Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015453.1 Corchorus olitorius cultivar O-4 contig15486, 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: 137891
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:4820 original size:73 final size:73
Alignment explanation
Indices: 4734--4875 Score: 275
Period size: 73 Copynumber: 1.9 Consensus size: 73
4724 ATAATACTCA
4734 TAAAAAATATATAATTAAATGTCAAATAGATTGAAGGACTTTTCACTCTTCTAATATCGATTTTT
1 TAAAAAATATATAATTAAATGTCAAATAGATTGAAGGACTTTTCACTCTTCTAATATCGATTTTT
4799 AAACACCG
66 AAACACCG
*
4807 TAAAAATTATATAATTAAATGTCAAATAGATTGAAGGACTTTTCACTCTTCTAATATCGATTTTT
1 TAAAAAATATATAATTAAATGTCAAATAGATTGAAGGACTTTTCACTCTTCTAATATCGATTTTT
4872 AAAC
66 AAAC
4876 GCCATATTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (73 bp):
TAAAAAATATATAATTAAATGTCAAATAGATTGAAGGACTTTTCACTCTTCTAATATCGATTTTT
AAACACCG
Found at i:6159 original size:24 final size:24
Alignment explanation
Indices: 6132--6180 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6122 TGGAGTATCA
*
6132 AAAAAATGGGTTTATAAGGATTGG
1 AAAAAATGGATTTATAAGGATTGG
**
6156 AAAATGTGGATTTATAAGGATTGG
1 AAAAAATGGATTTATAAGGATTGG
6180 A
1 A
6181 TCAAAGCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.31
Consensus pattern (24 bp):
AAAAAATGGATTTATAAGGATTGG
Found at i:8764 original size:13 final size:13
Alignment explanation
Indices: 8746--8772 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8736 AAACAACTGA
8746 AAAGCACTTCTGG
1 AAAGCACTTCTGG
8759 AAAGCACTTCTGG
1 AAAGCACTTCTGG
8772 A
1 A
8773 TTTTCCGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
AAAGCACTTCTGG
Found at i:9529 original size:111 final size:113
Alignment explanation
Indices: 9330--9547 Score: 307
Period size: 111 Copynumber: 1.9 Consensus size: 113
9320 GTGGAAGTCC
* *
9330 GCGAGCCACGACATGTCTTCTTCGTTTTGGTATGTCTAATTTTTGTCCCGCAAAGGAAAAGGCAA
1 GCGAGCCACGACATGTCTTCTTCGTTTTCGTATGTCTAATTTTTGTCCCGCAAAGGAAAAGACAA
* * * *
9395 AGAAAGAATAGCAATATTAATTGAAGTTAACAAACAAGTTAACAAGTT
66 AGAAAGAATAACAAGAATAATTGAAGTAAACAAACAAGTTAACAAGTT
* * *
9443 GCGAGCCACTACATTTCTTCTTC-TTTTCGTATGTCTAATTTTTGT-CTGCAAAGGAAAAGACAA
1 GCGAGCCACGACATGTCTTCTTCGTTTTCGTATGTCTAATTTTTGTCCCGCAAAGGAAAAGACAA
* *
9506 AGAAATATATAACAGGAAT-ATTGAAGTAAACAAACAAGTTAA
66 AGAAAGA-ATAACAAGAATAATTGAAGTAAACAAACAAGTTAA
9548 TATAACAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 44 0.47
112 28 0.30
113 21 0.23
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (113 bp):
GCGAGCCACGACATGTCTTCTTCGTTTTCGTATGTCTAATTTTTGTCCCGCAAAGGAAAAGACAA
AGAAAGAATAACAAGAATAATTGAAGTAAACAAACAAGTTAACAAGTT
Found at i:11991 original size:26 final size:26
Alignment explanation
Indices: 11944--11997 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
11934 CGCCACTGAA
* * *
11944 ATATATAATATTTTATATAATTTATT
1 ATATATAATATTCTATAAAATTAATT
11970 ATATATAATATATCTA-AAAATTAATT
1 ATATATAATAT-TCTATAAAATTAATT
11996 AT
1 AT
11998 TTTAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATAATATTCTATAAAATTAATT
Found at i:14851 original size:31 final size:31
Alignment explanation
Indices: 14800--14891 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
14790 ACTTTTTGAA
14800 ACACATGGTCACTTTTTTGGTACACATGGCGTG
1 ACACAT-GTCAC-TTTTTGGTACACATGGCGTG
* **
14833 ATATGTGTCACTTTTTGGTACACATGGCGTG
1 ACACATGTCACTTTTTGGTACACATGGCGTG
* * *
14864 CCACATGTCGCTTTTTGGTACACGTGGC
1 ACACATGTCACTTTTTGGTACACATGGC
14892 ATGCCATCGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 42 0.84
32 5 0.10
33 3 0.06
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (31 bp):
ACACATGTCACTTTTTGGTACACATGGCGTG
Found at i:31501 original size:15 final size:14
Alignment explanation
Indices: 31460--31502 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
31450 GTCAAGGGAA
31460 AAAAAAAGGGAAAG
1 AAAAAAAGGGAAAG
*
31474 AAACAAAACGGAAAG
1 AAA-AAAAGGGAAAG
31489 AAAAAAAGAGGAAA
1 AAAAAAAG-GGAAA
31503 ACAGGGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAAAAGGGAAAG
Found at i:32449 original size:54 final size:54
Alignment explanation
Indices: 32370--32474 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
32360 TTACAATCGT
*
32370 TGATGTTTTGTGTATAAAAATATTATACGGAATTGGATCAAAATTAGATGATGA
1 TGATGTTTTGTGCATAAAAATATTATACGGAATTGGATCAAAATTAGATGATGA
* *
32424 TGATGTTTTGTGCATAAAAATATTATACGGAATTTGATCAGAATTAGATGA
1 TGATGTTTTGTGCATAAAAATATTATACGGAATTGGATCAAAATTAGATGA
32475 AGGGTCTACA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (54 bp):
TGATGTTTTGTGCATAAAAATATTATACGGAATTGGATCAAAATTAGATGATGA
Found at i:35738 original size:59 final size:59
Alignment explanation
Indices: 35622--35739 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
35612 TTACAAATAA
* * * * **
35622 CAAAATCTTCTTACAATATTTCTTTATTCGTAAGATTCAGAAACAAGACGAGTTTGGAT
1 CAAAAGCTTCTTACAATATTTCTTTATTCATAAGATTCAAAAACAAAACGAACTTGGAT
*
35681 CAAAAGCTTCTTACAATATTTCTTTATTTATAAGATTCAAAAACAAAACGAACTTGGAT
1 CAAAAGCTTCTTACAATATTTCTTTATTCATAAGATTCAAAAACAAAACGAACTTGGAT
35740 GACATCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (59 bp):
CAAAAGCTTCTTACAATATTTCTTTATTCATAAGATTCAAAAACAAAACGAACTTGGAT
Found at i:46587 original size:33 final size:33
Alignment explanation
Indices: 46541--46670 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
46531 TGATGAGAAG
* * *
46541 AGAAGTAATTTGAAGTCTCAGGTTTATGATAAA
1 AGAAGTAACTTGAAATCTGAGGTTTATGATAAA
*
46574 AGAAGTAACTTGAAATCTGGGGTTTATGATAAA
1 AGAAGTAACTTGAAATCTGAGGTTTATGATAAA
*
46607 AGAAGTAACTTGAAATCTGGGGTTTATGATAAA
1 AGAAGTAACTTGAAATCTGAGGTTTATGATAAA
*
46640 AGAAGTAACTTGAAATCTGATGTTTATGATA
1 AGAAGTAACTTGAAATCTGAGGTTTATGATA
46671 TGAACCTGCA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (33 bp):
AGAAGTAACTTGAAATCTGAGGTTTATGATAAA
Found at i:48490 original size:33 final size:33
Alignment explanation
Indices: 48444--48580 Score: 195
Period size: 33 Copynumber: 4.2 Consensus size: 33
48434 GGTAGTTTTG
* * *
48444 ATGA-GAAGAGAAGTAATTTGAAGTCTCAGGTTT
1 ATGATGAA-AGAAGTAACTTGAAATCTGAGGTTT
*
48477 ATGATGAAAGAAGTAACTTGAAATCTGGGGTTT
1 ATGATGAAAGAAGTAACTTGAAATCTGAGGTTT
* *
48510 ATGATAAAAGAAGTAACTTGAAATCTGGGGTTT
1 ATGATGAAAGAAGTAACTTGAAATCTGAGGTTT
*
48543 ATGATGAAAGCAGTAACTTGAAATCTGAGGTTT
1 ATGATGAAAGAAGTAACTTGAAATCTGAGGTTT
48576 ATGAT
1 ATGAT
48581 ATATGAGCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
33 92 0.97
34 3 0.03
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (33 bp):
ATGATGAAAGAAGTAACTTGAAATCTGAGGTTT
Found at i:57288 original size:10 final size:10
Alignment explanation
Indices: 57273--57297 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57263 TCAATAGACC
57273 TTTTTTTTCT
1 TTTTTTTTCT
57283 TTTTTTTTCT
1 TTTTTTTTCT
57293 TTTTT
1 TTTTT
57298 GTTGTGGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:62886 original size:27 final size:26
Alignment explanation
Indices: 62825--62876 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
62815 TTTGAATATA
* *
62825 AACAATTGATCAATTTTTTTTTAAAG
1 AACAATTGATCAATTTTATTATAAAG
62851 AACAATTGATCAATTTTCATTATAAA
1 AACAATTGATCAATTTT-ATTATAAA
62877 ACACATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (26 bp):
AACAATTGATCAATTTTATTATAAAG
Found at i:67554 original size:1 final size:1
Alignment explanation
Indices: 67550--67595 Score: 65
Period size: 1 Copynumber: 46.0 Consensus size: 1
67540 TTTTTTTAGC
***
67550 TTTTTTTTTTTTTTTTTTACCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
67596 GCAGCAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.02, C:0.04, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:67557 original size:12 final size:11
Alignment explanation
Indices: 67540--67588 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 11
67530 TAGTAGAATG
67540 TTTTTTTAGCTT
1 TTTTTTTA-CTT
67552 TTTTTTT--TT
1 TTTTTTTACTT
67561 TTTTTTTACCTT
1 TTTTTTTA-CTT
67573 TTTTTTT--TT
1 TTTTTTTACTT
67582 TTTTTTT
1 TTTTTTT
67589 TTTTTTTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 18 0.53
12 16 0.47
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (11 bp):
TTTTTTTACTT
Found at i:67589 original size:22 final size:21
Alignment explanation
Indices: 67540--67588 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
67530 TAGTAGAATG
*
67540 TTTTTTTAGCTTTTTTTTTTT
1 TTTTTTTACCTTTTTTTTTTT
67561 TTTTTTTACCTTTTTTTTTTT
1 TTTTTTTACCTTTTTTTTTTT
67582 TTTTTTT
1 TTTTTTT
67589 TTTTTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (21 bp):
TTTTTTTACCTTTTTTTTTTT
Found at i:76101 original size:134 final size:135
Alignment explanation
Indices: 75890--76149 Score: 468
Period size: 134 Copynumber: 1.9 Consensus size: 135
75880 AGATATGGAT
* *
75890 GTTTTGATCTATTATGCTAGATTAATTAGACATTTGGTCTGATAGTAAAGTATTGAATTTTTTAA
1 GTTTTAATCTATTATGCTAGATTAATTAGACATTTGGTCTGATAATAAAGTATTGAATTTTTTAA
*
75955 TCTTATTAACCGAAATTCGATTCCTAATAAACTTAAATAAAATAAAAAA-ATTAGTTTCAACTTT
66 TCATATTAACCGAAATTCGATTCCTAATAAACTTAAATAAAATAAAAAAGATTAGTTTCAACTTT
76019 AAAAG
131 AAAAG
76024 GTTTTAATCTATTATGCTAGATTAATTAGACATTTGGTCTGATAATAAAGTATTGAATTTTTTAA
1 GTTTTAATCTATTATGCTAGATTAATTAGACATTTGGTCTGATAATAAAGTATTGAATTTTTTAA
* *
76089 TCATATTGACCGAAGTTCGATTCCTAATAAACTTAAATAAAATAAAAAAGATTAGTTTCAA
66 TCATATTAACCGAAATTCGATTCCTAATAAACTTAAATAAAATAAAAAAGATTAGTTTCAA
76150 TTTTCAAGCC
Statistics
Matches: 120, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
134 109 0.91
135 11 0.09
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (135 bp):
GTTTTAATCTATTATGCTAGATTAATTAGACATTTGGTCTGATAATAAAGTATTGAATTTTTTAA
TCATATTAACCGAAATTCGATTCCTAATAAACTTAAATAAAATAAAAAAGATTAGTTTCAACTTT
AAAAG
Found at i:76223 original size:10 final size:11
Alignment explanation
Indices: 76182--76242 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 11
76172 TCTTTGCAAT
76182 ATATAAATATA
1 ATATAAATATA
76193 ATAATAATATATACA
1 AT-ATAA-ATAT--A
76208 ATTATAAAT-TA
1 A-TATAAATATA
76219 ATATAAATATA
1 ATATAAATATA
76230 ATAATAATATATA
1 AT-ATAA-ATATA
76243 CAATTATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
10 7 0.17
11 8 0.19
12 8 0.19
13 10 0.24
14 2 0.05
15 6 0.14
16 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATAAATATA
Found at i:76231 original size:37 final size:37
Alignment explanation
Indices: 76182--76256 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
76172 TCTTTGCAAT
76182 ATATAAATATAATAATAATATATACAATTATAAATTA
1 ATATAAATATAATAATAATATATACAATTATAAATTA
76219 ATATAAATATAATAATAATATATACAATTATAAATTA
1 ATATAAATATAATAATAATATATACAATTATAAATTA
76256 A
1 A
76257 AGTCTTGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (37 bp):
ATATAAATATAATAATAATATATACAATTATAAATTA
Found at i:78411 original size:30 final size:27
Alignment explanation
Indices: 78355--78411 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
78345 AATTTTTATG
* *
78355 CTTTTTTTTCCTTTCGATAAACTTAAT
1 CTTTTTTTTCCTTTCAATAAAATTAAT
78382 CTTTTTTTTCCTTTCCAACTTAAAATTAAT
1 CTTTTTTTTCCTTT-CAA--TAAAATTAAT
78412 TGACAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.56
28 2 0.08
30 9 0.36
ACGTcount: A:0.25, C:0.19, G:0.02, T:0.54
Consensus pattern (27 bp):
CTTTTTTTTCCTTTCAATAAAATTAAT
Found at i:80113 original size:14 final size:14
Alignment explanation
Indices: 80094--80126 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
80084 AAACTATGTA
80094 ATTTACACCAACCG
1 ATTTACACCAACCG
80108 ATTTACACCAACCG
1 ATTTACACCAACCG
80122 ATTTA
1 ATTTA
80127 TAGGAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.27
Consensus pattern (14 bp):
ATTTACACCAACCG
Found at i:81886 original size:5 final size:5
Alignment explanation
Indices: 81876--81926 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
81866 GCAGAAGATT
81876 CTTTC CTTTC CTTTC CTTTTC TCTTT- -TTTC CTTTCC CTTTC CTTT-
1 CTTTC CTTTC CTTTC C-TTTC -CTTTC CTTTC CTTT-C CTTTC CTTTC
81921 CTTTC C
1 CTTTC C
81927 GCACTGTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
3 3 0.08
4 4 0.10
5 20 0.50
6 12 0.30
7 1 0.03
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
CTTTC
Found at i:81905 original size:20 final size:20
Alignment explanation
Indices: 81876--81926 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
81866 GCAGAAGATT
*
81876 CTTTCCTTTCCTTTCCTTTTC
1 CTTT-CTTTCCTTTCCCTTTC
81897 TCTTT-TTTCCTTTCCCTTTC
1 -CTTTCTTTCCTTTCCCTTTC
81917 CTTTCTTTCC
1 CTTTCTTTCC
81927 GCACTGTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 19 0.70
22 4 0.15
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (20 bp):
CTTTCTTTCCTTTCCCTTTC
Found at i:96736 original size:86 final size:86
Alignment explanation
Indices: 96590--96833 Score: 382
Period size: 86 Copynumber: 2.8 Consensus size: 86
96580 CATACTAGAG
* * * * * * * * *
96590 TCGACTAATCTGGAATCGAACTGTGTA-GATCTCAAATGGGGTGAAACGTTCCTAGTACTTCAAA
1 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCCAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
96654 CATTTGATAACTACATTAAGT
66 CATTTGATAACTACATTAAGT
96675 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCCAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
1 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCCAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
96740 CATTTGATAACTACATTAAGT
66 CATTTGATAACTACATTAAGT
*
96761 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCAAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
1 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCCAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
*
96826 TATTTGAT
66 CATTTGAT
96834 GTATTCGATA
Statistics
Matches: 147, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 23 0.16
86 124 0.84
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (86 bp):
TCGATTAATCCGGAATCGAGCCGTGTAGGACCCCAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
CATTTGATAACTACATTAAGT
Found at i:96924 original size:99 final size:100
Alignment explanation
Indices: 96761--96960 Score: 278
Period size: 99 Copynumber: 2.0 Consensus size: 100
96751 TACATTAAGT
*
96761 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCAAAATGAGGTGAAGCGTTCCTAGCACTTCAAA
1 TCGATTAATCCGGAATCGAGCCGTGTAGGACCCAAAATGAGGTGAAGCGTACCTAGCACTTCAAA
*
96826 TATTTGATGTATTCGATAACTACACTAGACTCGAC
66 CATTTGATGTATTCGATAACTACACTAGACTCGAC
* ** * * * *
96861 TCGATTAATCTGGAATCGAGTTGTGTA-GATCTC-AGATGAGTTGAAGCGTACTTAGCACTTCAA
1 TCGATTAATCCGGAATCGAGCCGTGTAGGA-CCCAAAATGAGGTGAAGCGTACCTAGCACTTCAA
* *
96924 ACATTTGATGTATTCGATAATTACATTAGACTCGAC
65 ACATTTGATGTATTCGATAACTACACTAGACTCGAC
96960 T
1 T
96961 AATTCGGAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 62 0.70
100 26 0.30
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (100 bp):
TCGATTAATCCGGAATCGAGCCGTGTAGGACCCAAAATGAGGTGAAGCGTACCTAGCACTTCAAA
CATTTGATGTATTCGATAACTACACTAGACTCGAC
Found at i:118096 original size:330 final size:329
Alignment explanation
Indices: 117351--119229 Score: 1554
Period size: 330 Copynumber: 5.8 Consensus size: 329
117341 ATGGTTTTTT
* ** * * * ** * *
117351 TTTTTGCTAAAAACGCGTTTCGAGGATCCGGTTCAATTTTGCATGATTTTTTGCTTCAAGACTAC
1 TTTTTGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCC
* *
117416 TTGAAATATATCTATATTAATCTAATCAAATCTCAAGCACATTGGATTTAAGGATTTGTTTTTAC
66 TTG-AA-ATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTAC
* * * *
117481 GAGCATATGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAGGAAAAACGATATT
129 AAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATT
* * * ** * *
117546 GGAAA-CGTCAAAAG-CCTTTCAATCTTTTTGCCGTTGAATTATATATTTTTTATAAGTATTTTA
194 -AAAAGCGTAAAAAGTCC-TCCAAT-TTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTA
* * * * * *
117609 GCCTAAAATTGAGGAAATATTTTTCTA-ATCAATTTTTACAAAATTTTAGCCGAAATCGTGTAAT
256 G-CAAAAATTGGGGAAATAATTTTC-AGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACT
*
117673 AACCATCACAG
319 AACCATCACGG
* * * *
117684 TTTTTGGCTAAAAAAGTG-TTCTGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTC
1 TTTTT-GCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTC
* * * * *
117748 CTTGAGATACCCATATTCATCTAATCAAATCTCATCCACATTGGATTTAAGAATTTGTTTTTACA
65 CTTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACA
* * *
117813 AGCATCTGAATCTTGTTTCGATTTTATTAGAAATTAATTCAG-AAAATTATGAAAAACGATATTA
130 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTA
* * * *
117877 AAAGCGTAAAAAGTTCTCCAATATTTTTGGTGTTAAATTATACATATTTTATGAGTATTTTATCA
195 AAAGCGTAAAAAGTCCTCCAAT-TTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGCA
* * * * *
117942 AGAAATAGGGGAAAAAATTTTCAGGTC-ATTTTTGCAAAGTTTTAGCCAAAATCATGTACTAACC
259 A-AAATTGGGGAAATAATTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
118006 ATCACGG
323 ATCACGG
* *
118013 TTTTTGCCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTACATGATTTTTGGCGCCGACACTC
1 TTTTTG-CTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTC
* * * * * *
118078 TTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACG
65 CTTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACA
* * * *
118143 AGTATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATAATA
130 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTA
* ** * *
118208 AAAGCGTGAAAAG--C-CC--TTCATTGGTGTTGAATTATATATTTTTTATGAGTATTAT-GACT
195 AAAGCGTAAAAAGTCCTCCAATTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAG-C-
** *
118267 AAAAATTGAGGG-AATACCTTTC-GAGTCAATTTTTGCAAAATGTTAGCCGAAATCGTG---TAA
258 AAAAATTG-GGGAAATAATTTTCAG-GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
* *
118327 -TATCACTG
321 CCATCACGG
** * * * * * * *
118335 TTCTAGGCTAAAAACGCGTTCCGGGG-TCCGGTTCAATTTTGAATGATTTTTGGCCCCGAGATTC
1 TT-TTTGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTC
* * * *
118399 CTTGAAATATCTATATTAATCTAACCAAATCCCAA-C-CATT--ATTT-----TTAG-----A-A
65 CTTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACA
* * *
118449 A-CATCTGAATCATGCTTCGTTTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTA
130 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTA
* * * * * * *
118513 GAAGCGTGAAAAGCCCTTCAATTTTTTGGCGTTGAATTATATATTTTTTATGAGTA-TTGAGGCT
195 AAAGCGTAAAAAGTCCTCCAATTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTA-GC-
* * * * * * *
118577 AAAAATT-GAGAGAATATTTTTCTGGTCATTTTTTTGTAAAATTCTAACCGAAATCGTGTA-T--
258 AAAAATTGGGGA-AATAATTTTCAGGTCA-ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
** ****
118638 -GGT-TTTT
321 CCATCACGG
** * * ***
118645 TTTATTATTAAAAACGCGTTTCGGGGCCCTGTCTCAGTTTTGCATGATTTTTGGTATCGAGACTC
1 TTT-TTGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTC
* * * * *
118710 CTCGAAACATC--TA-T-A--T--T-AAATCTCAACCACATTGCATTTAAGGATTTATTTTTACG
65 CTTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACA
* * * * * *
118766 AGCATCTGAATCATCTTTTGATTTAATTAGAAATTAATTTAG-AAAAATATGAAAAGCGATATTA
130 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTA
* * * *
118830 AAAGTG-AGAAAAGTCCTCCAATCTTTTTAGAGTTGAATTATGTATATTTTATGAGTATTTTAGA
195 AAAGCGTA-AAAAGTCCTCCAAT-TTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAG-
* * * * *
118894 CAAAAATTGAGGAAA-AATATTTCTGGTCAATTTTTGCAAAATATTAGCCAAAATTGTGTACGTT
257 CAAAAATTGGGGAAATAAT-TTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC--T
* * *
118958 AGTCGAAATCATGG
319 A-AC--CATCACGG
* * * * * * *
118972 TTTTTTTTTTGCTAAAAACGCGTTCCGGGGTCCTGGTTCAGTGTTGCATGATTTTTTGCGTCGAG
1 -----TTTTTGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAG
* * * **
119037 ACTCCTTGAAATATCTACATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTG-TAA
61 ACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTT
* * * *
119101 AACAAGTATCTGAAT-TATGTTTCGATTTAATTAGAAATTAATTCGGAAAATAATAGGAAACACG
126 TACAAGCATCTGAATCT-TGTTTCGATTTAATTAGAAATTAATTCAGAAAA-AATAGGAAAAACG
* * *
119165 ATATTAGAAGCATGAAAAA--CCATTCAATTTTTTTGGTGTTGAATTATATA-ATTTTTATGAGT
189 ATATTAAAAGCGT-AAAAAGTCC-TCCAA-TTTTTTGGTGTTGAATTATATATA-TTTTATGAGT
119227 ATT
250 ATT
119230 GTGAAATTCT
Statistics
Matches: 1236, Mismatches: 227, Indels: 158
0.76 0.14 0.10
Matches are distributed among these distances:
302 8 0.01
303 1 0.00
304 4 0.00
305 69 0.06
306 5 0.00
307 3 0.00
308 4 0.00
309 4 0.00
310 73 0.06
311 66 0.05
312 3 0.00
313 1 0.00
316 1 0.00
317 67 0.05
318 85 0.07
319 10 0.01
320 2 0.00
321 58 0.05
322 26 0.02
323 5 0.00
324 1 0.00
325 48 0.04
326 32 0.03
327 1 0.00
328 3 0.00
329 59 0.05
330 219 0.18
331 183 0.15
332 4 0.00
333 46 0.04
334 11 0.01
335 1 0.00
337 1 0.00
339 38 0.03
340 34 0.03
341 54 0.04
342 5 0.00
343 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (329 bp):
TTTTTGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTCC
TTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACAA
GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTAA
AAGCGTAAAAAGTCCTCCAATTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGCAAA
AATTGGGGAAATAATTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATC
ACGG
Found at i:119915 original size:331 final size:331
Alignment explanation
Indices: 119308--121214 Score: 2342
Period size: 331 Copynumber: 5.8 Consensus size: 331
119298 CATGACTAAA
* * * * * *
119308 TTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATATCCATATTCATTTAATCTAATCTCAGCT
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * *
119373 ACATTGGATTGAAGAATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAACTAGAAATTAA
66 ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * *
119438 TTCA-AAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCATTAAA
131 TTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAA
* * * * *
119502 TTGTATATATTTTATGAGTATTATAGCCAAAAATTGACGGAAAAATCTTTCGGGTTAATTTTTTC
196 TTATATATTTTTTATGAGTATTTTAGCCAAAAATTGA-GGAAAAATCTTTCGGGTCAATTTTTGC
* * * * * *
119567 AAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTCGGCTAAAAATGCATTTTGGGGCGC
260 AAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCTGGGGCCC
119632 GACTCAG
325 GACTCAG
* * * *
119639 TTTTGCATGATTTTTTGTGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
*
119704 ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGGATCTTGTTTCGATTTAATTAGAAATTAA
66 ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * *
119769 TTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAAGGCTTTCAATTTTTTTGGCGTTGA
131 TTCAGAAAAAATATGAAAAACGATATTAAAAGCGTG-AAAAGCCCTCCAATCTTTTTGGCGTTGA
* * * * * *
119833 GTTATATATTTTTTATGAGTATTTTCGCTAGAAATCGAGGAAAAATCTTTCGAGTCAATTTTTGC
195 ATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGC
* * *
119898 AAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGCCC
260 AAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCTGGGGCCC
119963 GACAT-AG
325 GAC-TCAG
* * *
119970 TTTTGCATGTTTTTTGGTGCCAAGACTACTTGAAATATCTATATTCATCTAA-CTAAATCTCAGC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATC-AAATCTCAGC
*
120034 CACATT-AGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATT
65 CACATTGA-ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
** * * * *
120098 AATTTGGAAAAAATAGGAAAAACGATATTAGAAA-CGTCAAAAGCCCTTCAATCTTTTCGGCGTT
129 AATTCAGAAAAAATATGAAAAACGATATTA-AAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTT
* * * ***
120162 GAATTATATATTTTTTATAAGCATTTTAGCCAAAAATTGAGGAAGTAAT-TTTCTAATCAATTTT
193 GAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAA-AAATCTTTCGGGTCAATTTT
* * * * * *
120226 TACAAAATTTTAGCCGAAATCGTGCAATAATCATCATAGGTTTT-GGCTAAAAAAGCGTTCTGGG
257 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCA-CGGTTTTCGGCTAAAAACGCGTTCTGGG
* *
120290 GCCTCGGCTAAG
321 GCC-CGACTCAG
* *
120302 TTTTGCATGATTTTTGGCGCCAA-ACCTCTTTGAGATATCCT-TATTCATCTAATCAAATCTCAG
1 TTTTGCATGATTTTTGGCGCCAAGA-CTCCTTGAAATAT-CTATATTCATCTAATCAAATCTCAG
* * * * * *
120365 CCACATTGGATTTAAGAATTTGTTTTTATGTGCATCTGAATTTTGTTTCGA-TTAATTAAAAATT
64 CCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
** * **
120429 AATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGATGTTG
129 AATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTG
* * * * *
120494 AATTATATAATTTTTATGAGTATTTTTGCTAAAAATCGAGAAAAAATCTTTCGGGTCAATTTTTG
194 AATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTG
** * *
120559 CAAAAATTTTAGCCGAAATAATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTCCGGGGC
259 C-AAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCTGGGGC
120624 CCGACTCAG
323 CCGACTCAG
* * * *
120633 TTTTGCAGGATTTTTGGTGCCAAGACTCCTTGAAGTATCTATATTCATCTAACCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* *
120698 ACGTTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
66 ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * * * ** *
120763 TT-TGAAAAAATAGGAAAAACAATATTAGAAA-CGTTAAAAGCCCTTCAATCTTTTTGATGTCGA
131 TTCAGAAAAAATATGAAAAACGATATTA-AAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGA
* * ** *
120826 ATTATATATTTTTTATGAGTATTTTAGGCAAAAATTGAGCAATTATCTTTTGGGTCAATTTTTGC
195 ATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGC
* * * * * *
120891 AAAATTTTAGTCGAAATCGTGCACTAACCATCACGGTTTTTGGCTAAAATCGCGTTTTAGGGCCA
260 AAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCTGGGGCC-
* *
120956 CGAATCTG
324 CGACTCAG
* * * * *
120964 TTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATTTTTATTCATCTAATCAAATCTCAGAC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * *
121029 ACATTGGATTTAAGGATTTGTTTTTATGTGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAA
66 ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * ** * *
121094 TTCA-AAAAAATATGACAAATGATATTAAAAGTATGAAAAGTCCTCCAATCCTTTTGGCGTTGAA
131 TTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAA
* *
121158 TTATATATATTCTT-T--GTATTTT-GCCAAAAATTAAGGAAAAATC-TTCGGGTC-ATTTTT
196 TTATATAT-TTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTT
121215 ACCATCATGG
Statistics
Matches: 1349, Mismatches: 200, Indels: 59
0.84 0.12 0.04
Matches are distributed among these distances:
326 6 0.00
327 7 0.01
328 16 0.01
329 7 0.01
330 68 0.05
331 980 0.73
332 259 0.19
333 6 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (331 bp):
TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
TTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTGAA
TTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCA
AAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCTGGGGCCCG
ACTCAG
Found at i:121071 original size:994 final size:992
Alignment explanation
Indices: 119303--121165 Score: 2661
Period size: 994 Copynumber: 1.9 Consensus size: 992
119293 GAGGGCATGA
* *
119303 CTAAATTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATATCCATATTCATTTAATCTAATCT
1 CTAAATTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATATCCATATTCATCTAATCAAATCT
* *
119368 CAGCTACATTGGATTGAAGAATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAACTAGAA
66 CAGCCACATTGGATTGAAGAATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAACTAAAA
* * *
119433 ATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCAT
131 ATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGACAT
* * * *
119498 TAAATTGTATATATTTTATGAGTATTATAGCCAAAAATTGACGGAAAAATCTTTCGGGTTAATTT
196 TAAATTATATATATTTTATGAGTATTATAGCCAAAAATCGACGAAAAAATCTTTCGGGTCAATTT
* * ** * **
119563 TTTCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTCGGCTAAAAATGCATTTTGGG
261 TTGCAAAATTTTAGCCGAAATAATGTACTAACCATCACAGTTTTCGGCTAAAAACGCATTCCGGG
* * * * * *
119628 GCGCGACTCAGTTTTGCATGATTTTTTGTGTCGAGACTCCTTGAAATATCTATATTCATCTAATC
326 GCCCGACTCAGTTTTGCAGGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
* *
119693 AAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGGATCTTGTTTCGATTTAA
391 AAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
* * * * *
119758 TTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAAGGCTTTCAATTTTT
456 TTAGAAATTAATTCAGAAAAATAGGAAAAACAATATTAAAAGCGTGAAAAAGCCCTTCAATCTTT
* * * * *
119823 TTGGCGTTGAGTTATATATTTTTTATGAGTATTTTCGCTAGAAATCGAGGAAAAATCTTTCGAGT
521 TTGACGTCGAATTATATATTTTTTATGAGTATTTTCGCTAAAAATCGAGCAAAAATCTTTCGAGT
*
119888 CAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGT
586 CAATTTTTGCAAAATTTTAGCCGAAATCATGCACTAACCATCACGGTTTTCGGCTAAAACCGCGT
* * **
119953 TCCGGGGCCCGACATAGTTTTGCATGTTTTTTGGTGCCAAGACTACTTGAAATATCTATATTCAT
651 TCCAGGGCCCGACATAGTTTTGCATGATTTTTGGCACCAAGACTACTTGAAATATCTATATTCAT
* *
120018 CTAACTAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
716 CTAACTAAATCTCAGACACATTAGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCG
** *
120083 ATTTAATTAAAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACG-TCAAAAGCCCTTC
781 ATTTAATTAAAAATTAA-TTCAAAAAAATAGGAAAAACGATATTA-AAA-GATCAAAAGCCCTCC
120147 AAT-CTTTTCGGCGTTGAATTATATATTTTTTATAAGCATTTTAGCCAAAAATTGAGGAAGTAAT
843 AATCCTTTT-GGCGTTGAATTATATATTTTTTATAAGCATTTTAGCCAAAAATTGAGGAAGTAAT
120211 TTTCTAATCAATTTTTACAAAATTTTAGCCGAAATCGTGCAATAATCATCATAGGTTTTGGCTAA
907 TTTCTAATCAATTTTTACAAAATTTTAGCCGAAATCGTGCAATAATCATCATAGGTTTTGGCTAA
120276 AAAAGCGTTCTGGGGCCTCGG
972 AAAAGCGTTCTGGGGCCTCGG
* *
120297 CTAAGTTTTGCATGATTTTTGGCGCCAA-ACCTCTTTGAGATATCCTTATTCATCTAATCAAATC
1 CTAAATTTTGCATGATTTTTGGCGCCAAGA-CTCTTTGAGATATCCATATTCATCTAATCAAATC
* *** * *
120361 TCAGCCACATTGGATTTAAGAATTTGTTTTTATGTGCATCTGAATTTTGTTTCGA-TTAATTAAA
65 TCAGCCACATTGGATTGAAGAATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAACTAAA
*
120425 AATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGAT
130 AATTAATTCA-AAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGAC
* * * * *
120490 GTTGAATTATATA-ATTTTTATGAGTATTTTTGCTAAAAATCGA-GAAAAAATCTTTCGGGTCAA
194 ATTAAATTATATATA-TTTTATGAGTATTATAGCCAAAAATCGACGAAAAAATCTTTCGGGTCAA
* * *
120553 TTTTTGCAAAAATTTTAGCCGAAATAATGTACTAACCATCACGGTTTTCGGCTAAAACCGCGTTC
258 TTTTTGC-AAAATTTTAGCCGAAATAATGTACTAACCATCACAGTTTTCGGCTAAAAACGCATTC
*
120618 CGGGGCCCGACTCAGTTTTGCAGGATTTTTGGTGCCAAGACTCCTTGAAGTATCTATATTCATCT
322 CGGGGCCCGACTCAGTTTTGCAGGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCATCT
*
120683 AACCAAATCTCAGCCACGTTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
387 AACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
* *
120748 TTAATTAGAAATTAATT-TGAAAAAATAGGAAAAACAATATTAGAAA-CGT-TAAAAGCCCTTCA
452 TTAATTAGAAATTAATTCAG-AAAAATAGGAAAAACAATATTA-AAAGCGTGAAAAAGCCCTTCA
* * * **
120810 ATCTTTTTGATGTCGAATTATATATTTTTTATGAGTATTTTAGGC-AAAAATTGAGCAATTATCT
515 ATCTTTTTGACGTCGAATTATATATTTTTTATGAGTATTTT-CGCTAAAAATCGAGCAAAAATCT
* * * * *
120874 TTTGGGTCAATTTTTGCAAAATTTTAGTCGAAATCGTGCACTAACCATCACGGTTTTTGGCTAAA
579 TTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGCACTAACCATCACGGTTTTCGGCTAAA
* ** * * * *
120939 ATCGCGTTTTAGGGCCACGA-ATCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATT
644 ACCGCGTTCCAGGGCC-CGACAT-AGTTTTGCATGATTTTTGGCACCAAGACTACTTGAAATATC
* * * *
121003 TTTATTCATCTAA-TCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTATGTGCATCTAAA
707 TATATTCATCTAACT-AAATCTCAGACACATTAGATTTAAGGATTTGTTTTTACGAGCATCTAAA
* * * * *
121067 TCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGACAAATGATATTAAAAGTATGAAA
771 TCTTGTTTCGATTTAATTAAAAATTAATTCAAAAAAATAGGAAAAACGATATTAAAAG-ATCAAA
*
121132 AGTCCTCCAATCCTTTTGGCGTTGAATTATATAT
835 AGCCCTCCAATCCTTTTGGCGTTGAATTATATAT
121166 ATTCTTTGTA
Statistics
Matches: 762, Mismatches: 94, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
991 1 0.00
992 3 0.00
993 230 0.30
994 525 0.69
995 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (992 bp):
CTAAATTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATATCCATATTCATCTAATCAAATCT
CAGCCACATTGGATTGAAGAATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAACTAAAA
ATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTACTCCAATCCTTTTGACAT
TAAATTATATATATTTTATGAGTATTATAGCCAAAAATCGACGAAAAAATCTTTCGGGTCAATTT
TTGCAAAATTTTAGCCGAAATAATGTACTAACCATCACAGTTTTCGGCTAAAAACGCATTCCGGG
GCCCGACTCAGTTTTGCAGGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCATCTAACC
AAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
TTAGAAATTAATTCAGAAAAATAGGAAAAACAATATTAAAAGCGTGAAAAAGCCCTTCAATCTTT
TTGACGTCGAATTATATATTTTTTATGAGTATTTTCGCTAAAAATCGAGCAAAAATCTTTCGAGT
CAATTTTTGCAAAATTTTAGCCGAAATCATGCACTAACCATCACGGTTTTCGGCTAAAACCGCGT
TCCAGGGCCCGACATAGTTTTGCATGATTTTTGGCACCAAGACTACTTGAAATATCTATATTCAT
CTAACTAAATCTCAGACACATTAGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCG
ATTTAATTAAAAATTAATTCAAAAAAATAGGAAAAACGATATTAAAAGATCAAAAGCCCTCCAAT
CCTTTTGGCGTTGAATTATATATTTTTTATAAGCATTTTAGCCAAAAATTGAGGAAGTAATTTTC
TAATCAATTTTTACAAAATTTTAGCCGAAATCGTGCAATAATCATCATAGGTTTTGGCTAAAAAA
GCGTTCTGGGGCCTCGG
Found at i:122698 original size:6 final size:6
Alignment explanation
Indices: 122666--122711 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
122656 AGGGCTGTCC
* * * *
122666 GTGGCG GTGGCC GTGTCC GTGGCG GTGGTG GTGGCG GTGGCG GTGG
1 GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTGGCG GTGG
122712 TGATTGGGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.17, G:0.61, T:0.22
Consensus pattern (6 bp):
GTGGCG
Found at i:122799 original size:27 final size:27
Alignment explanation
Indices: 122766--122822 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
122756 ATGGAGGTGG
* *
122766 AGGGGGTCATGATTGTGGCGGGGGAGT
1 AGGGGGTCATGATGGTGGCGCGGGAGT
*
122793 AGGGGGTTATGATGGTGGCGCGGGAGT
1 AGGGGGTCATGATGGTGGCGCGGGAGT
122820 AGG
1 AGG
122823 AGCTGTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.07, G:0.56, T:0.21
Consensus pattern (27 bp):
AGGGGGTCATGATGGTGGCGCGGGAGT
Found at i:124191 original size:21 final size:21
Alignment explanation
Indices: 124152--124195 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
124142 GCGGCGGTGA
*
124152 TGATGGTGGTGGTGATGGCAG
1 TGATGGTGGTGATGATGGCAG
124173 TGATGGTGGTGAT-ACTGGCAG
1 TGATGGTGGTGATGA-TGGCAG
124194 TG
1 TG
124196 CCAGTGGCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.16, C:0.07, G:0.48, T:0.30
Consensus pattern (21 bp):
TGATGGTGGTGATGATGGCAG
Found at i:124318 original size:15 final size:15
Alignment explanation
Indices: 124276--124374 Score: 103
Period size: 15 Copynumber: 6.6 Consensus size: 15
124266 TTGGGGTGGT
124276 GGTGGTGGTGGAGGCA
1 GGTGGTGGTGGAGG-A
*
124292 GTTGGTGG-GGAGGA
1 GGTGGTGGTGGAGGA
*
124306 GGTGATGGTGGAGGCA
1 GGTGGTGGTGGAGG-A
*
124322 GTTGGTGG-GGAGGA
1 GGTGGTGGTGGAGGA
124336 GGTGGTGGTGGAGGA
1 GGTGGTGGTGGAGGA
** * *
124351 GGTTTTGATGGTGGA
1 GGTGGTGGTGGAGGA
124366 GGTGGTGGT
1 GGTGGTGGT
124375 TTCAGTGGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
14 15 0.22
15 38 0.57
16 14 0.21
ACGTcount: A:0.13, C:0.02, G:0.61, T:0.24
Consensus pattern (15 bp):
GGTGGTGGTGGAGGA
Found at i:124337 original size:33 final size:30
Alignment explanation
Indices: 124267--124349 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
124257 AGGAGGCGAT
* *
124267 TGGGGTGGTGGTGGTGGTGGAGGCAGTTGG
1 TGGGGAGGAGGTGGTGGTGGAGGCAGTTGG
*
124297 TGGGGAGGAGGTGATGGTGGAGGCAGTTGG
1 TGGGGAGGAGGTGGTGGTGGAGGCAGTTGG
124327 TGGGGAGGAGGTGGTGGTGGAGG
1 TGGGGAGGAGGTGGTGGTGGAGG
124350 AGGTTTTGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.12, C:0.02, G:0.64, T:0.22
Consensus pattern (30 bp):
TGGGGAGGAGGTGGTGGTGGAGGCAGTTGG
Found at i:124364 original size:21 final size:21
Alignment explanation
Indices: 124337--124391 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
124327 TGGGGAGGAG
*
124337 GTGGTGGTGGAGGAGGTTT-T
1 GTGGTGGTGGAGGAGGTTTCA
* * *
124357 GATGGTGGAGGTGGTGGTTTCA
1 G-TGGTGGTGGAGGAGGTTTCA
124379 GTGGTGGTGGAGG
1 GTGGTGGTGGAGG
124392 GGGTCATGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.11, C:0.02, G:0.56, T:0.31
Consensus pattern (21 bp):
GTGGTGGTGGAGGAGGTTTCA
Found at i:124412 original size:42 final size:42
Alignment explanation
Indices: 124337--124416 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
124327 TGGGGAGGAG
** **
124337 GTGGTGGTGGAGGAGGTTTTGATGGTGGAGGTGGTGGTTTCA
1 GTGGTGGTGGAGGAGGTCATGATCATGGAGGTGGTGGTTTCA
* *
124379 GTGGTGGTGGAGGGGGTCATGATCATGGTGGTGGTGGT
1 GTGGTGGTGGAGGAGGTCATGATCATGGAGGTGGTGGT
124417 GGGGGAGGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.11, C:0.04, G:0.54, T:0.31
Consensus pattern (42 bp):
GTGGTGGTGGAGGAGGTCATGATCATGGAGGTGGTGGTTTCA
Found at i:130900 original size:332 final size:329
Alignment explanation
Indices: 130126--134322 Score: 4301
Period size: 331 Copynumber: 12.7 Consensus size: 329
130116 ACGTAATTTT
* *
130126 TTCCAGGGCCCGACTCAGTTTTTCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
1 TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
** * *
130191 TCTAACCAAATCTCAATCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * *
130256 GATTTAATTAGAAATTAATT--------T-GGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
131 GATTTAATTAGAAATTAATTAGAAAAAATATGAAAAACAATATTAGAAGCGTGAAAAGCCCTTCA
* * * * * *
130312 ATCTTTTTGATGA-CGAATCATATATTTTTTATGAGTATTTTACCTAAAAATTGAGCAAATATGT
196 ATCCTTTTGA-CATTGAATCATATTTTTTTTATGAGTATTTT-CCTAGAAATTGAGGAAATATGT
* * *
130376 TTTGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACAGTTTAT-GGCTAA
259 TTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTT-TCGGCTAA
*
130440 AAACGCG
323 AACCGCG
* ** * *
130447 TTCCAGGGCCAC-AGCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTTTATT
1 TTCCAGGGCC-CGA-CTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATT
* * * * * *
130511 CATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCTTGTT
64 CATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
* ** * * **
130576 TCGATTCAATTAGAAATTAATTCAGAAAAGGTATGAAAAACGATATTAAAAGCGTGAAAAGTTCT
129 TCGATTTAATTAGAAATTAATT-AGAAAAAATATGAAAAACAATATTAGAAGCGTGAAAAGCCCT
* * ** *
130641 CCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCAAGGAAAAA
193 TCAATCCTTTTGACATTGAATCATA-TTTTTTTTATGAGTATTTTC-CTAGAAATTGAGGAAATA
* * *
130706 TATTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGGCT
256 TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTTCGGCT
130771 AAAACCGCG
321 AAAACCGCG
* *
130780 TTCCAGGGCCCGGCTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
1 TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
* *
130845 TGTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * *
130910 GATTTAATTAGAAATTAATTTGAAAAAAT-TGGAAAAACAATATTAGAAGCGTTAAAAACCCTTC
131 GATTTAATTAGAAATTAATTAGAAAAAATAT-GAAAAACAATATTAGAAGCGTGAAAAGCCCTTC
* ** * * *
130974 AATCTTTTTGATGTCGAATCAT-TTACTTTTTATGAGTATTTTACCTAAAAATTGAGGAAATATG
195 AATCCTTTTGACATTGAATCATATT-TTTTTTATGAGTATTTT-CCTAGAAATTGAGGAAATATG
* * *
131038 TTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTC-GTTA
258 TTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACG-GTTTTCGGCTA
*
131102 AAAACGCG
322 AAACCGCG
* * ** * *
131110 TTCCAGGACCAC-ACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTTTATT
1 TTCCAGGGCC-CGA-CTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATT
* * * * * *
131174 CATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCTTGTT
64 CATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
* * * * * * **
131239 TCGATTCAATTAGAAATTAATTCAGAAAAAATATGGAAAACGATATTAAAAGTGTGGAAAGTTCT
129 TCGATTTAATTAGAAATTAATT-AGAAAAAATATGAAAAACAATATTAGAAGCGTGAAAAGCCCT
* * * *
131304 TCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTACTTTCGCTAGAAATCGAGGAAAAA
193 TCAATCCTTTTGACATTGAATCATA-TTTTTTTTATGAGTATTTTC-CTAGAAATTGAGGAAATA
* **
131369 TATTTCGGGTCAATTTTTGCAAAATTTTAGGCGAAATCATGTACTAACCATCACGGTTTTCGGCT
256 TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTTCGGCT
131434 AAAACCGCG
321 AAAACCGCG
* * * *
131443 TTCCAGGGCCCGACTCAGTTTTACTTGATTTTTGGTGCCAAGAATCCTTGAAATATCTATATTTA
1 TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
*
131508 TCTAACCAAATCTCAGCCACTTTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * * * *
131573 GATTTTATTAGAAATTAATTTGAAAAAAT-TGGAAAAACAATATTAGAAGTGTTAAAAACCCTTC
131 GATTTAATTAGAAATTAATTAGAAAAAATAT-GAAAAACAATATTAGAAGCGTGAAAAGCCCTTC
* ** * * * *
131637 AATCTTTTTGATGTCGAATCAT-TTACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATG
195 AATCCTTTTGACATTGAATCATATT-TTTTTTATGAGTATTTT-CCTAGAAATTGAGGAAATATG
* * * *
131701 TTTCGGTTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTC-GTTA
258 TTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACG-GTTTTCGGCTA
*
131765 AAAACGCG
322 AAACCGCG
* * ** * *
131773 TTCCAGGGCCAC-ACCTCTGTTTTGCAGGATTTTTGGCACCGAGACTCCTTGAAATATCTTTATT
1 TTCCAGGGCC-CGA-CTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATT
* * * * * * *
131837 CATCTAATCAAATCTCAGGCACATTGGATTTAGGGATTTGTTTTTATGTGAATCTGAATCTTGTT
64 CATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
* * * * * * * **
131902 TCGATTCAAATAGAAATTAATTCAG-AAAAATATGGAAAACGATATTAAAAGTGTGGAAAGTTCT
129 TCGATTTAATTAGAAATTAATT-AGAAAAAATATGAAAAACAATATTAGAAGCGTGAAAAGCCCT
* * * * * *
131966 CCAGTCCTTTTGACATTGAATTATAGCTTTTTTTATGAGTATTTTCGCTAGAAATCGAGGAAAAA
193 TCAATCCTTTTGACATTGAATCATA-TTTTTTTTATGAGTATTTTC-CTAGAAATTGAGGAAATA
* *
132031 TATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTCGGCT
256 TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTTCGGCT
*
132096 AAAACCGCA
321 AAAACCGCG
* * * * *
132105 TTCCAGGGCCCGGCTCAGTTTTACTTGATTTTTGGTGCCAAGAATCCTTGAAATATCTATATTTA
1 TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
132170 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * * * *
132235 GATTTTATTAGAAATTAATTTGAAAAAAT-TGGAAAAACAATATTAGAAGTGTTAAAAACCCTTC
131 GATTTAATTAGAAATTAATTAGAAAAAATAT-GAAAAACAATATTAGAAGCGTGAAAAGCCCTTC
* ** * * *
132299 AATCATTTTGATGTTGAATCAT-TTACTTTTTATGAGTATTTTACCGAAAAATTGAGGAAATATG
195 AATCCTTTTGACATTGAATCATATT-TTTTTTATGAGTATTTT-CCTAGAAATTGAGGAAATATG
* *
132363 TTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTC-GCTA
258 TTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACG-GTTTTCGGCTA
*
132427 AAAACGCG
322 AAACCGCG
* * ** * *
132435 TTCCAGGACCAC-ACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTTTATT
1 TTCCAGGGCC-CGA-CTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATT
* * * * * *
132499 CATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCTTGTT
64 CATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
* * * * * * ***
132564 TCGATTCAATTAGAAATTAATTTAGAAAAAATATGGAAAACGATATTAAAAGTGTGGAAAGTTAT
129 TCGATTTAATTAGAAATTAA-TTAGAAAAAATATGAAAAACAATATTAGAAGCGTGAAAAGCCCT
* * * *
132629 TCAATCCTTTTGACATTGAATTATAGTTTTTTTCTA-GAGTACTTTCGCTAGAAATCGAGGAAAA
193 TCAATCCTTTTGACATTGAATCATA-TTTTTTT-TATGAGTATTTTC-CTAGAAATTGAGGAAAT
* * *
132693 ATATTTCGAGTCAATTTTTGCAAAATTTTATCCGAAATCATGTACTAACCATCACGGTTTTCGGC
255 ATGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTTCGGC
*
132758 TAAAACAGCG
320 TAAAACCGCG
* * *
132768 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCAAAGACTCCTTGAAATATCTATATTTA
1 TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
* *
132833 TCTAACCAAATCTCAGCCGCATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * * * *
132898 GATTTAATTAGGAATTAATTTG----AATTTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTC
131 GATTTAATTAGAAATTAATTAGAAAAAATAT-GAAAAACAATATTAGAAGCGTGAAAAGCCCTTC
* * * * * *
132959 AATCTTTTTGATGA-CGAATCATATATTTTTTATGAGTATTTTTAC-AGAAAAATTGAGCAAATA
195 AATCCTTTTGA-CATTGAATCATATTTTTTTTATGAGTA-TTTTCCTAG--AAATTGAGGAAATA
* * *
133022 TGTTTCGGGTCAATTTTTGCAAAATTTTAACTGAAATCGTGTACTAACCATCACGATTTTTC-GC
256 TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACG-GTTTTCGGC
*
133086 TAAAATCGCG
320 TAAAACCGCG
* * ** * *
133096 TTCCAGGACCAC-ACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTTTATT
1 TTCCAGGGCC-CGA-CTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATT
* * * * *
133160 CATCT-ATCAAATCTCAAG-GACATT-GCATTTAAGGATTTGTTTTTATGTGAATCTGAATCTTG
64 CATCTAACCAAATCTC-AGCCACATTAG-ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * *
133222 TTTCGATTCAATTAGAAATTAATTCAGAAAAAAATATGAAAAACGATATTTA-AACCGTGAAAAG
127 TTTCGATTTAATTAGAAATTAATT-AG-AAAAAATATGAAAAACAATA-TTAGAAGCGTGAAAAG
** * ** * *
133286 TTCTCCAATCCTTTTGACA-TGAAAAAATAGTTTTTTTTATGATTATTTTCGCTAGAAATAGAGG
189 CCCTTCAATCCTTTTGACATTG-AATCATA-TTTTTTTTATGAGTATTTTC-CTAGAAATTGAGG
* * * *
133350 AAAAATATTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTT
251 AAATATGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTT
133415 CGGCTAAAACCGCG
316 CGGCTAAAACCGCG
* * * *
133429 TTCCAGGGTCCGACTCAGTTTTGCTTGATTTTTTGTGCCAAGACTCTTTGAAATATCTATATTCA
1 TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
* ** * *
133494 TGTAACCAAATCTCAATCACATTAAATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* *
133559 GATTTAATTAGAAATTAATTTGAAAAAAT-TGGAAAAACAATATTAGAAGCGTTAGAAA-CCCTT
131 GATTTAATTAGAAATTAATTAGAAAAAATAT-GAAAAACAATATTAGAAGCGTGA-AAAGCCCTT
** ** * * * * *
133622 CAATATTTTTGATGTCGAATCATATATATTTTATGAGTATTTTACCCAAAAATTGAGGAAATATG
194 CAATCCTTTTGACATTGAATCATATTTTTTTTATGAGTATTTT-CCTAGAAATTGAGGAAATATG
* * * * * *
133687 TTTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCATGTATTAACCATCACAGTTTTTGGTTAA
258 TTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTTCGGCTAA
**
133752 AATTGCG
323 AACCGCG
** * ** ** *
133759 TTAGTTAAGGGGCCCTTG-CTCAGTTTTGCATGATTTTTGGCAGATATTA-TCATTGAAATATCT
1 -T--TCCA-GGGCCC--GACTCAGTTTTGCATGATTTTTGG-TGCCAAGACTCCTTGAAATATCT
* * * * *
133822 ATATTCATCTAACCAAATCTTAGTCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTTAATG
59 ATATTCATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
* * * * * * * *
133887 ATGTTTGGA-TTAATCAGAAATTAATTCGGGAAAAAGA-GAAAAAGCGATATTAGAAGCGTGGAA
124 TTGTTTCGATTTAATTAGAAATTAATT-AGAAAAAATATGAAAAA-CAATATTAGAAGCGTGAAA
* * * * * *
133950 AGCCTCTT-AAT-CTTTATTAGATAGAATTATATATTTTTTATGAGTATCGTGGTCC-A-AAATT
187 AGCC-CTTCAATCCTTT-TGACATTGAATCATATTTTTTTTATGAGTAT--T-TTCCTAGAAATT
* * *
134011 GAGGAAA-ATTCTTTCGGCTTAATTTTTGCAAAATTTTAACCGAAATC-T-TA-T----ATCACG
247 GAGGAAATA-TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACG
* * * * *
134068 ATTTTTTGTCTAAAAACGTG
311 -GTTTTCGGCTAAAACCGCG
* * * * * * * *
134088 TTTTCTA-GCCCCGGCTCAGTTTTGCATGATTTTTTG-GCATCGATACTACTTGAAATATGTATA
1 --TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGC--CAAGACTCCTTGAAATATCTATA
* * * * * * * *
134151 TTCATCCAAGCAAATCTCAGCTA-ACTTGGATTTAAAGATTT-TTTTTACAAACATTTGAAT-TA
62 TTCATCTAACCAAATCTCAGCCACA-TTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT-
* * * * * * * *
134213 TGTTTTGATTTAATTAGAAATTAATTTGGAAAAATAAGGAAAAACGATTTTGGAAGCGTGTAAAG
125 TGTTTCGATTTAATTAGAAATTAATTAGAAAAAAT-ATGAAAAACAATATTAGAAGCGTGAAAAG
* * * *
134278 GCCTTCAAT--TTTTTACCATTGAATTATATATTTTTTATGAGTATT
189 CCCTTCAATCCTTTTGA-CATTGAATCATATTTTTTTTATGAGTATT
134323 ATGGCCGAAA
Statistics
Matches: 3211, Mismatches: 545, Indels: 238
0.80 0.14 0.06
Matches are distributed among these distances:
321 11 0.00
322 121 0.04
323 2 0.00
324 4 0.00
325 85 0.03
326 94 0.03
327 22 0.01
328 199 0.06
329 75 0.02
330 406 0.13
331 740 0.23
332 682 0.21
333 502 0.16
334 62 0.02
335 194 0.06
336 8 0.00
337 3 0.00
338 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (329 bp):
TTCCAGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
GATTTAATTAGAAATTAATTAGAAAAAATATGAAAAACAATATTAGAAGCGTGAAAAGCCCTTCA
ATCCTTTTGACATTGAATCATATTTTTTTTATGAGTATTTTCCTAGAAATTGAGGAAATATGTTT
CGGGTCAATTTTTGCAAAATTTTAACCGAAATCATGTACTAACCATCACGGTTTTCGGCTAAAAC
CGCG
Found at i:132284 original size:662 final size:663
Alignment explanation
Indices: 130126--134322 Score: 6189
Period size: 663 Copynumber: 6.4 Consensus size: 663
130116 ACGTAATTTT
*
130126 TTCCAGGGCCCGACTCAGTTTTTCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
1 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
** *
130191 TCTAACCAAATCTCAATCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
130256 GATTTAATTAGAAATTAA--T-------TTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
131 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
* * * *
130312 ATCTTTTTGATGACGAATCATATATTTTTTATGAGTATTTTACCTAAAAATTGAGCAAATATGTT
196 ATCTTTTTGATGTCGAATCATATACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGTT
* * *
130377 TTGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCAC-AGTTTATGGCTAAA
261 TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGA-TTTTTCGCTAAA
* *
130441 AACGCGTTCCAGGGCCACAGCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCT
325 AACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCT
130506 TTATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATC
390 TTATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATC
** *
130571 TTGTTTCGATTCAATTAGAAATTAATTCAGAAAAGGTATGAAAAACGATATTAAAAGCGTGAAAA
455 TTGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGGAAA
*
130636 GTTCTCCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCAAGG
520 GTTCTCCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCGAGG
*
130701 AAAAATATTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTT
585 AAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTT
130766 CGGCTAAAACCGCG
650 CGGCTAAAACCGCG
*
130780 TTCCAGGGCCCGGCTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
1 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
*
130845 TGTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
130910 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
131 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
* *
130975 ATCTTTTTGATGTCGAATCATTTACTTTTTATGAGTATTTTACCTAAAAATTGAGGAAATATGTT
196 ATCTTTTTGATGTCGAATCATATACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGTT
*
131040 TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGTTAAAA
261 TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGCTAAAA
131105 ACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTT
326 ACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTT
131170 TATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCT
391 TATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCT
* *
131235 TGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGGAAAACGATATTAAAAGTGTGGAAAG
456 TGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGGAAAG
* *
131300 TTCTTCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTACTTTCGCTAGAAATCGAGGA
521 TTCTCCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCGAGGA
*
131365 AAAATATTTCGGGTCAATTTTTGCAAAATTTTAGGCGAAATCATGTACTAACCATCACGGTTTTC
586 AAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTC
131430 GGCTAAAACCGCG
651 GGCTAAAACCGCG
* * *
131443 TTCCAGGGCCCGACTCAGTTTTACTTGATTTTTGGTGCCAAGAATCCTTGAAATATCTATATTTA
1 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
* *
131508 TCTAACCAAATCTCAGCCACTTTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* *
131573 GATTTTATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGTGTTAAAAACCCTTCA
131 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
*
131638 ATCTTTTTGATGTCGAATCATTTACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGTT
196 ATCTTTTTGATGTCGAATCATATACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGTT
* *
131703 TCGGTTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGTTAAAA
261 TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGCTAAAA
* *
131768 ACGCGTTCCAGGGCCACACCTCTGTTTTGCAGGATTTTTGGCACCGAGACTCCTTGAAATATCTT
326 ACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTT
*
131833 TATTCATCTAATCAAATCTCAGGCACATTGGATTTAGGGATTTGTTTTTATGTGAATCTGAATCT
391 TATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCT
* * *
131898 TGTTTCGATTCAAATAGAAATTAATTCAG-AAAAATATGGAAAACGATATTAAAAGTGTGGAAAG
456 TGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGGAAAG
* *
131962 TTCTCCAGTCCTTTTGACATTGAATTATAGCTTTTTTTATGAGTATTTTCGCTAGAAATCGAGGA
521 TTCTCCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCGAGGA
132027 AAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTC
586 AAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTC
*
132092 GGCTAAAACCGCA
651 GGCTAAAACCGCG
* * * *
132105 TTCCAGGGCCCGGCTCAGTTTTACTTGATTTTTGGTGCCAAGAATCCTTGAAATATCTATATTTA
1 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
*
132170 TCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* *
132235 GATTTTATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGTGTTAAAAACCCTTCA
131 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
* * * *
132300 ATCATTTTGATGTTGAATCATTTACTTTTTATGAGTATTTTACCGAAAAATTGAGGAAATATGTT
196 ATCTTTTTGATGTCGAATCATATACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGTT
132365 TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGCTAAAA
261 TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGCTAAAA
132430 ACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTT
326 ACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTT
132495 TATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCT
391 TATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCT
* * *
132560 TGTTTCGATTCAATTAGAAATTAATTTAGAAAAAATATGGAAAACGATATTAAAAGTGTGGAAAG
456 TGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGGAAAG
* * *
132625 TTATTCAATCCTTTTGACATTGAATTATAGTTTTTTTCTA-GAGTACTTTCGCTAGAAATCGAGG
521 TTCTCCAATCCTTTTGACATTGAATTATAGTTTTTTT-TATGAGTATTTTCGCTAGAAATCGAGG
* *
132689 AAAAATATTTCGAGTCAATTTTTGCAAAATTTTATCCGAAATCATGTACTAACCATCACGGTTTT
585 AAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTT
*
132754 CGGCTAAAACAGCG
650 CGGCTAAAACCGCG
* *
132768 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCAAAGACTCCTTGAAATATCTATATTTA
1 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
*
132833 TCTAACCAAATCTCAGCCGCATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* *
132898 GATTTAATTAGGAATTAATTTG---AATTTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
131 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
* * ** *
132960 ATCTTTTTGATGACGAATCATATATTTTTTATGAGTATTTTTACAGAAAAATTGAGCAAATATGT
196 ATCTTTTTGATGTCGAATCATATACTTTTTATGAGTA-TTTTACCCAAAAATTGAGGAAATATGT
*
133025 TTCGGGTCAATTTTTGCAAAATTTTAACTGAAATCGTGTACTAACCATCACGATTTTTCGCTAAA
260 TTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGCTAAA
*
133090 ATCGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCT
325 AACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCT
*
133155 TTATTCATCT-ATCAAATCTCAAGG-ACATTGCATTTAAGGATTTGTTTTTATGTGAATCTGAAT
390 TTATTCATCTAATCAAATCTC-AGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAAT
* * *
133218 CTTGTTTCGATTCAATTAGAAATTAATTCAGAAAAAAATATGAAAAACGATATTTAAACCGTGAA
454 CTTGTTTCGATTCAATTAGAAATTAATTCAG-AAAAAATATGAAAAACGATATTAAAAGCGTGGA
** * *
133283 AAGTTCTCCAATCCTTTTGACA-TGAAAAAATAGTTTTTTTTATGATTATTTTCGCTAGAAATAG
518 AAGTTCTCCAATCCTTTTGACATTG-AATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCG
*
133347 AGGAAAAATATTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGT
582 AGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGT
133412 TTTCGGCTAAAACCGCG
647 TTTCGGCTAAAACCGCG
* * *
133429 TTCCAGGGTCCGACTCAGTTTTGCTTGATTTTTTGTGCCAAGACTCTTTGAAATATCTATATTCA
1 TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
* ** *
133494 TGTAACCAAATCTCAATCACATTAAATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTC
66 TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
*
133559 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAGAAACCCTTCA
131 GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
*
133624 ATATTTTTGATGTCGAATCATATA-TATTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGT
196 ATCTTTTTGATGTCGAATCATATACT-TTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGT
* * * * * *
133688 TTCGGGTCAATTTTTGCAAAATTTTAGCTGAAATCATGTATTAACCATCAC-AGTTTTTGGTTAA
260 TTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGA-TTTTTCGCTAA
** ** * ** * * * *
133752 AATTGCGTTAGTTAAGGGGCC-CTTGCTCAGTTTTGCATGATTTTTGGCA--GATATTATCATTG
324 AAACGCG-T--TCCA-GGACCAC-ACCTCTGTTTTGCATGATTTTTGGCACCGAGA--CTCCTTG
* * * * * * *
133814 AAATATCTATATTCATCTAACCAAATCTTAGTCACATTGGATTTAAGGATTTGTTTTTACGAGCA
382 AAATATCTTTATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAA
* ** * * * * * *
133879 TCTTAATGATGTTTGGATT-AATCAGAAATTAATTCGGGAAAAAGA-GAAAAAGCGATATTAGAA
447 TCTGAATCTTGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGAAAAA-CGATATTAAAA
* * * * * * ** *
133942 GCGTGGAAAG-CCTCTTAAT-CTTTATTAGATAGAATTATA-TATTTTTTATGAGTATCGTGGTC
511 GCGTGGAAAGTTCTC-CAATCCTTT-TGACATTGAATTATAGTTTTTTTTATGAGTATTTTCG-C
* * * * * * *
134004 CA-AAATTGAGGAAAATTCTTTCGGCTTAATTTTTGCAAAATTTTAACCGAAATC-T-TA-T---
573 TAGAAATCGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAAC
* * * * *
134062 -ATCACGATTTTTTGTCTAAAAACGTG
638 CATCACG-GTTTTCGGCTAAAACCGCG
* * * * * * * * *
134088 TTTTCTA-GCCCCGGCTCAGTTTTGCATGATTTTTTG-GCATCGATACTACTTGAAATATGTATA
1 --TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGC--CAAGACTCCTTGAAATATCTATA
* * * ** * * * *
134151 TTCATCCAAGCAAATCTCAGCTA-ACTTGGATTTAAAGATTT-TTTTTACAAACATTTGAAT-TA
62 TTCATCTAACCAAATCTCAGCCACA-TTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCT-
* * * * * *
134213 TGTTTTGATTTAATTAGAAATTAATTTGGAAAAATAAGGAAAAACGATTTTGGAAGCGTGT-AAA
125 TGTTTCGATTTAATTAGAAATTAATTTGAAAAAAT-TGGAAAAACAATATTAGAAGCGT-TAAAA
** * * *
134277 GGCCTTCAAT-TTTTTACCAT-T-GAATTATATATTTTTTATGAGTATT
188 ACCCTTCAATCTTTTT--GATGTCGAATCATATACTTTTTATGAGTATT
134323 ATGGCCGAAA
Statistics
Matches: 3280, Mismatches: 215, Indels: 90
0.91 0.06 0.03
Matches are distributed among these distances:
654 142 0.04
656 1 0.00
658 6 0.00
659 17 0.01
660 254 0.08
661 546 0.17
662 649 0.20
663 1352 0.41
664 76 0.02
665 79 0.02
666 39 0.01
667 68 0.02
668 51 0.02
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (663 bp):
TTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTATATTCA
TCTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
GATTTAATTAGAAATTAATTTGAAAAAATTGGAAAAACAATATTAGAAGCGTTAAAAACCCTTCA
ATCTTTTTGATGTCGAATCATATACTTTTTATGAGTATTTTACCCAAAAATTGAGGAAATATGTT
TCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGATTTTTCGCTAAAA
ACGCGTTCCAGGACCACACCTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCTT
TATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTATGTGAATCTGAATCT
TGTTTCGATTCAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGGAAAG
TTCTCCAATCCTTTTGACATTGAATTATAGTTTTTTTTATGAGTATTTTCGCTAGAAATCGAGGA
AAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTC
GGCTAAAACCGCG
Found at i:136488 original size:30 final size:30
Alignment explanation
Indices: 136453--136618 Score: 133
Period size: 30 Copynumber: 5.3 Consensus size: 30
136443 CATGTGAACA
136453 AGACCTAAAGCTATATGCCATGTTAACGAT
1 AGACCTAAAGCTATATGCCATGTTAACGAT
*
136483 AGACCTAAAGCTATATGCCACGTTAACGAT
1 AGACCTAAAGCTATATGCCATGTTAACGAT
*
136513 AAACCTAAAGCTAAAGCTATATGCCATGTTAACGAT
1 AGA-C-----CTAAAGCTATATGCCATGTTAACGAT
* * *
136549 AGATCTAAAATGAACTCTATG-C-T-ATAACGAT
1 AGACCT-AAA-G--CTATATGCCATGTTAACGAT
* * *
136580 AGA-CTCAAAGCTATATGACATGTAAACGAA
1 AGACCT-AAAGCTATATGCCATGTTAACGAT
136610 AGACCTAAA
1 AGACCTAAA
136619 ATGAATTGTA
Statistics
Matches: 110, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
27 6 0.05
28 1 0.01
29 2 0.02
30 49 0.45
31 16 0.15
32 2 0.02
33 1 0.01
34 6 0.05
36 27 0.25
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (30 bp):
AGACCTAAAGCTATATGCCATGTTAACGAT
Found at i:136557 original size:36 final size:34
Alignment explanation
Indices: 136457--136557 Score: 129
Period size: 36 Copynumber: 3.0 Consensus size: 34
136447 TGAACAAGAC
136457 CTAAAGCTATATGCCATGTTAACGATAGAC----
1 CTAAAGCTATATGCCATGTTAACGATAGACTAAA
* *
136487 CTAAAGCTATATGCCACGTTAACGATAAACCTAAA
1 CTAAAGCTATATGCCATGTTAACGATAGA-CTAAA
136522 GCTAAAGCTATATGCCATGTTAACGATAGATCTAAA
1 -CTAAAGCTATATGCCATGTTAACGATAGA-CTAAA
136558 ATGAACTCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
30 27 0.45
31 1 0.02
36 32 0.53
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (34 bp):
CTAAAGCTATATGCCATGTTAACGATAGACTAAA
Found at i:136620 original size:61 final size:61
Alignment explanation
Indices: 136525--136641 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
136515 ACCTAAAGCT
* * * *
136525 AAAGCTATATGCCATGTTAACGATAGATCTAAAATGAACTCTATGCTATAACGATAGACTC
1 AAAGCTATATGACATGTAAACGAAAGACCTAAAATGAACTCTATGCTATAACGATAGACTC
* * *
136586 AAAGCTATATGACATGTAAACGAAAGACCTAAAATGAATTGTATGCTATAATGATA
1 AAAGCTATATGACATGTAAACGAAAGACCTAAAATGAACTCTATGCTATAACGATA
136642 AACCCATGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (61 bp):
AAAGCTATATGACATGTAAACGAAAGACCTAAAATGAACTCTATGCTATAACGATAGACTC
Done.