTTTACCCTC
Found at i:156192 original size:24 final size:21
Alignment explanation
Indices: 156150--156193 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
156140 TACAAAAAAA
156150 AATATTTTTGTGACGTTTATT
1 AATATTTTTGTGACGTTTATT
*
156171 AATATTATTTGTGATGTTT-TT
1 AATATT-TTTGTGACGTTTATT
156192 AA
1 AA
156194 ACGTTAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (21 bp):
AATATTTTTGTGACGTTTATT
Found at i:159825 original size:52 final size:52
Alignment explanation
Indices: 159754--159878 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
159744 GTCCAATGAC
* * *
159754 TGTGTCATTGTGAGTATATAAATCCTTTATGGATTATGAAGTCCGATGACTA
1 TGTGTCATCGTGAGTATATAAATCCTTTACGAATTATGAAGTCCGATGACTA
*
159806 TGTGTCATCGTGAGTATATAAATCCTTTACGAATTATGAGGTCCGATGACTA
1 TGTGTCATCGTGAGTATATAAATCCTTTACGAATTATGAAGTCCGATGACTA
159858 TGTGTCATCGTGAGTAT-TAAA
1 TGTGTCATCGTGAGTATATAAA
159879 GGAAATAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 4 0.06
52 65 0.94
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (52 bp):
TGTGTCATCGTGAGTATATAAATCCTTTACGAATTATGAAGTCCGATGACTA
Found at i:164692 original size:25 final size:25
Alignment explanation
Indices: 164641--164712 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
164631 ATGGCAAAAT
* * *
164641 TAAAATACAT-ACATGAATAATAGAA
1 TAAAATAAATAACATAAATAA-ATAA
164666 TAAAATAAATAACACT-AATAAATAA
1 TAAAATAAATAACA-TAAATAAATAA
* *
164691 TACAATTAATAACATAAATAAA
1 TAAAATAAATAACATAAATAAA
164713 AGATGTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 1 0.03
25 30 0.75
26 8 0.20
27 1 0.03
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (25 bp):
TAAAATAAATAACATAAATAAATAA
Found at i:168312 original size:25 final size:26
Alignment explanation
Indices: 168240--168318 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 26
168230 GGCGGTAAAG
* *
168240 TAAAACAAATTTAGAAATGTAAAATAA
1 TAAAAAAAATTTA-AAATATAAAATAA
*
168267 TAAAAAAAATTGAAACA-AT-AAATAA
1 TAAAAAAAATTTAAA-ATATAAAATAA
* *
168292 TAATATAAATTTAAAATATAAAATAA
1 TAAAAAAAATTTAAAATATAAAATAA
168318 T
1 T
168319 GTAATTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
24 1 0.02
25 20 0.47
26 10 0.23
27 12 0.28
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (26 bp):
TAAAAAAAATTTAAAATATAAAATAA
Found at i:171967 original size:30 final size:29
Alignment explanation
Indices: 171933--171990 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
171923 GAGAAGAAGT
* *
171933 ATAAACATATTGGGCCATTTATGTAAAAAA
1 ATAAAAATATTAGGCCATTTAT-TAAAAAA
171963 ATAAAAATATTAGGCCATTTATTAAAAA
1 ATAAAAATATTAGGCCATTTATTAAAAA
171991 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (29 bp):
ATAAAAATATTAGGCCATTTATTAAAAAA
Found at i:171998 original size:28 final size:29
Alignment explanation
Indices: 171933--171998 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
171923 GAGAAGAAGT
* *
171933 ATAAACATATTGGGCCATTTATGTAAAAAA
1 ATAAAAATATTAGGCCATTTATGT-AAAAA
171963 ATAAAAATATTAGGCCATTTAT-T-AAAA
1 ATAAAAATATTAGGCCATTTATGTAAAAA
171990 ATGAAAAAT
1 AT-AAAAAT
171999 GAAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 6 0.18
28 6 0.18
29 1 0.03
30 20 0.61
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (29 bp):
ATAAAAATATTAGGCCATTTATGTAAAAA
Found at i:175068 original size:45 final size:45
Alignment explanation
Indices: 175004--175094 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
174994 GCTCCTCTGA
175004 AATGAAGATACATTTTGTCATCTGTTTGATGAATTAATTTGTCTT
1 AATGAAGATACATTTTGTCATCTGTTTGATGAATTAATTTGTCTT
175049 AATGAAGATACATTTTGTCATCTGTTTGATGAATTAATTTGTCTT
1 AATGAAGATACATTTTGTCATCTGTTTGATGAATTAATTTGTCTT
175094 A
1 A
175095 GTTATGTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (45 bp):
AATGAAGATACATTTTGTCATCTGTTTGATGAATTAATTTGTCTT
Found at i:175090 original size:24 final size:24
Alignment explanation
Indices: 175017--175091 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
175007 GAAGATACAT
175017 TTTGTCATCTGTTTGATGAATTAA
1 TTTGTCATCTGTTTGATGAATTAA
** *
175041 TTTGTC-T-T-AATGAAG-A-TACA
1 TTTGTCATCTGTTTGATGAATTA-A
175061 TTTTGTCATCTGTTTGATGAATTAA
1 -TTTGTCATCTGTTTGATGAATTAA
175086 TTTGTC
1 TTTGTC
175092 TTAGTTATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 10 0.26
22 2 0.05
23 2 0.05
24 16 0.42
25 2 0.05
26 2 0.05
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.49
Consensus pattern (24 bp):
TTTGTCATCTGTTTGATGAATTAA
Found at i:185577 original size:13 final size:13
Alignment explanation
Indices: 185559--185588 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
185549 AGTTCAGAGG
185559 GATTTATCACTGT
1 GATTTATCACTGT
185572 GATTTATCACTGT
1 GATTTATCACTGT
185585 GATT
1 GATT
185589 AAATTAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (13 bp):
GATTTATCACTGT
Found at i:185963 original size:77 final size:77
Alignment explanation
Indices: 185836--185990 Score: 267
Period size: 77 Copynumber: 2.0 Consensus size: 77
185826 TGTGCAATCG
*
185836 CCCATAGCTCAGCATTAAATATCGATCCTCTCTCTAGAAACAGTTGGAACCCAACAACCCAATTC
1 CCCATAGCTCAGCATTAAATACCGATCCTCTCTCTAGAAACAGTTGGAACCCAACAACCCAATTC
185901 TCTGCCACATCA
66 TCTGCCACATCA
*
185913 CCCATAGCTCAGCATTAAATACCGATCCTCTCTCTA-AGAACAGTTGGAACCCAATAACCCAATT
1 CCCATAGCTCAGCATTAAATACCGATCCTCTCTCTAGA-AACAGTTGGAACCCAACAACCCAATT
*
185977 CTTTGCCACATCA
65 CTCTGCCACATCA
185990 C
1 C
185991 GAATAACACA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 1 0.01
77 73 0.99
ACGTcount: A:0.32, C:0.34, G:0.10, T:0.24
Consensus pattern (77 bp):
CCCATAGCTCAGCATTAAATACCGATCCTCTCTCTAGAAACAGTTGGAACCCAACAACCCAATTC
TCTGCCACATCA
Found at i:192746 original size:24 final size:23
Alignment explanation
Indices: 192715--192759 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
192705 AAAATTAAAC
192715 CCCAAAAACCTAAAAACAAAAAA
1 CCCAAAAACCTAAAAACAAAAAA
* *
192738 CCCACAAAACGTAAACACAAAA
1 CCCA-AAAACCTAAAAACAAAA
192760 TTATCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.64, C:0.29, G:0.02, T:0.04
Consensus pattern (23 bp):
CCCAAAAACCTAAAAACAAAAAA
Found at i:196455 original size:15 final size:15
Alignment explanation
Indices: 196424--196473 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
196414 ATTTACAAAT
*
196424 TTAAAAAGTATAAAAA
1 TTAAAAA-TATATAAA
*
196440 TTAAAATTA-ATTAAA
1 TTAAAAATATA-TAAA
196455 -TAAAAATATATAAA
1 TTAAAAATATATAAA
196469 TTAAA
1 TTAAA
196474 TCTACAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.43
15 10 0.36
16 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
TTAAAAATATATAAA
Found at i:199531 original size:30 final size:30
Alignment explanation
Indices: 199491--199550 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
199481 ATTTACATTT
*
199491 TAGTCCCTCAACTTTGAAAATATGATAAAA
1 TAGTCCCTCAACTTTGAAAATATGACAAAA
* *
199521 TAGTCTCTCAACTTTGAAAATGTGACAAAA
1 TAGTCCCTCAACTTTGAAAATATGACAAAA
199551 CAGTTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (30 bp):
TAGTCCCTCAACTTTGAAAATATGACAAAA
Found at i:199711 original size:31 final size:30
Alignment explanation
Indices: 199646--199717 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
199636 GTCACATTTA
* *
199646 ACAAAACAATCACTCAACTTAGAAAATGTG
1 ACAAAACAGTCACTAAACTTAGAAAATGTG
*
199676 ACAAAACAGTCACTAAAGTTATCGAAAA-GTG
1 ACAAAACAGTCACTAAACTTA--GAAAATGTG
*
199707 ACAAAATAGTC
1 ACAAAACAGTC
199718 CTCTTGTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 18 0.50
31 13 0.36
32 5 0.14
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.19
Consensus pattern (30 bp):
ACAAAACAGTCACTAAACTTAGAAAATGTG
Found at i:200182 original size:9 final size:9
Alignment explanation
Indices: 200168--200201 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
200158 GTTTTTGAAT
*
200168 TCGAATAAC
1 TCGAATAAA
*
200177 TCGAATAAT
1 TCGAATAAA
200186 TCGAATAAA
1 TCGAATAAA
200195 TCGAATA
1 TCGAATA
200202 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:200188 original size:18 final size:18
Alignment explanation
Indices: 200165--200201 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
200155 TGAGTTTTTG
*
200165 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
200183 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
200201 A
1 A
200202 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:200540 original size:13 final size:13
Alignment explanation
Indices: 200524--200548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
200514 CAACCAAAAT
200524 TTTACTTTCCCTA
1 TTTACTTTCCCTA
200537 TTTACTTTCCCT
1 TTTACTTTCCCT
200549 CAAAAATTTA
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:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTACTTTCCCTA
Found at i:203608 original size:21 final size:21
Alignment explanation
Indices: 203582--203657 Score: 89
Period size: 21 Copynumber: 3.3 Consensus size: 21
203572 AGCGTCTCTA
*
203582 TCTCCAATCTCAGCTTCTGAT
1 TCTCCAATCTCAGCTTCTCAT
203603 TCTCCAATCTCAGCTTCTCATTCT
1 TCTCCAATCTCAGCTTCTCA---T
203627 CTAACTCCAATCTCAGCTTCTCAT
1 -T--CTCCAATCTCAGCTTCTCAT
203651 TCTCCAA
1 TCTCCAA
203658 CTCCAATCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
21 25 0.52
23 1 0.02
24 2 0.04
25 1 0.02
27 19 0.40
ACGTcount: A:0.21, C:0.37, G:0.05, T:0.37
Consensus pattern (21 bp):
TCTCCAATCTCAGCTTCTCAT
Found at i:203681 original size:33 final size:27
Alignment explanation
Indices: 203604--203691 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
203594 GCTTCTGATT
*
203604 CTCCAATCTCAGCTTCTCATTCTCTAA
1 CTCCAATCTCAGCTTCTCATTCTCCAA
203631 CTCCAATCTCAGCTTCTCATTCTCCAA
1 CTCCAATCTCAGCTTCTCATTCTCCAA
* * **
203658 CTCCAATCTCAGCCTCGCATTCTCCTT
1 CTCCAATCTCAGCTTCTCATTCTCCAA
203685 CTCCAAT
1 CTCCAAT
203692 ACATGTTCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.20, C:0.41, G:0.05, T:0.34
Consensus pattern (27 bp):
CTCCAATCTCAGCTTCTCATTCTCCAA
Found at i:207156 original size:18 final size:17
Alignment explanation
Indices: 207133--207166 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
207123 TCCACTCTAA
207133 TATTCACTAACTGTATAC
1 TATTCACTAACT-TATAC
207151 TATTCACTAACTTATA
1 TATTCACTAACTTATA
207167 ATGTTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (17 bp):
TATTCACTAACTTATAC
Found at i:210938 original size:66 final size:68
Alignment explanation
Indices: 210830--210968 Score: 194
Period size: 66 Copynumber: 2.1 Consensus size: 68
210820 GATACGCGGA
* *
210830 TCTCCAAGCACACCAAATATGACTCATAGAGTCGAACATGTCCCATAAGTAAAGCATATAA-CTA
1 TCTCCAAGCACAACAAATATGACTCATAGAGTCGAACATGTCCCAAAAGTAAAGCATA-AAGCTA
210894 ACAC
65 ACAC
* * **
210898 TCTCCAAGCATAACAAA-A-GACTCATAGAGTCGAACATGTCCCAAAAGTGAAGTGTAAAGCTAA
1 TCTCCAAGCACAACAAATATGACTCATAGAGTCGAACATGTCCCAAAAGTAAAGCATAAAGCTAA
210961 CAC
66 CAC
210964 TCTCC
1 TCTCC
210969 TTATTTCCCC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
65 2 0.03
66 46 0.72
67 1 0.02
68 15 0.23
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (68 bp):
TCTCCAAGCACAACAAATATGACTCATAGAGTCGAACATGTCCCAAAAGTAAAGCATAAAGCTAA
CAC
Found at i:211751 original size:13 final size:13
Alignment explanation
Indices: 211735--211764 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
211725 GACCACAAGT
211735 TGGTCCAGAAATG
1 TGGTCCAGAAATG
211748 TGGTCCAGAAATG
1 TGGTCCAGAAATG
211761 TGGT
1 TGGT
211765 GACATTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (13 bp):
TGGTCCAGAAATG
Found at i:212956 original size:36 final size:36
Alignment explanation
Indices: 212897--213119 Score: 268
Period size: 36 Copynumber: 6.2 Consensus size: 36
212887 GCCGATCAAT
* *
212897 TGTCACAGGGCATGAATAGCATACCTACATATTTAC
1 TGTCACATGGCATGAATAACATACCTACATATTTAC
* * * *
212933 TATCTCATGGCATGAATAACATACCCACACATTTAC
1 TGTCACATGGCATGAATAACATACCTACATATTTAC
* * * *
212969 TATCACATGACATGAATAACATACCCAAATATTTAC
1 TGTCACATGGCATGAATAACATACCTACATATTTAC
*
213005 TGTCACATGGCATGAATAACATATCTACATATTTAC
1 TGTCACATGGCATGAATAACATACCTACATATTTAC
213041 TGTCACATGGCATGAATAACATACCCT-CATATTTAC
1 TGTCACATGGCATGAATAACATA-CCTACATATTTAC
** * * **
213077 TGTCTTATGACATGAATAACATACTTATTTATTTAC
1 TGTCACATGGCATGAATAACATACCTACATATTTAC
*
213113 TTTCACA
1 TGTCACA
213120 ACAGTCATCA
Statistics
Matches: 160, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
35 2 0.01
36 156 0.98
37 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (36 bp):
TGTCACATGGCATGAATAACATACCTACATATTTAC
Found at i:213119 original size:108 final size:108
Alignment explanation
Indices: 212897--213100 Score: 318
Period size: 108 Copynumber: 1.9 Consensus size: 108
212887 GCCGATCAAT
* *
212897 TGTCACAGGGCATGAATAGCATACCTACATATTTACTATCTCATGGCATGAATAACATACCCACA
1 TGTCACAGGGCATGAATAACATACCTACATATTTACTATCACATGGCATGAATAACATACCCACA
212962 CATTTACTATCACATGACATGAATAACATACCCAAATATTTAC
66 CATTTACTATCACATGACATGAATAACATACCCAAATATTTAC
* * * *
213005 TGTCACATGGCATGAATAACATATCTACATATTTACTGTCACATGGCATGAATAACATACCCTCA
1 TGTCACAGGGCATGAATAACATACCTACATATTTACTATCACATGGCATGAATAACATACCCACA
* * **
213070 TATTTACTGTCTTATGACATGAATAACATAC
66 CATTTACTATCACATGACATGAATAACATAC
213101 TTATTTATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 86 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (108 bp):
TGTCACAGGGCATGAATAACATACCTACATATTTACTATCACATGGCATGAATAACATACCCACA
CATTTACTATCACATGACATGAATAACATACCCAAATATTTAC
Found at i:216515 original size:59 final size:60
Alignment explanation
Indices: 216437--216929 Score: 558
Period size: 59 Copynumber: 8.3 Consensus size: 60
216427 TTTAGAAAAA
* * * * * * *
216437 TTCGGGGTCAGAAATGGGATTTTTAGAAG-TTCGAGGG-TAAAAGT-GGACCTTTTGAAAGT
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTG-GGGTTAAAAATGGGA-TTTTTGGAAGT
* * *
216496 TTTGGGGTTAAAAATGGGATTTTTGGTAGTTTTGGGGTTAAAAATGGGATTTTTGG-AGG
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
* * * * * * *
216555 TTCGGGGGTAAAAATGGAATTTTTGAAAGCTTCGGGGTTAAAAATGAGATTTTTGGTAG-
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
* * * * ** *
216614 TTCGGGGGT-AAAATGGAATTTTTGGAAGTTTTGGGGTGAAAATTGGGATTTTTAAAAGC
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
* * *
216673 TTCGAGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATTGGATTTTTAGAAG-
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
216732 TTC-GGGTGTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
1 TTCGGGGT-TAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
* * * *
216792 TTTGGGGGTAAAAATGGGATTTTTGGAAG-TTT-GGGTTTAAAATGAGATTTTTGGAAGT
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
* * * *
216850 TTCGAGGTTAAAAATGGGATTTTTAGAAG-TTCGGGGGTAAAAATGGGATTTTTGGAAGT
1 TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
*
216909 TTAGGGGTTAAAAATGGGATT
1 TTCGGGGTTAAAAATGGGATT
216930 GTTGAACAAT
Statistics
Matches: 373, Mismatches: 51, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
58 94 0.25
59 190 0.51
60 83 0.22
61 6 0.02
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.36
Consensus pattern (60 bp):
TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGT
Found at i:216520 original size:30 final size:30
Alignment explanation
Indices: 216448--216929 Score: 527
Period size: 30 Copynumber: 16.3 Consensus size: 30
216438 TCGGGGTCAG
* *
216448 AAATGGGATTTTTAGAAG-TTCGAGGG-TAA
1 AAATGGGATTTTTGGAAGTTTTG-GGGTTAA
* * *
216477 AAGT-GGACCTTTTGAAAGTTTTGGGGTTAA
1 AAATGGGA-TTTTTGGAAGTTTTGGGGTTAA
*
216507 AAATGGGATTTTTGGTAGTTTTGGGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* * *
216537 AAATGGGATTTTTGG-AGGTTCGGGGGTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* * * *
216566 AAATGGAATTTTTGAAAGCTTCGGGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* * * *
216596 AAATGAGATTTTTGGTAG-TTCGGGGGT-A
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* *
216624 AAATGGAATTTTTGGAAGTTTTGGGGTGAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* ** * * *
216654 AATTGGGATTTTTAAAAGCTTCGAGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
216684 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* * *
216714 AAATTGGATTTTTAGAAG--TTCGGGTGTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGT-TAA
216743 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
*
216773 AAATGGGATTTTTGGAAGTTTTGGGGGTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
*
216803 AAATGGGATTTTTGGAAG-TTT-GGGTTTA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* * *
216831 AAATGAGATTTTTGGAAGTTTCGAGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
* * *
216861 AAATGGGATTTTTAGAAG-TTCGGGGGTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
*
216890 AAATGGGATTTTTGGAAGTTTAGGGGTTAA
1 AAATGGGATTTTTGGAAGTTTTGGGGTTAA
216920 AAATGGGATT
1 AAATGGGATT
216930 GTTGAACAAT
Statistics
Matches: 379, Mismatches: 61, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
28 47 0.12
29 101 0.27
30 222 0.59
31 9 0.02
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.37
Consensus pattern (30 bp):
AAATGGGATTTTTGGAAGTTTTGGGGTTAA
Found at i:216547 original size:89 final size:87
Alignment explanation
Indices: 216448--216935 Score: 559
Period size: 89 Copynumber: 5.5 Consensus size: 87
216438 TCGGGGTCAG
* * * *
216448 AAATGGGATTTTTAGAAGTTCGAGGGTAAAAGTGGACCTTTTGAAAGTTTTGGGGTTAAAAATGG
1 AAATGGGATTTTTGGAAGTTCG-GGGTAAAAATGGA-TTTTTGAAAGTTTCGGGGTTAAAAATGG
* *
216513 GATTTTTGGTAGTTTTGGGGTTAA
64 GATTTTTGGAAGTTTTGGGGGTAA
* * *
216537 AAATGGGATTTTTGGAGGTTCGGGGGTAAAAATGGAATTTTTGAAAGCTTCGGGGTTAAAAATGA
1 AAATGGGATTTTTGGAAGTTC-GGGGTAAAAATGG-ATTTTTGAAAGTTTCGGGGTTAAAAATGG
* *
216602 GATTTTTGGTAG-TTCGGGGGT-A
64 GATTTTTGGAAGTTTTGGGGGTAA
* * * * * *
216624 AAATGGAATTTTTGGAAGTTTTGGGGTGAAAATTGGGATTTTTAAAAGCTTCGAGGTTAAAAATG
1 AAATGGGATTTTTGGAAG-TTCGGGGT-AAAAAT-GGATTTTTGAAAGTTTCGGGGTTAAAAATG
*
216689 GGATTTTTGGAAGTTTTGGGGTTAA
63 GGATTTTTGGAAGTTTTGGGGGTAA
* * * *
216714 AAATTGGATTTTTAGAAGTTCGGGTGTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGG
1 AAATGGGATTTTTGGAAGTTCGGG-GTAAAAAT-GGATTTTTGAAAGTTTCGGGGTTAAAAATGG
216779 GATTTTTGGAAGTTTTGGGGGTAA
64 GATTTTTGGAAGTTTTGGGGGTAA
* * * * *
216803 AAATGGGATTTTTGGAAGTTTGGGTTTAAAATGAGATTTTTGGAAGTTTCGAGGTTAAAAATGGG
1 AAATGGGATTTTTGGAAGTTCGGGGTAAAAATG-GATTTTTGAAAGTTTCGGGGTTAAAAATGGG
* *
216868 ATTTTTAGAAG-TTCGGGGGTAA
65 ATTTTTGGAAGTTTTGGGGGTAA
* *
216890 AAATGGGATTTTTGGAAGTTTAGGGGTTAAAAATGGGATTGTTGAA
1 AAATGGGATTTTTGGAAG-TTCGGGG-TAAAAAT-GGATTTTTGAA
216936 CAATTTAGGG
Statistics
Matches: 343, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
87 51 0.15
88 101 0.29
89 170 0.50
90 21 0.06
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.36
Consensus pattern (87 bp):
AAATGGGATTTTTGGAAGTTCGGGGTAAAAATGGATTTTTGAAAGTTTCGGGGTTAAAAATGGGA
TTTTTGGAAGTTTTGGGGGTAA
Found at i:216910 original size:147 final size:147
Alignment explanation
Indices: 216448--216929 Score: 591
Period size: 147 Copynumber: 3.3 Consensus size: 147
216438 TCGGGGTCAG
* * * * *
216448 AAATGGGATTTTTAGAAGTTCGAGGG-TAAAAGT-GGACCTTTTGAAAGTTTTGGGGTTAAAAAT
1 AAATGGGATTTTTGGAAGTTCG-GGGTTAAAAATGGGA-TTTTTGGAAGTTTTGGGGGTAAAAAT
* * * * *
216511 GGGATTTTTGGTAGTTTTGGGGTTAAAAATGGGATTTTTGG-AGGTTCGGGGGTAAAAATGGAAT
64 GGGATTTTTGGAAGCTTT-GGGTTAAAAATGGGATTTTTGGAAGTTTCGGGGTTAAAAATGGGAT
*
216575 TTTT-GAAAGCTTCGGGGTTAA
128 TTTTAG-AAG-TTCGGGGGTAA
* * * * *
216596 AAATGAGATTTTTGGTAGTTCGGGGGT-AAAATGGAATTTTTGGAAGTTTT-GGGGTGAAAATTG
1 AAATGGGATTTTTGGAAGTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGGT-AAAAATG
** * * *
216659 GGATTTTTAAAAGCTTCGAGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATTGGATT
65 GGATTTTTGGAAGCTTTG-GGTTAAAAATGGGATTTTTGGAAGTTTCGGGGTTAAAAATGGGATT
*
216724 TTTAGAAGTTCGGGTGTAA
129 TTTAGAAGTTCGGGGGTAA
*
216743 AAATGGGATTTTTGGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGGTAAAAATG
1 AAATGGGATTTTTGGAAG-TTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGGTAAAAATG
* * *
216808 GGATTTTTGGAAG-TTTGGGTTTAAAATGAGATTTTTGGAAGTTTCGAGGTTAAAAATGGGATTT
65 GGATTTTTGGAAGCTTTGGGTTAAAAATGGGATTTTTGGAAGTTTCGGGGTTAAAAATGGGATTT
216872 TTAGAAGTTCGGGGGTAA
130 TTAGAAGTTCGGGGGTAA
*
216890 AAATGGGATTTTTGGAAGTTTAGGGGTTAAAAATGGGATT
1 AAATGGGATTTTTGGAAG-TTCGGGGTTAAAAATGGGATT
216930 GTTGAACAAT
Statistics
Matches: 288, Mismatches: 37, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
146 5 0.02
147 181 0.63
148 57 0.20
149 40 0.14
150 5 0.02
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.37
Consensus pattern (147 bp):
AAATGGGATTTTTGGAAGTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTGGGGGTAAAAATGG
GATTTTTGGAAGCTTTGGGTTAAAAATGGGATTTTTGGAAGTTTCGGGGTTAAAAATGGGATTTT
TAGAAGTTCGGGGGTAA
Done.