Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016323.1 Corchorus olitorius cultivar O-4 contig16356, 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: 174878
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2645 original size:48 final size:47
Alignment explanation
Indices: 2580--2928 Score: 231
Period size: 48 Copynumber: 7.9 Consensus size: 47
2570 TAGTGTCACA
*
2580 AACACCTTCGGCATTTTGGCCATTTTTTGCCCCCGACGCTCATGGAGT
1 AACACCTTTGGCATTTTGGCCA-TTTTTGCCCCCGACGCTCATGGAGT
*
2628 AACACCTTTGGC------G---TTTTGGCCCCCGACGCTCATGGAGT
1 AACACCTTTGGCATTTTGGCCATTTTTGCCCCCGACGCTCATGGAGT
* *
2666 AACACCTTTGGCGTTTTGGCCATTTTTGGCCCCCGACGCTCATGGTGGT
1 AACACCTTTGGCATTTTGGCCATTTTT-GCCCCCGACGCTCATGG-AGT
* * * * *
2715 TA-ACCTTTGTCATTTTAGCCATTTTTTGGCCCCGACGCTAAT-GATGT
1 AACACCTTTGGCATTTTGGCCA-TTTTTGCCCCCGACGCTCATGGA-GT
* *
2762 AACACC--T---A---TGG-CATTTTGGCCCCCGACGCTCAT-GATTT
1 AACACCTTTGGCATTTTGGCCATTTTTGCCCCCGACGCTCATGGA-GT
*
2800 AACACCTTCGGCATTTTGGCCATTTTTTGCCCCCGACGCTCAT-GAGT
1 AACACCTTTGGCATTTTGGCCA-TTTTTGCCCCCGACGCTCATGGAGT
* * * * *
2847 TA-ACCTATGGCATTTT-G--A------CCCTCGATGCTCATGGTGT
1 AACACCTTTGGCATTTTGGCCATTTTTGCCCCCGACGCTCATGGAGT
* *
2884 AACACCTTTGGCGTTTTGGCCATTTTTGACCCCCGACACTCATGG
1 AACACCTTTGGCATTTTGGCCATTTTTG-CCCCCGACGCTCATGG
2929 TGGTTAACCT
Statistics
Matches: 233, Mismatches: 32, Indels: 72
0.69 0.09 0.21
Matches are distributed among these distances:
36 12 0.05
37 4 0.02
38 75 0.32
39 3 0.01
40 2 0.01
41 1 0.00
42 1 0.00
43 3 0.01
44 1 0.00
45 1 0.00
46 16 0.07
47 12 0.05
48 94 0.40
49 8 0.03
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.32
Consensus pattern (47 bp):
AACACCTTTGGCATTTTGGCCATTTTTGCCCCCGACGCTCATGGAGT
Found at i:2651 original size:38 final size:38
Alignment explanation
Indices: 2603--2686 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
2593 TTTTGGCCAT
*
2603 TTTTTGCCCCCGACGCTCATGGAGTAACACCTTTGGCG
1 TTTTGGCCCCCGACGCTCATGGAGTAACACCTTTGGCG
2641 TTTTGGCCCCCGACGCTCATGGAGTAACACCTTTGGCG
1 TTTTGGCCCCCGACGCTCATGGAGTAACACCTTTGGCG
2679 TTTTGGCC
1 TTTTGGCC
2687 ATTTTTGGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.14, C:0.31, G:0.25, T:0.30
Consensus pattern (38 bp):
TTTTGGCCCCCGACGCTCATGGAGTAACACCTTTGGCG
Found at i:2779 original size:86 final size:84
Alignment explanation
Indices: 2689--2920 Score: 290
Period size: 86 Copynumber: 2.7 Consensus size: 84
2679 TTTTGGCCAT
* * *
2689 TTTTGGCCCCCGACGCTCATGGTGGTTA-ACCTTTGTCATTTTAGCCATTTTTTGGCCCCGACGC
1 TTTTGGCCCCCGACGCTCATGGT-GTTACACCTTTGGCATTTTGGCCATTTTTTGCCCCCGACGC
2753 TAATGATGTAACACCTATGGCA
65 TAATGA-GTAA-ACCTATGGCA
* *
2775 TTTTGGCCCCCGACGCTCATGAT-TTAACACCTTCGGCATTTTGGCCATTTTTTGCCCCCGACGC
1 TTTTGGCCCCCGACGCTCATGGTGTT-ACACCTTTGGCATTTTGGCCATTTTTTGCCCCCGACGC
* *
2839 TCATGAGTTAACCTATGGCA
65 TAATGAGTAAACCTATGGCA
* * * * *
2859 TTTTGACCCTCGATGCTCATGGTGTAACACCTTTGGCGTTTTGGCCA-TTTTTGACCCCCGAC
1 TTTTGGCCCCCGACGCTCATGGTGTTACACCTTTGGCATTTTGGCCATTTTTTG-CCCCCGAC
2921 ACTCATGGTG
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
83 6 0.05
84 58 0.45
85 5 0.04
86 59 0.46
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (84 bp):
TTTTGGCCCCCGACGCTCATGGTGTTACACCTTTGGCATTTTGGCCATTTTTTGCCCCCGACGCT
AATGAGTAAACCTATGGCA
Found at i:2791 original size:38 final size:38
Alignment explanation
Indices: 2738--2820 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
2728 TTTAGCCATT
2738 TTTTGG-CCCCGACGCTAATGATGTAACACCTAT-GGCA
1 TTTTGGCCCCCGACGCTAATGATGTAACACCT-TCGGCA
* *
2775 TTTTGGCCCCCGACGCTCATGATTTAACACCTTCGGCA
1 TTTTGGCCCCCGACGCTAATGATGTAACACCTTCGGCA
2813 TTTTGGCC
1 TTTTGGCC
2821 ATTTTTTGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
37 7 0.17
38 35 0.83
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.30
Consensus pattern (38 bp):
TTTTGGCCCCCGACGCTAATGATGTAACACCTTCGGCA
Found at i:2823 original size:134 final size:134
Alignment explanation
Indices: 2591--2843 Score: 393
Period size: 134 Copynumber: 1.9 Consensus size: 134
2581 ACACCTTCGG
* * * *
2591 CATTTTGGCCATTTTTTGCCCCCGACGCTCATGGAGTAACACCTTTGGCGTTTTGGCCCCCGACG
1 CATTTTAGCCATTTTTTGCCCCCGACGCTAATGGAGTAACACCTATGGCATTTTGGCCCCCGACG
* *
2656 CTCATGGAGTAACACCTTTGGCGTTTTGGCCATTTTTGGCCCCCGACGCTCATGGTGGTTAACCT
66 CTCATGGAGTAACACCTTCGGCATTTTGGCCATTTTTGGCCCCCGACGCTCATGGTGGTTAACCT
2721 TTGT
131 TTGT
*
2725 CATTTTAGCCATTTTTTGGCCCCGACGCTAAT-GATGTAACACCTATGGCATTTTGGCCCCCGAC
1 CATTTTAGCCATTTTTTGCCCCCGACGCTAATGGA-GTAACACCTATGGCATTTTGGCCCCCGAC
* *
2789 GCTCAT-GATTTAACACCTTCGGCATTTTGGCCATTTTTTGCCCCCGACGCTCATG
65 GCTCATGGA-GTAACACCTTCGGCATTTTGGCCATTTTTGGCCCCCGACGCTCATG
2844 AGTTAACCTA
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
133 4 0.04
134 104 0.96
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (134 bp):
CATTTTAGCCATTTTTTGCCCCCGACGCTAATGGAGTAACACCTATGGCATTTTGGCCCCCGACG
CTCATGGAGTAACACCTTCGGCATTTTGGCCATTTTTGGCCCCCGACGCTCATGGTGGTTAACCT
TTGT
Found at i:2901 original size:84 final size:86
Alignment explanation
Indices: 2689--2927 Score: 306
Period size: 84 Copynumber: 2.8 Consensus size: 86
2679 TTTTGGCCAT
* * * *
2689 TTTTGGCCCCCGACGCTCATGGTGGTTA-ACCTTTGTCATTTTAGCCATTTTTTGGCCCCGACGC
1 TTTTGGCCCCCGACGCTCATGGT-GTAACACCTTTGGCATTTTGGCCATTTTTTGCCCCCGACGC
*
2753 TAATGATGTAACACCTATGGCA
65 TCATGATGTAACACCTATGGCA
* * *
2775 TTTTGGCCCCCGACGCTCATGATTTAACACCTTCGGCATTTTGGCCATTTTTTGCCCCCGACGCT
1 TTTTGGCCCCCGACGCTCATGGTGTAACACCTTTGGCATTTTGGCCATTTTTTGCCCCCGACGCT
*
2840 CATGA-GTTA-ACCTATGGCA
66 CATGATGTAACACCTATGGCA
* * * * *
2859 TTTTGACCCTCGATGCTCATGGTGTAACACCTTTGGCGTTTTGGCCA-TTTTTGACCCCCGACAC
1 TTTTGGCCCCCGACGCTCATGGTGTAACACCTTTGGCATTTTGGCCATTTTTTG-CCCCCGACGC
2923 TCATG
65 TCATG
2928 GTGGTTAACC
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
83 6 0.04
84 64 0.48
85 5 0.04
86 59 0.44
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (86 bp):
TTTTGGCCCCCGACGCTCATGGTGTAACACCTTTGGCATTTTGGCCATTTTTTGCCCCCGACGCT
CATGATGTAACACCTATGGCA
Found at i:3496 original size:30 final size:30
Alignment explanation
Indices: 3462--3657 Score: 347
Period size: 30 Copynumber: 6.5 Consensus size: 30
3452 AATCTCCAAA
* *
3462 TGACACCATAAGTTGTCATGATCTTGCAAT
1 TGACACCAGAAGTTGTCATGCTCTTGCAAT
*
3492 TGACACCAGAAGTTGTCATGATCTTGCAAT
1 TGACACCAGAAGTTGTCATGCTCTTGCAAT
3522 TGACACCAGAAGTTGTCATGCTCTTGCAAT
1 TGACACCAGAAGTTGTCATGCTCTTGCAAT
3552 TGACACCAGAAGTTGTCATGCTCTTGCAAT
1 TGACACCAGAAGTTGTCATGCTCTTGCAAT
*
3582 TGACACAAGAAGTTGTCATGCTCTTGCAAT
1 TGACACCAGAAGTTGTCATGCTCTTGCAAT
*
3612 TGACACCAAAAGTTGTCATGCTCTTGCAAT
1 TGACACCAGAAGTTGTCATGCTCTTGCAAT
3642 TGACACCAGAAGTTGT
1 TGACACCAGAAGTTGT
3658 GATCAAGCTA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 160 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (30 bp):
TGACACCAGAAGTTGTCATGCTCTTGCAAT
Found at i:4068 original size:11 final size:11
Alignment explanation
Indices: 4052--4077 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4042 GTTTTAGATC
4052 TTTTCTTCTAG
1 TTTTCTTCTAG
4063 TTTTCTTCTAG
1 TTTTCTTCTAG
4074 TTTT
1 TTTT
4078 TTAGGCAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTCTTCTAG
Found at i:5070 original size:30 final size:30
Alignment explanation
Indices: 5034--5317 Score: 323
Period size: 30 Copynumber: 9.6 Consensus size: 30
5024 ACGACCGATC
* *
5034 AAGTTGTCATGCTCTTGCAATTGACACCAG
1 AAGTTGTCATGATCTTACAATTGACACCAG
* *
5064 AAGTTGTCATGCTCTTGCAATTGACACCAG
1 AAGTTGTCATGATCTTACAATTGACACCAG
* *
5094 AAGTTGTCATGCTCTTGCAATTGACACCAG
1 AAGTTGTCATGATCTTACAATTGACACCAG
*
5124 AAGTTGTCATGATCTTACAATTGACACCAA
1 AAGTTGTCATGATCTTACAATTGACACCAG
5154 AAGTTGTCATGATCTTACAATTGACACCAG
1 AAGTTGTCATGATCTTACAATTGACACCAG
*
5184 AAGTTGTCAATGGTCTTACAATTG--ACCAG
1 AAGTTGTC-ATGATCTTACAATTGACACCAG
* * * **
5213 AAGTTGTCATGATAAATTTCCAATAGACACTTG
1 AAGTTGTCATGAT---CTTACAATTGACACCAG
* *
5246 AAGATGTCAT-A-ATT-CAATTGACACCAG
1 AAGTTGTCATGATCTTACAATTGACACCAG
*
5273 AAGTTGTCAT-A-ATT-CAATTGACACCAG
1 AAGTTGTCATGATCTTACAATTGACACCAG
*
5300 AAGTTGTCATGATTTTAC
1 AAGTTGTCATGATCTTAC
5318 CTTTCAAATT
Statistics
Matches: 227, Mismatches: 18, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
27 46 0.20
28 7 0.03
29 15 0.07
30 125 0.55
31 21 0.09
32 1 0.00
33 12 0.05
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (30 bp):
AAGTTGTCATGATCTTACAATTGACACCAG
Found at i:5268 original size:27 final size:27
Alignment explanation
Indices: 5245--5309 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
5235 ATAGACACTT
5245 GAAGATGTCATAATTCAATTGACACCA
1 GAAGATGTCATAATTCAATTGACACCA
*
5272 GAAGTTGTCATAATTCAATTGACACCA
1 GAAGATGTCATAATTCAATTGACACCA
*
5299 GAAGTTGTCAT
1 GAAGATGTCAT
5310 GATTTTACCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
GAAGATGTCATAATTCAATTGACACCA
Found at i:7595 original size:12 final size:12
Alignment explanation
Indices: 7578--7609 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7568 TACCCTATGT
7578 AAACACGACACG
1 AAACACGACACG
7590 AAACACGACACG
1 AAACACGACACG
7602 AAACACGA
1 AAACACGA
7610 ATTGCCAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.31, G:0.16, T:0.00
Consensus pattern (12 bp):
AAACACGACACG
Found at i:12225 original size:61 final size:61
Alignment explanation
Indices: 12155--12276 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
12145 ACCCCAAAGC
12155 AAACTGTGACAACCTTTTCTAACCAGAGGTAAAGACAGATTAACTTTGTTCTTTGTAAAAT
1 AAACTGTGACAACCTTTTCTAACCAGAGGTAAAGACAGATTAACTTTGTTCTTTGTAAAAT
12216 AAACTGTGACAACCTTTTCTAACCAGAGGTAAAGACAGATTAACTTTGTTCTTTGTAAAAT
1 AAACTGTGACAACCTTTTCTAACCAGAGGTAAAGACAGATTAACTTTGTTCTTTGTAAAAT
12277 TGATGACCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (61 bp):
AAACTGTGACAACCTTTTCTAACCAGAGGTAAAGACAGATTAACTTTGTTCTTTGTAAAAT
Found at i:15395 original size:23 final size:23
Alignment explanation
Indices: 15365--15411 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15355 CTTCAACTAA
15365 CCAAAATATCTCTTTTTCCTTTT
1 CCAAAATATCTCTTTTTCCTTTT
15388 CCAAAATATCTCTTTTTCCTTTT
1 CCAAAATATCTCTTTTTCCTTTT
15411 C
1 C
15412 TTGAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (23 bp):
CCAAAATATCTCTTTTTCCTTTT
Found at i:21697 original size:32 final size:32
Alignment explanation
Indices: 21658--21718 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
21648 GCCAGAAACA
21658 GAGAGTTCTATATCTTTTACTATAGTACAGCT
1 GAGAGTTCTATATCTTTTACTATAGTACAGCT
21690 GAGAGTTCTATATCTTTTACTATAGTACA
1 GAGAGTTCTATATCTTTTACTATAGTACA
21719 ACTTACATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (32 bp):
GAGAGTTCTATATCTTTTACTATAGTACAGCT
Found at i:26762 original size:29 final size:29
Alignment explanation
Indices: 26710--26787 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
26700 CGTTAGCCTG
*
26710 AGGGGGCAAAACGTCCCAAAATTGGAATTT
1 AGGGGGCAAAACGT-CCAAAATTGAAATTT
* *
26740 ATGGGGCAAAATGTCCAAAATTGAAATTT
1 AGGGGGCAAAACGTCCAAAATTGAAATTT
26769 AGGGGGCAAAACGTCCAAA
1 AGGGGGCAAAACGTCCAAA
26788 CGCTACAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 31 0.72
30 12 0.28
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (29 bp):
AGGGGGCAAAACGTCCAAAATTGAAATTT
Found at i:47331 original size:15 final size:16
Alignment explanation
Indices: 47306--47335 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47296 AATAATTATT
47306 TTTAGATTATAATATA
1 TTTAGATTATAATATA
47322 TTTA-ATTATAATAT
1 TTTAGATTATAATAT
47336 TATTACTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGATTATAATATA
Found at i:48390 original size:332 final size:331
Alignment explanation
Indices: 47683--49609 Score: 1715
Period size: 332 Copynumber: 5.8 Consensus size: 331
47673 ATACTTAACA
* * * * * *
47683 TCATCTAACCAAATCTCAACAACGTTGGATTTAAGAATTTGTTTTTAAGAGCATCTGAATTTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * * * *
47748 TTTGATTTAATTAAATACTAATTTAGAAAAGAATAAGAAATACGATATTAAAACCGTAAAAAGCC
66 TTCGATTTAATTAAAAATTAATTTGGAAAA-AATAAGAAAAACGATATTAGAAGCGTGAAAAGCC
* * * * *
47813 CTCCAATTTTTTTGACGTTAAATTATATAT-TTTTATGAGTATTTTAGCCAAAAAAATGAGGAGA
130 CTCCAATCTTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAACC-AAAAATTGAGGA-A
* * ** * *
47877 A-ATATTTC-GTGTCAATTTTTACAAATTTTTAGTTGAAATCATGTTCTAACTAACCATCAC-GA
193 ATAT-TTTCAG-GTCAATTTTTGCAAAATTTTAGCCGAAATC--G-TGTAA-TAACCATCACGGT
* * ** * * * * *
47939 TTTTTGGCTAAAAATGCATTCCGGGGATCCGACTCAATTTTGCATGATTTTAGGCTCTGAGACTA
252 TTTTTGGCTAAAAACGCGTTCCGGGCCT-CGACTCAGTTTTGCATGATTTTTGGCGCCGAGACTC
*
48004 CTTGAAATATATATAT
316 CTTGAAATATCTATAT
* * *
48020 TCATCTAATCAAATCTCAACCATATTGGATTGAAGAATTTGTTTATTACGAGCATCTGAATCTTG
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTT-TTACGAGCATCTGAATCTTG
* * *
48085 TTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTCAAAAGCC
65 TTTCGATTTAATTAAAAATTAATTTGGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCC
* * * * *
48150 CTACAATCTTTTTGGCATTGAATTATATAT-TTTTCTGAGTATTTCAAACAAAAATTGAGGAAAT
130 CTCCAATCTTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAACCAAAAATTGAGGAAAT
* * *
48214 ATCTTCCAGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAG-TTTTTGG
195 AT-TTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTTGG
* * * *
48278 CTAAAAAAGCGTTCCGAGGCCTCGACTCAGTTTTGCATGATTTTTGACGTCAAGACTCCTT-AAG
259 CTAAAAACGCGTTCCG-GGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAA-
*
48342 ATATCCATAT
322 ATATCTATAT
* * *
48352 TCATCTAATCAAATCTCAGTCACATTAGATTTAAGAATTTGTTTTTCCGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
48417 TTCGA-TTAATT-AGAATTAATTTAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCC
66 TTCGATTTAATTAAAAATTAATTTGGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCC
* * * *
48479 TCCAATATTTTTGGCATTAAATTATATATATATTATGAGTATTTTATCCAAAAATTGAGGAAAAA
131 TCCAATCTTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAACCAAAAATTGAGGAAATA
* * * * * * *
48544 TTTATCGGGTCATTTTTTGCAAAATTTTAGCC-AACATTGTATACTAACCATAACGGTTTTTTGC
196 TTT-TCAGGTCAATTTTTGCAAAATTTTAGCCGAA-ATCGTGTAATAACCATCACGGTTTTTTGG
* * * * *
48608 CTAAAATCGCGTTTCGGGGCC-CCAGCTCGGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAA
259 CTAAAAACGCG-TTCCGGGCCTCGA-CTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAA
48672 ATATCTATAT
322 ATATCTATAT
* * * * * * *
48682 TAATCTAATAAAATCTTAGCCTCATTGCATTTAAGGATTTATTTTTACGAGCATAC-GAATCTTG
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCAT-CTGAATCTTG
* *
48746 TTTCGATTTAATTAAAAATTAATTCAGG-AAAAATATGAAAAACGATATTA-AA-CGTGAGAAAA
65 TTTCGATTTAATTAAAAATTAATT-TGGAAAAAATAAGAAAAACGATATTAGAAGCGT--GAAAA
* * * * ** *
48808 GCCCTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGAGGA
127 GCCCTCCAATCTTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAACCAAAAATTGAGGA
** * *
48873 AATATCTTTGGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTAATAATTCATCACGG-TTT
192 AATAT-TTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAA-CCATCACGGTTTT
* * * * * *
48937 TAGGCTAAAAACGCGTTCTAGGG--TCCAGTTCAGTTTTGCATGTTTTTTTGCGCCGAGACTCCT
255 TTGGCTAAAAACGCGTTC-CGGGCCTCGA-CTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCT
*
49000 TGAAATACCTATAT
318 TGAAATATCTATAT
* * * * * * * *
49014 TCATTTAACCAAA--T---CC-CA---G-----A-AA-TTATTTTGACAAGCGTCTAAATCATGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
49063 TTTGATTTAATTAAAAATTAATTCGGAAGAAAATAAGAAAAATGATATTAGAAGTGTAAAAAGCC
66 TTCGATTTAATTAAAAATTAATTTGGAA-AAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCC
* * * * ** *
49128 TTTCAATCTTTTTGGCGTTAAATTATATATATTTTTATGAGTATTGT-GGCAAAAACT-ATGGAA
130 CTCCAATCTTTTTGGCATTAAATTATATATA-TTTTATGAGTATTTTAACCAAAAATTGA-GGAA
* * * * * * ** *
49191 AAATATTT-AGGATCAATTTTCGCAAAATATTAGCCAAAACCATGT-ACCATCA-CACGGTTTTT
193 ATAT-TTTCAGG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGG----T
** * * * * * * * *
49253 TTTTTTACTAAAAATGCGTTCCGTGCCCCGAGTAAGTTTTACATGATTTTTGGCGCCAAGACTAC
252 TTTTTGGCTAAAAACGCGTTCCGGGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCGAGACTCC
*
49318 TTGAAATATCTACAT
317 TTGAAATATCTATAT
** * * * *
49333 TCATCTAATCAAATCTCAGCCGTATTGGATTTAAGGATTTTTTTTTACTAGCATCTAAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
* *** * ** *
49398 TTCGATTTAATTATAAATTAATTCCAAAAAAATAGGAAAAACGATATTAGAAGTTTGAAAAGTCC
66 TTCGATTTAATTAAAAATTAATTTGGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCC
* * *
49463 TCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGAGGAAAAA
131 TCCAATCTTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAACCAAAAATTGAGGAAATA
* * *
49528 TTTTTCAGGT-AACTTTTTTGCAAAATTTTAGTCAAAATCGTGTACTAACCATCACGG-TTTTTG
196 -TTTTCAGGTCAA--TTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTTG
* *
49591 CCTAAAAACGCGTTTCGGG
258 GCTAAAAACGCGTTCCGGG
49610 GCCCCGGCTC
Statistics
Matches: 1306, Mismatches: 221, Indels: 131
0.79 0.13 0.08
Matches are distributed among these distances:
314 5 0.00
315 6 0.00
316 48 0.04
317 100 0.08
318 20 0.02
319 70 0.05
320 2 0.00
321 1 0.00
324 2 0.00
325 1 0.00
326 2 0.00
327 2 0.00
328 65 0.05
329 82 0.06
330 124 0.09
331 43 0.03
332 199 0.15
333 164 0.13
334 89 0.07
335 77 0.06
336 46 0.04
337 114 0.09
338 44 0.03
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (331 bp):
TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
TTCGATTTAATTAAAAATTAATTTGGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCCC
TCCAATCTTTTTGGCATTAAATTATATATATTTTATGAGTATTTTAACCAAAAATTGAGGAAATA
TTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTTGGCT
AAAAACGCGTTCCGGGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATAT
CTATAT
Found at i:48972 original size:662 final size:655
Alignment explanation
Indices: 47683--49604 Score: 1946
Period size: 651 Copynumber: 2.9 Consensus size: 655
47673 ATACTTAACA
* * *
47683 TCATCTAACCAAATCTCAACAACGTTGGATTTAAGAATTTGTTTTTAAGAGCATCTGAATTTTGT
1 TCATCTAACCAAATCTC-AC-AC-TTAGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
* *
47748 TTTGATTTAATTAAATACTAATTTAGAAAAGAATAAGAAATACGATATTAAAACCGTAAAAAGCC
63 TTTGATTTAATTAAAT--TAATTTAGAAAA-AATAAGAAAAACGATATTAAAAGCGTAAAAAG-C
* * *
47813 CTCCAATTTTTTTGACGTTAAATTATATAT-TTTTATGAGTATTTTAGCCAAAAAAATGAGGAGA
124 CTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCC-AAAAAATGAGGAAA
* * * ** * * *
47877 AATATTTCGTGTCAATTTTTACAAATTTTTAGTTGAAATCATGTTCTAACTAACCATCAC-GATT
188 AATATTTCGGGTCAATTTTTGCAAAATTTTAG-CCAAAT--TG-TAT-ACTAACCATAACGGTTT
* * * ** * * * *
47941 TTTGGCTAAAAATGCATTCCGGGGATCC-GACTCAATTTTGCATGATTTTAGGCTCTGAGACTAC
248 TTTGACTAAAAATGCGTTTCGGGGCCCCAG-CTCAGTTTTGCATGATTTTTGGCGCCGAGACTAC
* * * * *
48005 TTGAAATATATATATTCATCTAATCAAATCTCAACCATATTGGATTGAAGAATTTGTTTATTACG
312 TTGAAATATCTATATTCATCTAATCAAATCTCAGCCATATTGGATTTAAGGATTTATTT-TTACG
* *
48070 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT-TGGAAAAAATAGGAAAAACGATATT
376 AGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGG-AAAAATAGGAAAAACGATATT
* *
48134 AGAAGCGTCAAAAGCCCTACAATCTTTTTGGCATTGAATTATATAT-TTTTCTGAGTATTTCAAA
440 AGAA-CGTGAAAAGCCCTACAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTT--AA
* *
48198 CAAAAATTGAGGAAATATCTTCCAGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAAC
502 CAAAAATTGAGGAAATATCTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAAC
* * *
48263 CATCACAGTTTTTGGCTAAAAAAGCGTTCCGAGGCCTCGACTCAGTTTTGCATG-ATTTTTGACG
567 CATCACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCTCCACTCAGTTTTGCATGTATTTTTG-CG
*
48327 TCAAGACTCCTT-AAGATATCC-ATAT
631 CCAAGACTCCTTGAA-ATA-CCTATAT
* *
48352 TCATCTAATCAAATCTCAGTCACATTAGATTTAAGAATTTGTTTTTCCGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCA--CAC-TTAGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
48417 TTCGA-TTAATTAGAATTAATTTAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCT
63 TTTGATTTAATTA-AATTAATTTAGAAAAAATAAGAAAAACGATATTAAAAGCGTAAAAAG-CCT
* * * *
48480 CCAATATTTTTGGCATTAAATTATATATATATTATGAGTATTTTATCCAAAAATTGAGGAAAAAT
126 CCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCCAAAAAATGAGGAAAAAT
* *
48545 -TTATCGGGTCATTTTTTGCAAAATTTTAGCCAACATTGTATACTAACCATAACGGTTTTTTGCC
191 ATT-TCGGGTCAATTTTTGCAAAATTTTAGCCAA-ATTGTATACTAACCATAACGGTTTTTTGAC
*
48609 T-AAAATCGCGTTTCGGGGCCCCAGCTCGGTTTTGCATGATTTTTGGCGCCGAGACT-CATTGAA
254 TAAAAAT-GCGTTTCGGGGCCCCAGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTAC-TTGAA
* * * *
48672 ATATCTATATTAATCTAATAAAATCTTAGCC-TCATTGCATTTAAGGATTTATTTTTACGAGCAT
317 ATATCTATATTCATCTAATCAAATCTCAGCCAT-ATTGGATTTAAGGATTTATTTTTACGAGCAT
*
48736 AC-GAATCTTGTTTCGATTTAATTAAAAATTAATTCAGGAAAAATATGAAAAACGATATTA-AAC
381 -CTGAATCTTGTTTCGATTTAATTAAAAATTAATTCAGGAAAAATAGGAAAAACGATATTAGAAC
* * **
48799 GTGAGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATATTTTATGAGTATTGTGGCTAAA
445 GT--GAAAAGCCCTACAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATT-TAAC-AAA
** * *
48864 AATTGAGGAAATATCTTTGGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTAATAATTCAT
506 AATTGAGGAAATATCTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAA-CCAT
* * * * * *
48929 CACGGTTTTAGGCTAAAAACGCGTT-CTAGG-GTCCAGTTCAGTTTTGCATGTTTTTTTGCGCCG
570 CACGGTTTTTGGCTAAAAACGCGTTCCGAGGCCTCCA-CTCAGTTTTGCATGTATTTTTGCGCCA
48992 AGACTCCTTGAAATACCTATAT
634 AGACTCCTTGAAATACCTATAT
* * * * * * *
49014 TCATTTAACCAAA--TC-C-C--AG-----A-AA-TTATTTTGACAAGCGTCTAAATCATGTTTT
1 TCATCTAACCAAATCTCACACTTAGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTT
** * * * *
49066 GATTTAATTAAAAATTAATTCGGAAGAAAATAAGAAAAATGATATTAGAAGTGTAAAAAGCCTTT
66 GATTTAATT--AAATTAATTTAGAA-AAAATAAGAAAAACGATATTAAAAGCGTAAAAAGCC-TC
* * * *
49131 CAATCTTTTTGGCGTTAAATTATATATATTTTTATGAGTATTGT-GGCAAAAACT-ATGGAAAAA
127 CAATATTTTTGGCGTTAAATTATATATA-TTTTATGAGTATTTTAGCCAAAAAATGA-GGAAAAA
* * * * *** *
49194 TATTTAGGATCAATTTTCGCAAAATATTAGCCAAA-ACCAT-GT-ACCATCACACGGTTTTTTTT
190 TATTTCGGGTCAATTTTTGCAAAATTTTAGCCAAATTGTATACTAACCAT-A-ACGG----TTTT
* * * * * *
49256 TTTACTAAAAATGCG-TTCCGTGCCCCGAG-TAAGTTTTACATGATTTTTGGCGCCAAGACTACT
249 TTGACTAAAAATGCGTTTCGGGGCCCC-AGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTACT
* * * *
49319 TGAAATATCTACATTCATCTAATCAAATCTCAGCCGTATTGGATTTAAGGATTTTTTTTTACTAG
313 TGAAATATCTATATTCATCTAATCAAATCTCAGCCATATTGGATTTAAGGATTTATTTTTACGAG
* * *
49384 CATCTAAATCTTGTTTCGATTTAATTATAAATTAATTCCA-AAAAAATAGGAAAAACGATATTAG
378 CATCTGAATCTTGTTTCGATTTAATTAAAAATTAATT-CAGGAAAAATAGGAAAAACGATATTAG
* * * * *
49448 AA-GTTTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTATTTTATCC
442 AACG--TGAAAAGCCCTACAATCTTTTTGGCATTGAATTATATATATTTTATGAGTA-TTTA-AC
* * * * *
49512 AAAAATTGAGGAAAAATTTTTCAGGT-AACTTTTTTGCAAAATTTTAGTCAAAATCGTGTACTAA
503 AAAAATTGAGGAAATATCTTTCAGGTCAA--TTTTTGCAAAATTTTAGCCGAAATCGTGTAATAA
*
49576 CCATCACGGTTTTTGCCTAAAAACGCGTT
566 CCATCACGGTTTTTGGCTAAAAACGCGTT
49605 TCGGGGCCCC
Statistics
Matches: 1059, Mismatches: 143, Indels: 120
0.80 0.11 0.09
Matches are distributed among these distances:
646 29 0.03
647 10 0.01
648 16 0.02
649 6 0.01
650 99 0.09
651 257 0.24
652 52 0.05
653 8 0.01
656 1 0.00
657 1 0.00
659 3 0.00
660 4 0.00
661 121 0.11
662 217 0.20
663 37 0.03
664 4 0.00
665 95 0.09
666 20 0.02
667 8 0.01
668 8 0.01
669 62 0.06
670 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (655 bp):
TCATCTAACCAAATCTCACACTTAGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTT
GATTTAATTAAATTAATTTAGAAAAAATAAGAAAAACGATATTAAAAGCGTAAAAAGCCTCCAAT
ATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCCAAAAAATGAGGAAAAATATTTC
GGGTCAATTTTTGCAAAATTTTAGCCAAATTGTATACTAACCATAACGGTTTTTTGACTAAAAAT
GCGTTTCGGGGCCCCAGCTCAGTTTTGCATGATTTTTGGCGCCGAGACTACTTGAAATATCTATA
TTCATCTAATCAAATCTCAGCCATATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCTTG
TTTCGATTTAATTAAAAATTAATTCAGGAAAAATAGGAAAAACGATATTAGAACGTGAAAAGCCC
TACAATCTTTTTGGCATTGAATTATATATATTTTATGAGTATTTAACAAAAATTGAGGAAATATC
TTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAA
AAACGCGTTCCGAGGCCTCCACTCAGTTTTGCATGTATTTTTGCGCCAAGACTCCTTGAAATACC
TATAT
Found at i:50097 original size:15 final size:15
Alignment explanation
Indices: 50077--50105 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50067 TCCAGGCTGC
50077 CACGATACACAATAT
1 CACGATACACAATAT
50092 CACGATACACAATA
1 CACGATACACAATA
50106 CTTCAACCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
CACGATACACAATAT
Found at i:52583 original size:332 final size:330
Alignment explanation
Indices: 51528--53656 Score: 1835
Period size: 332 Copynumber: 6.5 Consensus size: 330
51518 GGGTCTCACA
* * * * *
51528 TCAGTTTTGCATAATTTTTGGCGCCGAGAGTCATTGAACTATCTATATTCATCTAATAAAATCTT
1 TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCTC
* * ** * * *
51593 AGCGACATTGCATTTAAGGATTTATTTTTATGAGAATATGAATCTTGTTTCGATTTAATAAGAAA
66 AGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
* * * * ** *
51658 TTAATTCAGGAAAGATATGAAAAACGATATTAG-CGAG-AAAAGCCCTTTAAAT-TTTTTGGCGT
131 TTAATTCA-GAAAAATAAGAAAAACGATATTAGAAGCGTAAAAATCC-TTCAATCTTTTTGGCGT
* * * *
51720 TCAATTATATATTCTT-TTATGAGTATTGTGGCTAAAAATTGAGGAAATATCTTTGGGGTCAATT
194 TGAATTATATATT-TTCTTATGAGTATTGTGGCAAAAAATTGAGGAAAAATCTTTCGGGTCAATT
* * * * * *
51784 TTCGTAAAATTTTAACCGAAATCGTGTAATAATTCATCACGGTTTTTGGCTAAAAACCCG-TTCT
258 TTTGCAAAATTTTAGCCGAAATCGTGTAATAA-CCATCACGGTTTTTGGCT-AAAACCGGTTTCA
** *
51848 GGGGTCCGAA
321 GGGCCCCGAG
* * * * * *
51858 TCAGTTTTGCATGATTTTTGACACCGAGACTCCTCGAAATAACTATATTCATCTAACCAAAT-T-
1 TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCTC
* * * *
51921 ---C-CA--G----T---CATTT-TTTTGACAAGCTTCTGAATCATGTTTCGATTTAATTAGAAA
66 AGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
* *
51972 TTAATTC-G---AA-AA-AAAAACGATATTAGAAGCATGAAAATCCCTTCAATCTTTTTGGCGTT
131 TTAATTCAGAAAAATAAGAAAAACGATATTAGAAGCGTAAAAAT-CCTTCAATCTTTTTGGCGTT
* * * *
52031 GAATTATATA-TTTGTTATGAGTATTGTGGC-AAAAATTGAGGAAAAATATTTTGGGTTAATTTT
195 GAATTATATATTTTCTTATGAGTATTGTGGCAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTT
* * *** ***** * *
52094 TGC-AAATATTAGCCAAAATCGTGTACTATCAAGGTTTTTTTTTTTTTGCTAAAATCGCGTTTCG
260 TGCAAAATTTTAGCCGAAATCGTGTA--AT-AACCATCACGGTTTTTGGCTAAAACCG-GTTTC-
* *
52158 GGGGCCCCAAG
320 AGGGCCCCGAG
* * * * **
52169 TAAGTTATACATGATTTTTGGCACTAAGACT-ACTTGAAATATCTATATTCATCTAATCAAATCT
1 TCAGTTTTGCATGATTTTTGGCGCCGAGACTCA-TTGAAATATCTATATTCATCTAATCAAATCT
* * * *
52233 CAGCCACATTGGATTTAAGGATTTGAATTTTACTAGCATCTAAATCTTGTTTCGATTTAATTAGA
65 CAGCCACATTGCATTTAAGGATTTG-TTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * *
52298 AATTAATTCTGAAAAAGTAAG-AAAATGATATTAGAAGCGTAAAAATCCTTCAATATTTTTGGCG
129 AATTAATTCAGAAAAA-TAAGAAAAACGATATTAGAAGCGTAAAAATCCTTCAATCTTTTTGGCG
* * * * *
52362 TTGAATTATAT-TTTTCTTATGAGTATTTTAGCAAAAAAATTGATGAAATATCTTTCAGGTCAAT
193 TTGAATTATATATTTTCTTATGAGTATTGTGGC-AAAAAATTGAGGAAAAATCTTTCGGGTCAAT
*
52426 TTTTGCAAAATTTTAGCCGAAATCATGTAATAACCATCACGGTTTTTGGCTGAAAACCGGTTTCA
257 TTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCT-AAAACCGGTTTCA
*
52491 GGGACCCGAG
321 GGGCCCCGAG
* * * *
52501 TCAGTTTTGCATGATTTTTTGCGCCAAGACTCATTGAGATATCCATATTCATCTAATCAAATCTC
1 TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCTC
* *
52566 AGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCCGAATCTTGTTTCGATTTAATAAGAAA
66 AGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
* * * * * * *
52631 TTAATTTAGAAAAAATATGAAAAATGATATGAAAAGCGTGAAAAGT-CGTCAAATCTTTTTGGCG
131 TTAATTCAG-AAAAATAAGAAAAACGATATTAGAAGCGT-AAAAATCCTTC-AATCTTTTTGGCG
* * ** * * ** * *
52695 TTAAAATTATATATATTTC--ATGAGTATTTTCTCCAAAAATTGAGGAAAAATTTTTTTGTTCAG
193 TT-GAATTATATAT-TTTCTTATGAGTATTGTGGCAAAAAATTGAGGAAAAATCTTTCGGGTCAA
* * * *
52758 TTTTTTCAAAATTTTAGCCGAAATCGTGTACTAACCATCAAGGTTTTTTTTTTTGCTAAAAACTC
256 TTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGG-----TTTTTGGCT-AAAAC-C
52823 -GTTTC-GGGACCCCG-G
314 GGTTTCAGGG-CCCCGAG
* * * * * *
52838 CTCAGTTTTGCATGATTTTTGGCGTCGAGAGTCCTTGAAATATTTGTATCCATCTAATCAAATCT
1 -TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCT
** * *
52903 CAGCCACATTGCATTTAAGGATTTGTTTTTATGAGCATCTCAATCTTGTTTCAATTTAATTAGAA
65 CAGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * * *
52968 ATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTAAAAAGTCCTCCAATCTTTTTAGAGT
130 ATTAATTCAGAAAAATAAGAAAAACGATATTAGAAGCGTAAAAA-TCCTTCAATCTTTTTGGCGT
* * * * * * * *
53033 TGAATTATATATATT-TTATG-GATTTTTTAGAAAAAAATTGAGGAAAAATATTTCTGATCAATT
194 TGAATTATATATTTTCTTATGAG-TATTGTGGCAAAAAATTGAGGAAAAATCTTTCGGGTCAATT
* * * * * **
53096 TTTGCAAAATATTAGCCGAAATCGTGTACATTAGTCGAAGTCAC---ATTTGGTTAAGAATGTGC
258 TTTGCAAAATTTTAGCCGAAATCGTGTA-A-TA-AC-CA-TCACGGTTTTTGGCTAA-AA-CCG-
*
53158 GTTCCAGGGCCCCG-G
315 GTTTCAGGGCCCCGAG
* * * * * * * *
53173 TTCAATGTTGCATAATTTTTGGCGTCGAGACTCCTTAAAATATTTGTATTCATCTAATCAAATCT
1 -TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCT
* *** * *
53238 CAGCCACATTGGATTTAAGGATTTG-TAAAACAAGCATCTAAATCATGTTTCGATTTAATTAGAA
65 CAGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * *
53302 ATTAATTC-GAAAAATAATAGGAAAAACAATATTAGAAGCATGAAAAACCCTTCAATCTATTTGG
130 ATTAATTCAGAAAAAT-A-A-GAAAAACGATATTAGAAGCGT-AAAAATCCTTCAATCTTTTTGG
* *
53366 CGTTGAATTATATAATTTTC--AAGAGTATCGTGGCTAAAAAA-TGAGGAAATAA-CTTTCGGGT
191 CGTTGAATTATAT-ATTTTCTTATGAGTATTGTGGC-AAAAAATTGAGGAAA-AATCTTTCGGGT
* * *
53427 CAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTGGCTAAAACTAGG-
253 CAATTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAAAAC-CGGT
* *
53491 TTCTGGGGCCCCGAC
317 TTC-AGGGCCCCGAG
* * * * *
53506 TAAGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATATCTATATTCATCTAATCGAATCTC
1 TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCTC
* * * * * *
53571 ATCTACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCGTGTTTCGATTTAATTA-AAA
66 AGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
*
53635 GTTAATTCAGAAAAATATGAAA
131 -TTAATTCAGAAAAATAAGAAA
53657 CAAAAATTTG
Statistics
Matches: 1452, Mismatches: 257, Indels: 179
0.77 0.14 0.09
Matches are distributed among these distances:
307 33 0.02
308 39 0.03
309 38 0.03
310 27 0.02
311 57 0.04
312 2 0.00
314 40 0.03
315 4 0.00
316 1 0.00
317 2 0.00
318 1 0.00
319 1 0.00
322 1 0.00
323 1 0.00
324 2 0.00
326 4 0.00
328 42 0.03
329 2 0.00
330 52 0.04
331 56 0.04
332 202 0.14
333 197 0.14
334 109 0.08
335 127 0.09
336 195 0.13
337 63 0.04
338 148 0.10
339 2 0.00
340 1 0.00
341 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (330 bp):
TCAGTTTTGCATGATTTTTGGCGCCGAGACTCATTGAAATATCTATATTCATCTAATCAAATCTC
AGCCACATTGCATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
TTAATTCAGAAAAATAAGAAAAACGATATTAGAAGCGTAAAAATCCTTCAATCTTTTTGGCGTTG
AATTATATATTTTCTTATGAGTATTGTGGCAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTT
GCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTAAAACCGGTTTCAGGGCC
CCGAG
Found at i:54949 original size:17 final size:17
Alignment explanation
Indices: 54927--54969 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
54917 AAATGAAAAA
54927 TTTCAATGCTTTAATTT
1 TTTCAATGCTTTAATTT
54944 TTTCAATGCTTTAATTT
1 TTTCAATGCTTTAATTT
54961 TTTCAATGC
1 TTTCAATGC
54970 GTTTGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTCAATGCTTTAATTT
Found at i:59929 original size:657 final size:652
Alignment explanation
Indices: 58678--65906 Score: 6727
Period size: 656 Copynumber: 11.1 Consensus size: 652
58668 GGCTTTCAAC
* * * * * * * *
58678 TTGAATTATATA-TTTTTATGAGTATTTTAGCTAGAAATTGACGAAAAA-TCTTTCGGATCAATT
1 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACT-TTTCGGGTC-AGT
* * * * * ** * * *
58741 TTTGTAAATATTTAACCGGAATCGTTTACTAACCATCAC-GATTTTCGGTTAAAAACACGTTTCG
64 TTTGCAAATTTTTAGCCGAAATCGTGTACTAACCATCACAG-TTTTTTGCTAAAAACGCGTTCCG
* * ** * * * *
58805 GGACCCGGCAAAGTTTTGCATGATTTTTTGTGTCAAGACT-CTTTGAAATATCTATATTCATCTA
128 GGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTAC-TTGAAATATCTATATTCATCGA
* * * * * *
58869 ACCAAATCTCAGACATATTGGATTTAAGGATTTGTTTTTATGAGAATCTGAAACTTGTTTCGA-T
192 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* *
58933 TAATTAGAAATTAATTCGAAAAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGCCCGTCAATC
257 TAATTAGAAATTAATTCGAAAAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATC
* *
58998 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGAGGTAAAAAATTCAGAAAATAAAAATTT
321 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG-AAA-AAAAATTT
** * *
59063 TTCAGCTTAGTTCTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGGCTAAAAACGC-TTT
384 TTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTT-GGGCTAAAAACGCGTTT
* ** *
59127 ACGGGGCCTCGACTCA-TATTTGCATGATTTTTTACAGAAAGACTCATTGAAATATCTATATTCA
448 -CGGGGCCCCGACTCAGT-TTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCA
* * * * *
59191 TATAACTAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGAATCTGAATCATGTTTC
511 TCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* *
59256 GATTTAATT-AAAATAAATTCGGAAAAAATGGAAAAAAAAAATTAGAAACGTGAAAAACCCTTCA
576 GATTTAATTAAAAATAAATTCGGAAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCTTCA
*
59320 ATTTTTTTGACG
641 ATTTTTTTGGCG
**
59332 TTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTGA-TTAAAACTTTTCGGGTCAGCTT
1 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAG-TT
* * * * *
59395 TTGCAAATTTTTAACTGAAATCGTGTATTAACAATCACAGTTTTTTGCTAAAAACGCGTTCCTGA
65 TTGCAAATTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACGCGTTCC-GG
* ** * ** * * *
59460 GCCCCAACTCTTTTTTGAATCTTTTTTGGCGCAAAGAGTACTTGAAATATTTATATTCATCGAAT
129 GCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCGAAT
*
59525 CAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
194 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
* * * * * *
59590 ATTAGAAACTAATTCAGAAAAAAAGTAGGAAAAACAATATTAGAAGCTTTAAAGGCTCGTCAATC
259 ATTAGAAATTAATTC-GAAAAAAA-T-GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATC
* * *
59655 TTTTTGGTGTTGAATTATAT-TTTTTTCCTGAGTATTGAGGCAAGAAATTCAGAAAATAAAATTT
321 TTTTTGGCGTTGAATTATATATTTTTT-CTGAGTATTGTGGCAAAAAATTCAGAAAA-AAAA-TT
* * * * *
59719 TTTTGGCTTAGTTCTTAGCCGAAATCATGTACTAATCATCACGGTTTTAGGGTTAAAAACGCTTT
383 TTTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTT-GGGCTAAAAACGCGTT
* * * * *
59784 TCGGGGTCTCGACTCAGATTTGCATGATTTTTGACAGAAAAACTCCTTGAAATATCTATATTCAT
447 TCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAT
* * * * ** *
59849 ATAACCAAATCTCAACCCCATTGAATTTAAGGATTTGTTTTTACGAG-AGAGTGAATCATGTTTC
512 CTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA-TCTGAATCTTGTTTC
*
59913 GATTTAA-TAAAAATAAATTCGGAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCTTC
576 GATTTAATTAAAAATAAATTCGG-AAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCTTC
*
59977 -CTTTTTTTGGCG
640 AATTTTTTTGGCG
* * *
59989 TTGAATTATATATTTTTTCTGAGTATTATGGCAAAAAATTGAGGAAAAACTTTTTGGATCAGTTT
1 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAG-TT
* * *
60054 TTGCAAATTTTTTA-CCGAAATCGTGTA-TTACCAATCACAGTTTTTAGCTAAAAACGCGTTCAT
65 TTGCAAA-TTTTTAGCCGAAATCGTGTACTAACC-ATCACAGTTTTTTGCTAAAAACGCGTTC-C
* ** * * * ** * *
60117 GAGCTTCAACTCATTTTTGAATGATTTTTGGCACAAAGAGTACTTGAAATATTTATATTCATCGA
127 GGGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCGA
* *
60182 ATCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCGATT
192 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* * *
60247 TAATTAGAAATTAATTCGGAAAAAATGGGAAAAACAATATTAGAAGCGTTAAAAGCCCGTCAATC
257 TAATTAGAAATTAATTCGAAAAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATC
*
60312 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAATAAAAAATT
321 TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG-AAA-AAAAATTT
* * * ** *
60377 TTTGGCTTAGTTCTTAGCCAAAATCATGTTTTAACCATCACGGTTTTGGGGCTAAAAACGCTTTT
384 TTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTT-GGGCTAAAAACGCGTTT
* * * * *
60442 CGGGGCCTCGACTCAGATTTGCATGATTTTTGACAGAAAGACTCATTGAAATATCTATATTCATA
448 CGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATC
** * * * *
60507 TAATTAAATCTCAACCACATTGGA--TAATGATTTGTTTTTACGAGAATCTGAATCATGTTTCGA
513 TAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA
* * *
60570 TTTAATT-AAAATAAATTCGGAAAAAAATGGAAAAACAATATTAGAAGCATGAAAAATCCTTCAA
578 TTTAATTAAAAATAAATTCGG-AAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCTTCAA
60634 TTTTTTTTGGCG
642 -TTTTTTTGGCG
*
60646 TTGAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTCTCGGGTCAGTTT
1 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAG-TT
* * * * * *
60710 TTGCAAAATTTTAGCAGAAATCGTGT-CTTAACGATCACAGTTTTTGGCTAAAAATGCATTCCAG
65 TTGCAAATTTTTAGCCGAAATCGTGTAC-TAACCATCACAGTTTTTTGCTAAAAACGCGTTCC-G
* * * * * ** * *
60774 AGTCCCGGCTCAATTTTGAATGATTTTTGGCGCCAAGAGC-ACTTGAAATATTTGTATTCATCGA
128 GGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGA-CTACTTGAAATATCTATATTCATCGA
* * *
60838 ATCAAATCTCAGTCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGTATCTTGTTTCGATT
192 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* * * * * **
60903 TAGTTAGAAATTAATTCGGAAAAATTGGAAAAACGATATTCGAAGCATGAAAAGCAGGTCAATCT
257 TAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCT
* * *
60968 TTTTGGCGTAGAATTATATATTTTTCCTGAGTATTGTGGTAAAAAATTCA-AAAGAAAAA-TTTT
322 TTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAA-AAAAATTTTT
** * ** * *
61031 TCACGTCA-ATTTTAGCCGAAATCATGTACTAACTGTCACGGTTTTTCGGCTAAAAACGGGTTTC
386 TGGC-TCAGTTTTTAGCCGAAATCATGTACTAACCATCACGG-TTTTGGGCTAAAAACGCGTTTC
*
61095 GGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTACATTCATCT
449 GGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCT
* * *
61160 AACCAAATCTCAGCCACATTGGATTTAAGGATTT-TTTTTAACGAGTATCTTAATCTTATTTCGA
514 AACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTT-ACGAGCATCTGAATCTTGTTTCGA
* * *** * * *
61224 TTTAA-TAAGTAATATATTTTAAAAAAAGAAGGAAAAAACGATATTAGAAGCGGGAAAAACCCTT
578 TTTAATTAA-AAATA-AATTCGGAAAAA-ATGGAAAAAA-AATATTAGAAGCGTGAAAAACCCTT
61288 CAATTTTTTTGGCG
639 CAATTTTTTTGGCG
* * * *
61302 TT-AAGTTATATATTTTTT-T-AGTATTATGGCGAAAAAATTTAGGAAAAACTTTTTGAGTCAGT
1 TTGAA-TTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTGAGGAAAAACTTTTCGGGTCAG-
* * * * * *
61364 TTTTGCTAAA-TATTAGCCGAAATTGTATACTAACCATCATAGGTTTTTTGCTAAAAATGTGTTC
63 TTTTGC-AAATTTTTAGCCGAAATCGTGTACTAACCATCACA-GTTTTTTGCTAAAAACGCGTTC
* * * * * *
61428 CGGGGCCCGGCTCAGTTTTGCATGAGTTTTGGCGTGAAGACTTCTTGAAATATCTATATTTATCG
126 CGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCG
* ** *
61493 AATCAAATC-CAAGCCACATTGGATTTAA-GAGTATGTTTTTACGAAAATCTTAATCTTGTTTC-
191 AATCAAATCTC-AGCCACATTGGATTTAAGGA-TTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* * * * *
61555 ATTTATTTAAAAATTAATTCAGAAAAAAATGGAAAAACGATATTTGAAGCGTGAAAATCCCTTCA
254 ATTTAATTAGAAATTAATTC-GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCA
* * * * * * * *
61620 TTCTTCTTGGTGTTGAATTATTTATTTTTTATGAGTATTATGGCAAAAAATT--G-AGAAAAATA
318 ATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATT
* * * ** * * **
61682 TTTCGGGTCAGTTTTTAGTCGAAATCGGGTATTAACCATCACGGTTTTTGGCTAAAAACGAATTT
383 TTTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGCTAAAAACGCGTTT
* * * *
61747 CGGGGCCCTGACTCAGTTTTGCATGATTTTTGGCAAAAAGACTCATTTAAATATCTATATTCATC
448 CGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATC
*
61812 TAACCAAATCTCAGCCACATTGGGTTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA
513 TAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA
* * * * ** *
61877 TTTAATTAGAATTAAATTTGGTAAAAAATGCAAAAACGATATTAGAAGCGTGAAAAAACCTTCAA
578 TTTAATTAAAAATAAATTCGG-AAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCTTCAA
**
61942 TTTTTTTGATG
642 TTTTTTTGGCG
*
61953 TTGAATTATATATTTTTT-TAGAGTATTGTCGCAAAAAAAAAATTGAGGAAAAACTTTTCGGGTC
1 TTGAATTATATATTTTTTCT-GAGTATTGTGGC----AAAAAATTGAGGAAAAACTTTTCGGGTC
* * * ***
62017 AGTTTTTGCTAAA-TTTGAGCCGAAATCGTGTACTAACCATCACGGGTTTTTGCTAAAAATATGT
61 AG-TTTTGC-AAATTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACGCGT
* * *
62081 TCCGGG-CCCGACTCAGTTTTGCATGAGTTTTGGCGTAAAAAC-ATCTTGAAATATCTATATTTA
124 TCCGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTA-CTTGAAATATCTATATTCA
* * *
62144 TCGAATCAAATCCCAGCCACATTGGTTTTAA-GAGTTTGTTTTTACGAGTATCCT-AATCTTGTT
188 TCGAATCAAATCTCAGCCACATTGGATTTAAGGA-TTTGTTTTTACGAGCAT-CTGAATCTTGTT
* ** * * *
62207 TC-ATTTAATTAGAAATTAATTCG-GAAAAATGTTAAAACGATATTTGAAGCGTGAAAAACCCTT
251 TCGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGT
* * * * *
62270 CAATCTTCTTGGCATTGAATTATATATAATTTTATGAGTATTGTGGCAAAAAATTGAG-AAAAAA
316 CAATCTTTTTGGCGTTGAATTATATAT-TTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAA
* * * * * ** * *
62334 ATATTTCGGGTCAGCTTATAGCCGAAATCGGGTATTAACCATCACGGTTTTTGGCTAAAAAACGC
380 ATTTTTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGCT-AAAAACGC
* *** * * * * * * * * * *
62399 GTCTCGAATCCTCAACTCAGGTTTACATGGTTTTTGGCATAAAAAATCCATGAAATATCCGA-AT
444 GTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATAT-CTATAT
* * * ** * *
62463 TCATCGAACCAAATCTCAGCCATATTGGATATAAGGATTTGTTTTTATTAGTATCTAAATCTTGT
508 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
62528 TTCGATTTAATTAAAAATTAATTAATTC-GAAAAAATTGGAAAAAACAATATTAGAAGCGTGAAA
573 TTCGATTTAATTAAAAA-T-A--AATTCGGAAAAAA-TGGAAAAAA-AATATTAGAAGCGTGAAA
* * *
62592 AGCCCGTCAATCTTTTTTTG-G
632 AACCCTTCAAT-TTTTTTGGCG
* ** *
62613 TTGAATTATATA-TTTTTCTTGACTATTGTGGCAAAAAATTCAGAAAAAAAATAAATTTTC-GG-
1 TTGAATTATATATTTTTTC-TGAGTATTGTGGCAAAAAATT--G--AGGAAA-AACTTTTCGGGT
* * * ***
62675 --G---T--AAGTTTTTAGCCGAAATCGTGTGCT-ACCATCACGGCTTTAAGGCTAAAAACGCGT
60 CAGTTTTGCAAATTTTTAGCCGAAATCGTGTACTAACCATCACAG-TTTTTTGCTAAAAACGCGT
* * * * * * * * ** *
62732 TTCGGTACACCGGCTCAATTTTACTTGATTTTTGGCATAAAGTGT-CTTTTAAATATCTATATTC
124 TCCGG-GCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTAC-TTGAAATATCTATATTC
* * *
62796 ATCTACTCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
187 ATCGAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
* * * *
62861 CGATTTAA-TA-AAA-AAATTCG-AAAAAATGGAAAAATGATATTGGAAGCGTGAAAAAG-CCTT
252 CGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAGCCCGT
* * **
62921 CAATTTTTTTGGCGTTGAATTATATATTATTTT-TGAGTATTGTGGCAAAAAAATT-TGAGGAAA
316 CAATCTTTTTGGCGTTGAATTATATATT-TTTTCTGAGTATTGTGGC-AAAAAATTCAGAAAAAA
** * * * *
62984 ACCTTTTTGGGTCAGTTTTTGCTAAATTTTAGCGGAAAT-AGTGTATTAACCATCATGAGTTTT-
379 AATTTTTTGGCTCA------G-T---TTTTAGCCGAAATCA-TGTACTAACCATCACG-GTTTTG
* * * * * * *
63047 TGCTAAAAATGTG-TTCTGGG-CCGGGCTCAGTTTTGCATGATTTTTGGC-GTAAAGACTTCTTG
432 GGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTG
* * * * *
63109 AAATATCTATATTTATCGAATCAAATCCCCGCCACATTGGATTTAATGG-TTTGTTTTTACGAGC
496 AAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAA-GGATTTGTTTTTACGAGC
* * * * ** *
63173 ATCTTAATCTTATTTC-ATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTTGAA
560 ATCTGAATCTTGTTTCGATTTAATTAAAAATAAATTCGG-AAAAAATGGAAAAAAAATATTAGAA
* * *
63237 GCGTGAAAAACCCTTCAATCTTCTTGGTG
624 GCGTGAAAAACCCTTCAATTTTTTTGGCG
* *
63266 TTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGA-GAAAAA-TACTTC--G--AG--
1 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACT-TTTCGGGTCAGTT
* * * * * * *
63323 -T-C-ACTTTTTAGTCGAAATCGGGTATTCACCATCAC-GATTTTTGGCTAAAAACGCGTCTCGG
65 TTGCAAATTTTTAGCCGAAATCGTGTACTAACCATCACAG-TTTTTTGCTAAAAACGCGT-TCCG
* * * * * * * *
63384 GGCCTCGACTAAGGTTTGCATGGTTTTTGGCATAAAGAATCCTTGAAATATCTAAATTCATCGAA
128 GGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCGAA
* * * * *
63449 CCAAATCTCAACCACATTGGATATAAGGATTTGTTTTTACGAGTATTTGAATCTTGGTTT-GATT
193 TCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT-GTTTCGATT
* * * *
63513 TAATTAAAAAGT-ATATCGGAAAAAAATAGAAAAAACGATATTAGAAACGTGAAAAGCCCGTCAA
257 TAATTAGAAATTAAT-TC-GAAAAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAA
* * * *
63577 TCTTTTT-GCAGTTGAAATATATATTTTTT-TTATTATTGTGG-AAAAAATTCAGAAAAAAAAAC
319 TCTTTTTGGC-GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG-AAAAAAAAT
* * * *
63639 CTTTCGGGTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGGCTAAAAACGTGT
382 TTTTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTT-GGGCTAAAAACGCGT
* * * * * *
63704 TTCGGGGCACCGGCTCAGTTTTGCTTGATTTTTGGCAGAAAGAAT-CTTTAAATTATATATATTC
446 TTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAA-TATCTATATTC
* * **
63768 ATCTAACCAAATCTTAGCCACATT-GTTTTTCGGATTTGTTTTTACGAGCA-CATGAATCTTGTT
510 ATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC-TGAATCTTGTT
* * * ** * * * **
63831 TTGATTTAATTAGAAATAAATTCGAAAAAAATGGAAAAACGATATTAGAGGAGTGAACAAGTCTT
574 TCGATTTAATTAAAAATAAATTCGGAAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCTT
63896 CAATTTTTTTTGGCG
639 CAA-TTTTTTTGGCG
*
63911 TTGAATTATATATTATTTT-TGAGTATTGTGGCAAAAAAATTGAGGATAAACTTTTCGGGTCAGT
1 TTGAATTATATATT-TTTTCTGAGTATTGTGGC-AAAAAATTGAGGAAAAACTTTTCGGGTCAGT
* * * * * * *
63975 ATCTGCTAAA-TTTTAGTCGAAATCGTGT-GT-ACCATCACGGGTTTTTGCTAAAAATGTGTTCC
64 -TTTGC-AAATTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACGCGTTCC
* * * ** * * * * *
64037 GGGGCCCGGCTCAGTTTTGCATGATTCTTGATGTAAACACTTCTTGAAATTTCTATATTTATCTA
127 GGGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCGA
* * * * * *
64102 ACCAAATCCCAGCCACATTGGATTTAAGGGTTTGTTTTTACGAGCATCTTATTTTTGTTTC-ATT
192 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* * * * * * *
64166 TAATTAGAAATTAATTAGGAAAAAATGG-AAAATGATATTTGAAGCGCGAAAAACCCTTCAATCT
257 TAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCT
* * * *
64230 TCTTGGTGTTGAATTATATA-TTTTTATGAGTATTGTGGCAAAATATTCAGGAAAAAAAA--TTT
322 TTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCA-GAAAAAAAATTTTT
* * * * * **
64292 TGAG-TAACTTTTTAGCCGAAATCGTGTGCGT---TATTGCGGTTTTGGGGCTAAAAACGCGTTT
386 TG-GCTCAGTTTTTAGCCGAAATCATGTAC-TAACCATCACGGTTTT-GGGCTAAAAACGCGTTT
* * * * * *
64353 CGGGGCACCGGCTCAGTTTTGCTTGATTTTTGGCAGAAAGACTCTTTTAAAT-TCAATATTCATC
448 CGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATC
* * * * *
64417 TACCCAAATCTCAGCCACATCGAATTTAAGGATTTCTTTTT-CGAGCATCTGAATATTGTTTCGA
513 TAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA
* * ** * * ***
64481 TTTAATTAGAAATAAATTCGTAAAAAAAACGAAAAAACGATAATAGAAGCGTGAAAAGGTCTTCA
578 TTTAATTAAAAATAAATTCG-GAAAAAATGGAAAAAA-AATATTAGAAGCGTGAAAAACCCTTCA
*
64546 ATTTTTTTGGCT
641 ATTTTTTTGGCG
* * * *
64558 TTGAATTATATATTATTTT-TTAATACTGTGACAAAAAATTGAGGAAAAACTTTTCGGGTCAGTG
1 TTGAATTATATATT-TTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGT-
* * * * * *
64622 TTTGCTAAA-TTTTAGCCGAAATCTTGTACGAACCATCACGGGTTTTTGCTAAAAATGTGTTCCG
64 TTTGC-AAATTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACGCGTTCCG
* * * * * *
64686 GGGCCGGGCTCAGTTTTGCATGATTTTTGGCGTAAAAACTTCTTGAAATATCTATATTTATCGAA
128 GGCCCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCGAA
* * * *
64751 CCAAATCCCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCCTCTTAATCTTGTTTC-ATTT
193 TCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * ** *
64815 AATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATGTCT-GAAGCGCGAAAAAACCTTCAATC
258 AATTAGAAATTAATTCG-AAAAAAATGGAAAAACGATAT-TAGAAGCGTGAAAAGCCCGTCAATC
* * * * * * *
64879 TTCTTGGCGTTGAATTATGTATTTTTTAATGAGTATTGTGGTAAAAAATTGAGAAAAAATATTTC
321 TTTTTGGCGTTGAATTATATATTTTTT-CTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATTTT
* * ** * * * *
64944 GT-GC-CAGTTTTTAGCCAAAATCGGGTATTAACCATCATGGTTTTTGGCTAAAAACGCGTCTCG
385 TTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGCTAAAAACGCGTTTCG
* ** * * * * *
65007 GGACCTTGACTCAGGTTTGCAT-AGTTTTTGGTATAAAGACTCCTTGAAATATCTAAATTCATCG
450 GGGCCCCGACTCAGTTTTGCATGA-TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCT
* * * * * * * *
65071 AACCAAATTTCAGCCAAATTGGATATAAGGATTTGTTTTCACCAGTATCTGATTCTTATTTCGAT
514 AACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
* * * * *
65136 TTAATTAAAAATTAATTCGAAAAAAATGGAAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAAT
579 TTAATTAAAAATAAATTCGGAAAAAATGGAAAAAA-AATATTAGAAGCGTGAAAAACCCTTCAAT
* *
65201 CTTTTTGGAG
643 TTTTTTGGCG
* * * * * **
65211 TTGAATTACATATTTTTCCTGAGTGTTGTGGTAAAAAAATT-AAGAAACAA--AAT----TCAG-
1 TTGAATTATATATTTTTTCTGAGTATTGTGG-CAAAAAATTGAGGAAA-AACTTTTCGGGTCAGT
* * * * **
65268 ---GTAAGTTTTTAGCCTAAATCGTGTGCTAACCATCAC-GATTTTGGGGCTAAAAACGCGTTTC
64 TTTGCAAATTTTTAGCCGAAATCGTGTACTAACCATCACAG-TTTT-TTGCTAAAAACGCG-TTC
* * * * * * *
65329 TGGGCACTGACTCAGTTTTGCTTGGTTTTTGGCAG-AAAGACT-CTTTTAAATATCTATATTCTT
126 CGGGCCCCGACTCAGTTTTGCATGATTTTTGGC-GTAAAGACTAC-TTGAAATATCTATATTCAT
* * * * * *
65392 CTAACCAAATCTCTGCCACATTTGATTTAATGATTTGTTTTTACGAGCATCTGAATCTTATTTCG
189 CGAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* * * ** * * *
65457 ATTTAGTTAGAAATTGATTCG-GAAAAATCAAAAAAACGATATTAGAAGTGTGAAAATCACGTCA
254 ATTTAATTAGAAATTAATTCGAAAAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCA
*
65521 ACCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAA--
318 ATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATT
* * * * * * * *
65584 -ATTGGGTTAGTTTTTAGGCGAAATCGTGTACTAACAATCACGGTTTT-TGCTAAAAACACGTTT
383 TTTTGGCTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGCTAAAAACGCGTTT
* * ** ** *
65647 CGAGACCCCGACAAAGTTTTGCATTTTTTTTGGCAGAAAGACTCCTTGAAATATTTATATTCATC
448 CGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATC
* * *
65712 TAACCAAATCTCAGCCACATTGGATTGAAGGATTTGTTTTTATGAGCATCTGAATCATGTTTCGA
513 TAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA
* * * *
65777 TTTAATTAGAAATAAATT---AGAAAA---AAAAAAGATATTAGAAGCGTGAAAAAGCCTAT-AA
578 TTTAATTAAAAATAAATTCGGAAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCT-TCAA
*
65835 TTTTTTTTTTTTTGCG
642 -----TTTTTTTGGCG
* * *
65851 TTGAATTATATATTGCTTTT-TGAGTATTGTGCCAAAGAATTGAGGAAAAATTTTTC
1 TTGAATTATATATT--TTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTC
65907 AGCTCAATTT
Statistics
Matches: 5523, Mismatches: 831, Indels: 453
0.81 0.12 0.07
Matches are distributed among these distances:
635 23 0.00
636 7 0.00
639 5 0.00
640 30 0.01
641 21 0.00
642 169 0.03
643 78 0.01
644 126 0.02
645 273 0.05
646 159 0.03
647 289 0.05
648 222 0.04
649 46 0.01
650 143 0.03
651 228 0.04
652 345 0.06
653 619 0.11
654 487 0.09
655 371 0.07
656 721 0.13
657 650 0.12
658 173 0.03
659 220 0.04
660 71 0.01
661 42 0.01
662 5 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (652 bp):
TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTT
TGCAAATTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTGCTAAAAACGCGTTCCGGGC
CCCGACTCAGTTTTGCATGATTTTTGGCGTAAAGACTACTTGAAATATCTATATTCATCGAATCA
AATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
TAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTT
GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATTTTTTGGCT
CAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTGGGCTAAAAACGCGTTTCGGGGCCC
CGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
AAAATAAATTCGGAAAAAATGGAAAAAAAATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGG
CG
Found at i:66440 original size:577 final size:566
Alignment explanation
Indices: 65406--66481 Score: 1333
Period size: 577 Copynumber: 1.9 Consensus size: 566
65396 CCAAATCTCT
* *
65406 GCCACATTTGATTTAATGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAGTTAGAAAT
1 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAGTTAGAAAT
* ** ** * *
65471 TGATTCGGAAAAATCAAAAAAACGATATTAGAAGTGTGAAAATCACGTCAACCTTTTTGGCGTTG
66 TAATTCAAAAAAAAAAAAAAAACGATATTAGAAGCGTGAAAAACACGTCAACCTTTTTGGCGTTG
* * *
65536 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAATTGGGTTAGTTTTTAG
131 AATTATATATTTTTTCTGACTATTGTGGCAAAAAATACAGAAAAAAAAATTGGGTCAGTTTTTAG
* * * * * *
65601 GCGAAATCGTGTACTAACAATCACGGTTTTTGCTAAAAACACGTTTCGAGACCCCGACAAAGTTT
196 CCGAAATCGGGTACTAACAATCACGGTTTTGGCTAAAAACACATTTCGAGACACCAACAAAGTTT
** * * * * *
65666 TGCATTTTTTTTGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAAATCTCAGCCACA
261 TGCATGGTTTTGGGCAGAAAAACTCCTTGAAATATCTATATTCACCTAACAAAATCTCAGCCACA
* *
65731 TTGGATTGAAGGATTTGTTTTTATGAGCATCTGAATCATGTTTCGATTTAATTAGAAATAAATTA
326 TTGGATTGAAGGATTTGTTTTTACGAGAATCTGAATCATGTTTCGATTTAATTAGAAATAAATTA
* *
65796 GAAAAAAAAAAGATATTAGAAGCGTGAAAAAGCCTATAATTTTTTTTTTTTTGCGTTGAATTATA
391 GAAAAAAAAAAGATATTAGAAGCGTGAAAAAGCCTATAA----TTTTTTTTGGCGTTAAATTATA
* *
65861 TATTGCTTTT-TGAGTATTGT-GCCAAAGAATTGAGGAAAAATTTTTCAGCTCAATTTTGTATGA
452 TATT--TTTTATGAGTATTGTGGCAAAAAAATTGAGGAAAAATTTTTCAGCTCAATTTTGTATGA
65924 TTTTTGGCGTAAAGACTTCTTAAAATATCTGTCTTCATTGAACCAAAACCCA
515 TTTTTGGCGTAAAGACTTCTTAAAATATCTGTCTTCATTGAACCAAAACCCA
* * * *
65976 GCCATATTGGATTTAAGGATTTGTTTTTACGTGCATCTTAATCTTGTTTCGATTTCA-TTAGAAA
1 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTT-AGTTAGAAA
* * * *
66040 TTAATTTTGACCAAAAAAAAAAAGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTT
65 TTAA--TT---CAAAAAAAAAAA-AAAAACGATATTAGAAGCGTGAAAAACACGTCAACCTTTTT
* * *
66105 GGTC-TTGAATTATAT-TTTTTTCTTACTATTGTGGC-AAAAATAGAGAAAAAAAATTTTCGGGT
124 GG-CGTTGAATTATATATTTTTTCTGACTATTGTGGCAAAAAATACAGAAAAAAAA-ATT-GGGT
* *
66167 CAGTTTTTAGCCGAAATCGGGTACTAA-ACATCACGGTTTTCGGCTAAAAACGCATTTCGGGACA
186 CAGTTTTTAGCCGAAATCGGGTACTAACA-ATCACGGTTTT-GGCTAAAAACACATTTCGAGACA
* ** * * * *
66231 TCAACTCAGTTTTGCATGGTTTTGGGTATAAAAATTCCTTGAAATATCTATATTCACCTATCAAA
249 CCAACAAAGTTTTGCATGGTTTTGGGCAGAAAAACTCCTTGAAATATCTATATTCACCTAACAAA
* * * * *
66296 ATCTCATCCATATTGGATTTAAGGATTTTTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATT
314 ATCTCAGCCACATTGGATTGAAGGATTTGTTTTTACGAGAATCTGAATCATGTTTCGATTTAATT
* *
66361 ATAAATAAATTCGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAAGCCT-TCAA-TTTTTTT
379 AGAAATAAATT-AGAAAAA---AAAAA-GATATTAGAAGCGTGAAAAAGCCTAT-AATTTTTTTT
* *
66424 GGTGTTAAATTATATATTTTTTATGAGTATTGTGGCAAAAAAATTGAGGAAAACTTTT
438 GGCGTTAAATTATATATTTTTTATGAGTATTGTGGCAAAAAAATTGAGGAAAAATTTT
66482 CGTGTCAGTG
Statistics
Matches: 426, Mismatches: 60, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
570 59 0.14
571 1 0.00
572 2 0.00
574 16 0.04
575 33 0.08
576 97 0.23
577 180 0.42
578 6 0.01
581 6 0.01
582 26 0.06
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (566 bp):
GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAGTTAGAAAT
TAATTCAAAAAAAAAAAAAAAACGATATTAGAAGCGTGAAAAACACGTCAACCTTTTTGGCGTTG
AATTATATATTTTTTCTGACTATTGTGGCAAAAAATACAGAAAAAAAAATTGGGTCAGTTTTTAG
CCGAAATCGGGTACTAACAATCACGGTTTTGGCTAAAAACACATTTCGAGACACCAACAAAGTTT
TGCATGGTTTTGGGCAGAAAAACTCCTTGAAATATCTATATTCACCTAACAAAATCTCAGCCACA
TTGGATTGAAGGATTTGTTTTTACGAGAATCTGAATCATGTTTCGATTTAATTAGAAATAAATTA
GAAAAAAAAAAGATATTAGAAGCGTGAAAAAGCCTATAATTTTTTTTGGCGTTAAATTATATATT
TTTTATGAGTATTGTGGCAAAAAAATTGAGGAAAAATTTTTCAGCTCAATTTTGTATGATTTTTG
GCGTAAAGACTTCTTAAAATATCTGTCTTCATTGAACCAAAACCCA
Found at i:66979 original size:314 final size:314
Alignment explanation
Indices: 65909--67808 Score: 1595
Period size: 326 Copynumber: 5.9 Consensus size: 314
65899 AATTTTTCAG
* * * * * * * *
65909 CTCAATTTTGTATGATTTTTGGCGTAAAGACTTCTTAAAATATCTGTCTTCATTGAACCAAAACC
1 CTCAATTTTGCATGATTTTTGGC--AAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * *
65974 CAGCCATATTGGATTTAAGGATTTGTTTTTACGTGCATCTTAATCTTGTTTCGATTTCATTAGAA
64 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * *
66039 ATTAATTTTGACCAAAAAAAAAAAGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAATCTTTT
129 A-TAA--TT---C---AGAAAAAA-AAATA-CATATTAGAAGCGTGAAAAGCCCTTCAATCTTTT
* * * *
66104 TGGTC-TTGAATTATAT-TTTTTTCTTACTATTGTGGC-AAAAATAGAGAAAAAAAATTTTCGGG
183 TGG-CGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAAAA-TTTCGGG
* * * *
66166 TCAGTTTTTAGCCGAAATCGGGTACTAAACATCACGGTTTTCGGCTAAAAACGCATTTCG-GGAC
246 TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGG-C
** *
66230 ATCAA
310 CCCGA
* * * * * * * * * *
66235 CTCAGTTTTGCATGGTTTTGGGTATAAAAATTCCTTGAAATATCTATATTCACCTATCAAAATCT
1 CTCAATTTTGCATGATTTTTGG--CAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * * *
66300 CATCCATATTGGATTTAAGGATTTTTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTATAA
64 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * *
66365 ATAAATTCGGAAAAATGGAAAA-ACGATATTAGAAGCGTGAAAAAG-CCTTCAATTTTTTTGGTG
129 AT-AATTCAGAAAAA---AAAATAC-ATATTAGAAGCGTG-AAAAGCCCTTCAATCTTTTTGGCG
* * ** *
66428 TTAAATTATATATTTTTTATGAGTATTGTGGCAAAAAAATTGAG-GAAAACTTTTCGTGTCAGTG
188 TTGAATTATATATTTTTTATGAGTATTGTGGC-AAAAAATTGAGAAAAAAAATTTCGGGTCA--G
** *
66492 TTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACATGTTCCG-
250 --T------TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGA
66556 GAGCCCCGA
307 G-GCCCCGA
* **
66565 CTCAATTTTGTATGATTTTTGATGCAAAGACTCCTTGAAATATCTATATTCATCGAATGAAATCT
1 CTCAATTTTGCATGATTTTTG--GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * *
66630 CAGGCACATTGGATATTAGGATATGTTTTTACGAGCATCTGAATCTTATTTCGATTTAGTTAGAA
64 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* *
66695 ACTAATTCAGAAAAAAAAATA-ATATTAGAAGCGTGAAAAGCACATCAATCTTTTTGGCGTTGAA
129 A-TAATTCAGAAAAAAAAATACATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTGAA
* * * * * * * *
66759 TTATATATGTTTTCTGAGTATTGTGGCAAAAGATTCAGAAAAAAAAATT-GAGTCACTTTTTAGG
193 TTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGC
* * *
66823 CGAAATCATGTACTAACCATCACGGTTTTT-GCTAAAAACACGTTTCGAGGCCCCAA
258 CGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCCGA
* * *
66879 C-AAAGTTTTGCATGATTTTTGGCAGATAGGA-TCCTTGAAATATCTACATTCATCTAACCAAAT
1 CTCAA-TTTTGCATGATTTTTGGCA-A-A-GACTCCTTGAAATATCTATATTCATCGAACCAAAT
* *
66942 CTCAGCCACATTAGAT-TGAAGGATTTGTTTATACGAGCATCTGAATCTTGTTTCGATTTAATTA
62 CTCAGCCACATTGGATAT-AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * * *
67006 GAAATAAATTCAGAAAAAATGGAAAAATGATATTAGAAGTGT-AAAAACCCTTCAATCTTTTT-G
126 GAAAT-AATTCAGAAAAAA---AAATA-CATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGG
* * * * * * *
67069 CATTAAATTATATA-TTTTTATGAGTATTGTGGCAAAGAATCGAGGAAAAAATTTTCGGGTAAGT
186 CGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGGTCAGT
** * * * * *
67133 TTTT-G-TAAAAT--TTTAGCCGAAATCATTTTATAACGGTTTTTGGCTAAAAACGCG-TTCCAG
251 TTTTAGCCGAAATCGTGTA--C-TAA-C----CATCACGGTTTTTGGCTAAAAACGCGTTTCGAG
*
67193 AGCCCCGG
308 -GCCCCGA
* * * * *
67201 CTTAATTTTGCATGA---TT-------ACTACTTGAAATATCTATATTCATCAAATCAAATATCA
1 CTCAATTTTGCATGATTTTTGGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCA
* *
67256 GCCACGTTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTTTTTTCGATTTAATTAGAAA
66 GCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGAAA
* * * * * *
67321 TTAATTTAGAAAAAATAGAAAAACGATACTGGAAGCGTGAAAACCCCTTCAACCTTTTTGGCGTT
130 -TAATTCAG-AAAAA-A-AAATAC-ATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTT
* *
67386 GAATTGTATATTTTTTATAAGTATTGTGGCAAAAAAATTGAGAAAAAAAAAATATTTCGGGTCAG
190 GAATTATATATTTTTTATGAGTATTGTGGC-AAAAAATTGAG---AAAAAAA-ATTTCGGGTCAG
* * * * * * ***
67451 ATTTTAGACGAAATCGGGTACTTACCATCATGGTTTTTGGCTAAAAAACGCGTTCCGAAATCCCG
250 TTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT-AAAAACGCGTTTCGAGGCCCCG
67516 A
314 A
** * * *
67517 CTCAATTTTTTATTATTTTTGGCACAAAGACTCTTTGAAATATCTATATTCATCGACCCAAATCT
1 CTCAATTTTGCATGATTTTTGG--CAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
*
67582 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
64 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * *
67647 ATTAATTCGGAAAAAATGGAAAAACATTATTAGAAGCGTGAAAAGGCCGTCAATCTTTTTGGCGT
129 A-TAATTCAGAAAAAA---AAATACA-TATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGT
***
67712 TGAATTATAT-TTTTTT-T-AGTATTGTGGCAAAAAATTGAGAAAAAGCTTTTCGGGTCAGTTTT
189 TGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGGTCAGTTTT
* *
67774 TAGCCGAAATCGTGTATGTTA-CATCACGGTTTTTG
254 TAGCCGAAATCGTGTA-CTAACCATCACGGTTTTTG
67809 AGAAGAAAAA
Statistics
Matches: 1276, Mismatches: 208, Indels: 187
0.76 0.12 0.11
Matches are distributed among these distances:
309 1 0.00
310 69 0.05
311 43 0.03
312 27 0.02
313 21 0.02
314 156 0.12
315 66 0.05
316 59 0.05
317 30 0.02
318 28 0.02
319 112 0.09
320 43 0.03
321 28 0.02
322 37 0.03
323 15 0.01
324 14 0.01
325 22 0.02
326 181 0.14
327 79 0.06
328 74 0.06
330 168 0.13
331 2 0.00
332 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (314 bp):
CTCAATTTTGCATGATTTTTGGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCA
GCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAT
AATTCAGAAAAAAAAATACATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTA
TATATTTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCCGA
AATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCCGA
Found at i:67606 original size:638 final size:635
Alignment explanation
Indices: 65974--67774 Score: 2002
Period size: 638 Copynumber: 2.8 Consensus size: 635
65964 AACCAAAACC
* * * * * *
65974 CAGCCATATTGGATTTAAGGATTTGTTTTTACGTGCATCTTAATCTTGTTTCGATTTCATTAGAA
1 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAA
*
66039 ATTAATTTTGACCAAAAAAAAAAAGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAATCTTTT
66 ATTAA-TTT------AGAAAAAAAGAAAAA-GATATTAGAAGCGTGAAAAACCCTTCAATCTTTT
* *
66104 TGGTC-TTGAATTATAT-TTTTTTCTTACTATTGTGGC-AAAAA-TAGAGAAAAAAAAT-TTTCG
123 TGG-CGTTGAATTATATATTTTTTCTAAGTATTGTGGCAAAAAATTAGA-AAAAAAAATATTTCG
* * * * *
66164 GGTCAGTTTTTAGCCGAAATCGGGTACTAAACATCACGGTTTTCGGCTAAAAACGCATTTCGGGA
186 GGTCAGTTTTTAGACGAAATCGGGTACTAACCATCACGGTTTTTGGCTAAAAACGC-GTTC-CGA
* * * * * * * * *
66229 CAT--CAACTCAGTTTTGCATGGTTTTGGGTATAAAAATTCCTTGAAATATCTATATTCACCTAT
249 AATCCCAACTCAATTTTGCATGATTTTTGGCACAAAGA-TCCTTGAAATATCTATATTCATCTAA
* * * * *
66292 CAAAATCTCATCCATATTGGATTTAAGGATTTTTTTTTACGAGAATCTGAATCTTGTTTCGATTT
313 CCAAATCTCAGCCACATTGGA-TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * *
66357 AATTATAAATAAATTCGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAAGCCTTCAATTTTT
377 AATTAGAAATAAATTCGAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAAAGCCTTCAATCTTT
* *
66422 TTGGTGTTAAATTATATATTTTTTATGAGTATTGTGGCAAAAAAATTGAGG-AAAACTTTTCGTG
441 TTGGCGTTAAATTATATA-TTTTTATGAGTATTGTGGC-AAAAAATTGAGGAAAAACTTTTCGGG
* * * *
66486 TCAGTGTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACATG
504 TCAGTTTTTGCAAAATTTTAGCCGAAATCATGTA-T-A-CATAACGGTTTTTGGCTAAAAACACG
* * *
66551 TTCCGGAGCCCCGACTCAATTTTGTATGATTTTTGATGCAAAGACTCCTTGAAATATCTATATTC
566 TTCCAGAGCCCCGACTCAATTTTGCATGA---TT-AT----A-ACTACTTGAAATATCTATATTC
* * *
66616 ATCGAATGAAATCT
622 ATCAAATCAAATAT
* * * *
66630 CAGGCACATTGGATATTAGGATATGTTTTTACGAGCATCTGAATCTTATTTCGATTTAGTTAGAA
1 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAA
* * * * * *
66695 ACTAATTCAG-AAAAAA-AAATA-ATATTAGAAGCGTGAAAAGCACATCAATCTTTTTGGCGTTG
66 ATTAATTTAGAAAAAAAGAAAAAGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTG
* * * * *
66757 AATTATATATGTTTTCTGAGTATTGTGGCAAAAGATTCAG-AAAAAAAA-A-TT-GAGTCACTTT
131 AATTATATATTTTTTCTAAGTATTGTGGCAAAAAATT-AGAAAAAAAAATATTTCGGGTCAGTTT
* ** * * *** *
66818 TTAGGCGAAATCATGTACTAACCATCACGGTTTTT-GCTAAAAACACGTTTCGAGGCCCCAAC-A
195 TTAGACGAAATCGGGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGAAATCCCAACTC
* * *
66881 AAGTTTTGCATGATTTTTGGCAGATAGGATCCTTGAAATATCTACATTCATCTAACCAAATCTCA
260 AA-TTTTGCATGATTTTTGGCACA-AAGATCCTTGAAATATCTATATTCATCTAACCAAATCTCA
* *
66946 GCCACATTAGATTGAAGGATTTGTTTATACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAT
323 GCCACATTGGATT-AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAT
* * *
67011 AAATTCAGAAAAAATGGAAAAATGATATTAGAAGTGT-AAAAACCCTTCAATCTTTTT-GCATTA
387 AAATTC-GAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAAAGCCTTCAATCTTTTTGGCGTTA
* * * * *
67074 AATTATATATTTTTATGAGTATTGTGGCAAAGAATCGAGGAAAAAATTTTCGGGTAAGTTTTTGT
450 AATTATATATTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTTTTGC
* * *
67139 AAAATTTTAGCCGAAATCAT-T-T-TATAACGGTTTTTGGCTAAAAACGCGTTCCAGAGCCCCGG
515 AAAATTTTAGCCGAAATCATGTATACATAACGGTTTTTGGCTAAAAACACGTTCCAGAGCCCCGA
*
67201 CTTAATTTTGCATGA-T-T-ACTACTTGAAATATCTATATTCATCAAATCAAATAT
580 CTCAATTTTGCATGATTATAACTACTTGAAATATCTATATTCATCAAATCAAATAT
* *
67254 CAGCCACGTTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTTTTTTCGATTTAATTAGA
1 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATC-TTATTTCGATTTAATTAGA
* * * *
67319 AATTAATTTAGAAAAAATAGAAAAACGATACTGGAAGCGTGAAAACCCCTTCAACCTTTTTGGCG
65 AATTAATTTAGAAAAAA-AGAAAAA-GATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCG
* *
67384 TTGAATTGTATATTTTTTATAAGTATTGTGGCAAAAAAATTGAGAAAAAAAAAATATTTCGGGTC
128 TTGAATTATATATTTTTTCTAAGTATTGTGGC-AAAAAATT-AG-AAAAAAAAATATTTCGGGTC
* * *
67449 AGATTTTAGACGAAATCGGGTACTTACCATCATGGTTTTTGGCTAAAAAACGCGTTCCGAAATCC
190 AGTTTTTAGACGAAATCGGGTACTAACCATCACGGTTTTTGGCT-AAAAACGCGTTCCGAAATCC
* ** * * * *
67514 CGACTCAATTTTTTATTATTTTTGGCACAAAGACTCTTTGAAATATCTATATTCATCGACCCAAA
254 CAACTCAATTTTGCATGATTTTTGGCACAAAGA-TCCTTGAAATATCTATATTCATCTAACCAAA
*
67579 TCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTA
318 TCTCAGCCACATTGGAT-TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * * *
67644 GAAATTAATTCGGAAAAAATGGAAAAACATTATTAGAAGCGTGAAAAGGCCGTCAATCTTTTTGG
382 GAAATAAATTC-GAAAAAATGGAAAAAGA-TATTAGAAGCGTGAAAAAGCCTTCAATCTTTTTGG
* *
67709 CGTTGAATTATAT-TTTTT-TTAGTATTGTGGCAAAAAATTGA-GAAAAAGCTTTTCGGGTCAGT
445 CGTTAAATTATATATTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAA-CTTTTCGGGTCAGT
67771 TTTT
509 TTTT
67775 AGCCGAAATC
Statistics
Matches: 968, Mismatches: 143, Indels: 86
0.81 0.12 0.07
Matches are distributed among these distances:
624 73 0.08
625 26 0.03
626 5 0.01
627 1 0.00
628 4 0.00
630 61 0.06
631 9 0.01
632 1 0.00
633 8 0.01
634 1 0.00
635 2 0.00
636 84 0.09
637 13 0.01
638 194 0.20
639 26 0.03
640 12 0.01
641 11 0.01
642 59 0.06
643 18 0.02
644 143 0.15
645 111 0.11
646 19 0.02
647 16 0.02
648 7 0.01
649 3 0.00
655 2 0.00
656 59 0.06
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (635 bp):
CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAA
ATTAATTTAGAAAAAAAGAAAAAGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTG
AATTATATATTTTTTCTAAGTATTGTGGCAAAAAATTAGAAAAAAAAATATTTCGGGTCAGTTTT
TAGACGAAATCGGGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGAAATCCCAACTCA
ATTTTGCATGATTTTTGGCACAAAGATCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCC
ACATTGGATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAAT
TCGAAAAAATGGAAAAAGATATTAGAAGCGTGAAAAAGCCTTCAATCTTTTTGGCGTTAAATTAT
ATATTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTTTTGCAAAATT
TTAGCCGAAATCATGTATACATAACGGTTTTTGGCTAAAAACACGTTCCAGAGCCCCGACTCAAT
TTTGCATGATTATAACTACTTGAAATATCTATATTCATCAAATCAAATAT
Found at i:69302 original size:224 final size:227
Alignment explanation
Indices: 68908--69366 Score: 852
Period size: 224 Copynumber: 2.0 Consensus size: 227
68898 TCTAGTCTAG
68908 TCTATAAAGAGTTGGTTGCGAACCATCTTTATATATGCTTTCAACTAGAAATAGACTATAAAAGC
1 TCTATAAAGAGTTGGTTGCGAACCATC-TTATATATGCTTTCAACTAGAAATAGACTATAAAAGC
*
68973 ATTTTCTAAGAAGGAAGAAGAAGGCATCTAAGTTCCTTCAACACAAAAGGAAAGGCTTCAATTTC
65 ATTTTATAAGAAGGAAGAAGAAGGCATCTAAGTTCCTTCAACACAAAAGGAAAGGCTTCAATTTC
* *
69038 AAGCCATGTCAACCAAGCCAGTAACTCTAATTCTTTATCAAAATTCTATGTCAATGTTCTATTCT
130 AAGCCATATCAACCAAGCCAATAACTCTAATTCTTTATCAAAATTCTATGTCAATGTTCTATTCT
69103 TCAGACATGATTAAAGATTTTAGTTTACATTAA
195 TCAGACATGATTAAAGATTTTAGTTTACATTAA
69136 TCTATAAAGAGTTGGTTGCGAACCATC-T-T-TATGCTTTCAACTAGAAATAGACTATAAAAGCA
1 TCTATAAAGAGTTGGTTGCGAACCATCTTATATATGCTTTCAACTAGAAATAGACTATAAAAGCA
*
69198 TTTTATAAGAAGGAAGAAGAAGGCATCTAAGTTCCTTCAACACAAAAGGAAAGGCTTCAATTTCC
66 TTTTATAAGAAGGAAGAAGAAGGCATCTAAGTTCCTTCAACACAAAAGGAAAGGCTTCAATTTCA
69263 AGCCATATCAACCAAGCCAATAACTCTAATTCTTTATCAAAATTCTATGTCAATGTTCTATTCTT
131 AGCCATATCAACCAAGCCAATAACTCTAATTCTTTATCAAAATTCTATGTCAATGTTCTATTCTT
69328 CAGACATGATTAAAGATTTTAGTTTACATTAA
196 CAGACATGATTAAAGATTTTAGTTTACATTAA
69360 TCTATAA
1 TCTATAA
69367 GATAGAAAAA
Statistics
Matches: 227, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
224 198 0.87
225 1 0.00
226 1 0.00
228 27 0.12
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (227 bp):
TCTATAAAGAGTTGGTTGCGAACCATCTTATATATGCTTTCAACTAGAAATAGACTATAAAAGCA
TTTTATAAGAAGGAAGAAGAAGGCATCTAAGTTCCTTCAACACAAAAGGAAAGGCTTCAATTTCA
AGCCATATCAACCAAGCCAATAACTCTAATTCTTTATCAAAATTCTATGTCAATGTTCTATTCTT
CAGACATGATTAAAGATTTTAGTTTACATTAA
Found at i:76159 original size:1 final size:1
Alignment explanation
Indices: 76153--76182 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
76143 AACTCCTATG
76153 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
76183 CTTATGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:77756 original size:27 final size:26
Alignment explanation
Indices: 77726--77783 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
77716 CAAAATAAAA
*
77726 AGTTTTTGACAAGTTGCAATACTGAAT
1 AGTTTTTGA-AAGATGCAATACTGAAT
* *
77753 AGTTTTTTGATAGATGCAATATTGAAT
1 AG-TTTTTGAAAGATGCAATACTGAAT
77780 AGTT
1 AGTT
77784 AATGTCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 18 0.67
28 7 0.26
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (26 bp):
AGTTTTTGAAAGATGCAATACTGAAT
Found at i:80323 original size:13 final size:13
Alignment explanation
Indices: 80302--80339 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
80292 TTCTTTTTTA
*
80302 AGAACAAAAAAAG
1 AGAAAAAAAAAAG
80315 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
80328 A-ACAAAAAAAAA
1 AGA-AAAAAAAAA
80340 CCCAGAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 1 0.04
13 22 0.96
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:81532 original size:15 final size:15
Alignment explanation
Indices: 81512--81541 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
81502 AAGATCTATA
81512 TTTTCAAAATACTTT
1 TTTTCAAAATACTTT
81527 TTTTCAAAATACTTT
1 TTTTCAAAATACTTT
81542 GAAACATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTCAAAATACTTT
Found at i:90477 original size:34 final size:35
Alignment explanation
Indices: 90404--90477 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
90394 AGTTCGTTTA
*
90404 TGTTCACGAACAGACTCGTTTATTATTCATTTAAG
1 TGTTCACGAACAAACTCGTTTATTATTCATTTAAG
*
90439 TGTTCACGAACAAACTCGTTTATTGTTCA-TTAAG
1 TGTTCACGAACAAACTCGTTTATTATTCATTTAAG
90473 TGTTC
1 TGTTC
90478 GTTTATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
34 10 0.27
35 27 0.73
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (35 bp):
TGTTCACGAACAAACTCGTTTATTATTCATTTAAG
Found at i:90542 original size:16 final size:16
Alignment explanation
Indices: 90521--90552 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90511 TATAATTATT
90521 TATATATTAATAATAA
1 TATATATTAATAATAA
*
90537 TATATATTATTAATAA
1 TATATATTAATAATAA
90553 AAATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATTAATAATAA
Found at i:90547 original size:19 final size:19
Alignment explanation
Indices: 90505--90552 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
90495 GAACGTTCAT
* *
90505 TTATTATATAATTATTTATA
1 TTATTA-ATAATAATATATA
90525 -TATTAATAATAATATATA
1 TTATTAATAATAATATATA
90543 TTATTAATAA
1 TTATTAATAA
90553 AAATTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTAATAATAATATATA
Found at i:90713 original size:18 final size:18
Alignment explanation
Indices: 90686--90720 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90676 AATTATTACA
90686 TTGTTCATGAACAATTTT
1 TTGTTCATGAACAATTTT
*
90704 TTGTTTATGAACAATTT
1 TTGTTCATGAACAATTT
90721 CAATTTTTGT
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:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (18 bp):
TTGTTCATGAACAATTTT
Found at i:120381 original size:26 final size:26
Alignment explanation
Indices: 120345--120396 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
120335 TTTTTTTCCT
120345 TTCTTATTCTGCCATTTCAATCTTCA
1 TTCTTATTCTGCCATTTCAATCTTCA
120371 TTCTTATTCTGCCATTTCAATCTTCA
1 TTCTTATTCTGCCATTTCAATCTTCA
120397 AACACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.27, G:0.04, T:0.50
Consensus pattern (26 bp):
TTCTTATTCTGCCATTTCAATCTTCA
Found at i:165408 original size:45 final size:45
Alignment explanation
Indices: 165342--165431 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
165332 TGGGGTTACA
* *
165342 GATCTCTGTCCTAAATGTAGAATATCTAGAGCTT-ATTTCAGATTC
1 GATCTCTGTCCTAAATATAGAATATCTAGAG-TTAATTGCAGATTC
*
165387 GATCTGTGTCCTAAATATAGAATATCTAGAGTTAATTGCAGATTC
1 GATCTCTGTCCTAAATATAGAATATCTAGAGTTAATTGCAGATTC
165432 ATTACTCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.05
45 39 0.95
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (45 bp):
GATCTCTGTCCTAAATATAGAATATCTAGAGTTAATTGCAGATTC
Found at i:169578 original size:24 final size:21
Alignment explanation
Indices: 169551--169690 Score: 136
Period size: 21 Copynumber: 6.2 Consensus size: 21
169541 TGTCCCAATT
169551 TACAAACCCCCACCGGTTCCAGTC
1 TACAAACCCCCA---GTTCCAGTC
* *
169575 TACAAACCTCCAGTTCCAATC
1 TACAAACCCCCAGTTCCAGTC
169596 TACAAACCCCCAGTTCCAGTC
1 TACAAACCCCCAGTTCCAGTC
* *
169617 TACAAGCCTCCTCCAGTTCCAGTG
1 TACAA-AC-CC-CCAGTTCCAGTC
* *
169641 TACAAACCTCCAGTTCCAGTA
1 TACAAACCCCCAGTTCCAGTC
*
169662 TACAAGCCTCCCCCAGTTCCAGTC
1 TACAA---ACCCCCAGTTCCAGTC
169686 TACAA
1 TACAA
169691 GAAACCAAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
21 48 0.49
22 2 0.02
23 3 0.03
24 45 0.46
ACGTcount: A:0.28, C:0.40, G:0.11, T:0.21
Consensus pattern (21 bp):
TACAAACCCCCAGTTCCAGTC
Found at i:169592 original size:21 final size:21
Alignment explanation
Indices: 169566--169690 Score: 142
Period size: 21 Copynumber: 5.7 Consensus size: 21
169556 ACCCCCACCG
169566 GTTCCAGTCTACAAACCTCCA
1 GTTCCAGTCTACAAACCTCCA
* *
169587 GTTCCAATCTACAAACCCCCA
1 GTTCCAGTCTACAAACCTCCA
*
169608 GTTCCAGTCTACAAGCCTCCTCCA
1 GTTCCAGTCTACAA---ACCTCCA
*
169632 GTTCCAGTGTACAAACCTCCA
1 GTTCCAGTCTACAAACCTCCA
* *
169653 GTTCCAGTATACAAGCCTCCCCCA
1 GTTCCAGTCTACAAACCT---CCA
169677 GTTCCAGTCTACAA
1 GTTCCAGTCTACAA
169691 GAAACCAAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
21 54 0.61
24 34 0.39
ACGTcount: A:0.27, C:0.38, G:0.11, T:0.23
Consensus pattern (21 bp):
GTTCCAGTCTACAAACCTCCA
Found at i:169600 original size:45 final size:42
Alignment explanation
Indices: 169545--169690 Score: 139
Period size: 45 Copynumber: 3.3 Consensus size: 42
169535 TCCACCTGTC
*
169545 CCAATTTACAAACCCCCACCGGTTCCAGTCTACAAACCTCCAGTT
1 CCAATCTACAAACCCCCA---GTTCCAGTCTACAAACCTCCAGTT
*
169590 CCAATCTACAAACCCCCAGTTCCAGTCTACAAGCCTCCTCCAGTT
1 CCAATCTACAAACCCCCAGTTCCAGTCTACAA---ACCTCCAGTT
* * * * *
169635 CCAGTGTACAAACCTCCAGTTCCAGTATACAAGCCTCCCCCAGTT
1 CCAATCTACAAACCCCCAGTTCCAGTCTACAAACCT---CCAGTT
*
169680 CCAGTCTACAA
1 CCAATCTACAA
169691 GAAACCAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
42 17 0.20
45 70 0.80
ACGTcount: A:0.28, C:0.40, G:0.10, T:0.22
Consensus pattern (42 bp):
CCAATCTACAAACCCCCAGTTCCAGTCTACAAACCTCCAGTT
Found at i:169711 original size:33 final size:33
Alignment explanation
Indices: 169668--169783 Score: 142
Period size: 33 Copynumber: 3.8 Consensus size: 33
169658 AGTATACAAG
*
169668 CCTCCCCCAGTTCCAGTCTACAAGAAACCAAAT
1 CCTCCTCCAGTTCCAGTCTACAAGAAACCAAAT
169701 CCTCCTCCAGTTCCAGTCTACAAG---------
1 CCTCCTCCAGTTCCAGTCTACAAGAAACCAAAT
169725 CCTCCTCCAGTTCCAGTCTACAAGAAACCAAAT
1 CCTCCTCCAGTTCCAGTCTACAAGAAACCAAAT
* *
169758 CCTCCTCCAGTGCCAGTATACAAGAA
1 CCTCCTCCAGTTCCAGTCTACAAGAA
169784 GCCACCACTT
Statistics
Matches: 71, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
24 24 0.34
33 47 0.66
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.21
Consensus pattern (33 bp):
CCTCCTCCAGTTCCAGTCTACAAGAAACCAAAT
Found at i:169730 original size:24 final size:24
Alignment explanation
Indices: 169701--169748 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
169691 GAAACCAAAT
169701 CCTCCTCCAGTTCCAGTCTACAAG
1 CCTCCTCCAGTTCCAGTCTACAAG
169725 CCTCCTCCAGTTCCAGTCTACAAG
1 CCTCCTCCAGTTCCAGTCTACAAG
169749 AAACCAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.42, G:0.12, T:0.25
Consensus pattern (24 bp):
CCTCCTCCAGTTCCAGTCTACAAG
Found at i:169735 original size:57 final size:57
Alignment explanation
Indices: 169647--169781 Score: 243
Period size: 57 Copynumber: 2.4 Consensus size: 57
169637 AGTGTACAAA
169647 CCTCCAGTTCCAGTATACAAGCCTCCCCCAGTTCCAGTCTACAAGAAACCAAATCCT
1 CCTCCAGTTCCAGTATACAAGCCTCCCCCAGTTCCAGTCTACAAGAAACCAAATCCT
* *
169704 CCTCCAGTTCCAGTCTACAAGCCTCCTCCAGTTCCAGTCTACAAGAAACCAAATCCT
1 CCTCCAGTTCCAGTATACAAGCCTCCCCCAGTTCCAGTCTACAAGAAACCAAATCCT
*
169761 CCTCCAGTGCCAGTATACAAG
1 CCTCCAGTTCCAGTATACAAG
169782 AAGCCACCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.29, C:0.38, G:0.12, T:0.21
Consensus pattern (57 bp):
CCTCCAGTTCCAGTATACAAGCCTCCCCCAGTTCCAGTCTACAAGAAACCAAATCCT
Found at i:169869 original size:21 final size:21
Alignment explanation
Indices: 169815--169888 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
169805 ATATAAGCCC
169815 CCTCCAGTTCCAGTCTACAAG
1 CCTCCAGTTCCAGTCTACAAG
* *
169836 AAACCTCCTGTTCCAGTGTACAAG
1 ---CCTCCAGTTCCAGTCTACAAG
*
169860 CCTCCAGTTCCTGTCTACAAG
1 CCTCCAGTTCCAGTCTACAAG
*
169881 CCACCAGT
1 CCTCCAGT
169889 GTACGAGCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 25 0.57
24 19 0.43
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.24
Consensus pattern (21 bp):
CCTCCAGTTCCAGTCTACAAG
Found at i:169978 original size:18 final size:18
Alignment explanation
Indices: 169957--169992 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
169947 TACAAGCCAC
169957 TTCCTCCACTT-CCCAAGA
1 TTCCTCCA-TTCCCCAAGA
169975 TTCCTCCATTCCCCAAGA
1 TTCCTCCATTCCCCAAGA
169993 AGCCATGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.22, C:0.44, G:0.06, T:0.28
Consensus pattern (18 bp):
TTCCTCCATTCCCCAAGA
Found at i:170043 original size:45 final size:45
Alignment explanation
Indices: 169989--170126 Score: 258
Period size: 45 Copynumber: 3.1 Consensus size: 45
169979 TCCATTCCCC
*
169989 AAGAAGCCATGCCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
1 AAGAAGCCATGTCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
*
170034 AAGACGCCATGTCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
1 AAGAAGCCATGTCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
170079 AAGAAGCCATGTCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
1 AAGAAGCCATGTCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
170124 AAG
1 AAG
170127 TATTTCCACC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.28
Consensus pattern (45 bp):
AAGAAGCCATGTCCTCCTCTTCCTAAGCTTCCTCCTCTGCCTCCA
Found at i:170048 original size:24 final size:24
Alignment explanation
Indices: 170021--170094 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
170011 CTAAGCTTCC
170021 TCCTCTGCCTCCAAAGACGCCATG
1 TCCTCTGCCTCCAAAGACGCCATG
* * *
170045 TCCTCCT-CTTCCTAAG-CTTCC---
1 TCCT-CTGCCTCCAAAGAC-GCCATG
*
170066 TCCTCTGCCTCCAAAGAAGCCATG
1 TCCTCTGCCTCCAAAGACGCCATG
170090 TCCTC
1 TCCTC
170095 CTCTTCCTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
20 2 0.06
21 13 0.36
23 1 0.03
24 18 0.50
25 2 0.06
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.27
Consensus pattern (24 bp):
TCCTCTGCCTCCAAAGACGCCATG
Found at i:170048 original size:27 final size:26
Alignment explanation
Indices: 170018--170098 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
170008 TTCCTAAGCT
170018 TCCTCCTCTGCCTCCAAAGACGCCATG
1 TCCTCCTCTGCCTCCAAAGA-GCCATG
*
170045 TCCTCCTCT---TCC-TA-AG-C-T-
1 TCCTCCTCTGCCTCCAAAGAGCCATG
170063 TCCTCCTCTGCCTCCAAAGAAGCCATG
1 TCCTCCTCTGCCTCCAAAG-AGCCATG
170090 TCCTCCTCT
1 TCCTCCTCT
170099 TCCTAAGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
18 9 0.21
19 1 0.02
20 1 0.02
21 4 0.09
22 2 0.05
23 1 0.02
24 5 0.12
25 1 0.02
26 1 0.02
27 18 0.42
ACGTcount: A:0.16, C:0.44, G:0.11, T:0.28
Consensus pattern (26 bp):
TCCTCCTCTGCCTCCAAAGAGCCATG
Found at i:172678 original size:102 final size:102
Alignment explanation
Indices: 172502--172709 Score: 398
Period size: 102 Copynumber: 2.0 Consensus size: 102
172492 GGATATTTGA
*
172502 ATAAAACGATGATAGACAGATATATTGACAGATATTCGGTGACATTGAAATTTTTTTTACGTATT
1 ATAAAACGATGATAGACAGATATATTGACAGATATTCGATGACATTGAAATTTTTTTTACGTATT
172567 TATATCGAGAGGGGTACAGATGTCCATGGTAAAAGGC
66 TATATCGAGAGGGGTACAGATGTCCATGGTAAAAGGC
172604 ATAAAACGATGATAGACAGATATATTGACAGATATTCGATGACATTGAAATTTTTTTTACGTATT
1 ATAAAACGATGATAGACAGATATATTGACAGATATTCGATGACATTGAAATTTTTTTTACGTATT
*
172669 TATATCGAGAGGGGTACAGATGTCGATGGTAAAAGGC
66 TATATCGAGAGGGGTACAGATGTCCATGGTAAAAGGC
172706 ATAA
1 ATAA
172710 TATATATATC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (102 bp):
ATAAAACGATGATAGACAGATATATTGACAGATATTCGATGACATTGAAATTTTTTTTACGTATT
TATATCGAGAGGGGTACAGATGTCCATGGTAAAAGGC
Found at i:174370 original size:17 final size:15
Alignment explanation
Indices: 174350--174401 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
174340 ATTAATTAAA
174350 AAATATACATATATAT
1 AAATA-ACATATATAT
*
174366 CAAATAA-TTATATAT
1 -AAATAACATATATAT
*
174381 ATATAACATATATAT
1 AAATAACATATATAT
174396 AAATAA
1 AAATAA
174402 TTATCTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
15 19 0.63
16 1 0.03
17 5 0.17
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATAACATATATAT
Found at i:174379 original size:15 final size:14
Alignment explanation
Indices: 174359--174415 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
174349 AAAATATACA
174359 TATATATCAAATAAT
1 TATATAT-AAATAAT
* *
174374 TATATATATATAACA
1 TATATATAAATAA-T
174389 TATATATAAATAAT
1 TATATATAAATAAT
*
174403 TATCTATATAATA
1 TATATATA-AATA
174416 GTCCAAGTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.34
15 23 0.66
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATATAAATAAT
Found at i:174399 original size:29 final size:29
Alignment explanation
Indices: 174352--174412 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
174342 TAATTAAAAA
174352 ATATACATATATATCAAATAATTATATAT
1 ATATACATATATATCAAATAATTATATAT
*
174381 ATATAACATATATAT-AAATAATTATCTAT
1 ATAT-ACATATATATCAAATAATTATATAT
174410 ATA
1 ATA
174413 ATAGTCCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
ATATACATATATATCAAATAATTATATAT
Done.