Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold384
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: 138936
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:324 original size:69 final size:69
Alignment explanation
Indices: 159--322 Score: 289
Period size: 69 Copynumber: 2.4 Consensus size: 69
149 TAATTTTTTT
159 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCTTCATTTTTATA
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCTTCATTTTTATA
224 TTCC
66 TTCC
228 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCA-TTTT-T
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATG-CTTCATTTTTAT
291 A-TCC
65 ATTCC
*
295 ATTCCCATCATTCCATGCCTTCATTTTT
1 ATGCCCATCATTCCATGCCTTCATTTTT
323 TTTTTTTTGA
Statistics
Matches: 93, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
67 30 0.32
68 2 0.02
69 56 0.60
70 5 0.05
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (69 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCTTCATTTTTATA
TTCC
Found at i:325 original size:35 final size:35
Alignment explanation
Indices: 159--322 Score: 291
Period size: 35 Copynumber: 4.8 Consensus size: 35
149 TAATTTTTTT
159 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
194 ATGCCCATCATTCCATG-CTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
228 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
263 ATGCCCATCATTCCATGCCTTCA-TTTT-TA-TCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
295 ATTCCCATCATTCCATGCCTTCATTTTT
1 ATGCCCATCATTCCATGCCTTCATTTTT
323 TTTTTTTTGA
Statistics
Matches: 126, Mismatches: 1, Indels: 6
0.95 0.01 0.05
Matches are distributed among these distances:
32 25 0.20
33 6 0.05
34 38 0.30
35 57 0.45
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:5797 original size:20 final size:20
Alignment explanation
Indices: 5750--5821 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
5740 AAAAAGACAG
* * *
5750 AATGTATCGATATATTGAAG
1 AATGTATCGATACATTAAAA
* * *
5770 AATATATCGATACATTCATA
1 AATGTATCGATACATTAAAA
*
5790 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
5810 AATGTATCGATA
1 AATGTATCGATA
5822 TATCTGGGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:6775 original size:33 final size:32
Alignment explanation
Indices: 6737--6802 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
6727 CATTGGGTTT
*
6737 AGAAGGGATAATACCAACTTGTGTGGCCTTTAG
1 AGAA-GGATAACACCAACTTGTGTGGCCTTTAG
* ** *
6770 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGATAACACCAACTTGTGTGGCCTTTAG
6802 A
1 A
6803 AGGGTTACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (32 bp):
AGAAGGATAACACCAACTTGTGTGGCCTTTAG
Found at i:6852 original size:28 final size:28
Alignment explanation
Indices: 6790--7451 Score: 474
Period size: 28 Copynumber: 23.5 Consensus size: 28
6780 CACCAACTTG
* * *
6790 TGTGGGCTTTAGAAGGGTTACCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
6819 TATGGGCTTTAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
6847 TGTGGGCTTCAAAAAGG-TGCCACTAACT
1 TGTGGGCTT-TGAAAGGATGCCACTGACT
* * * *
6875 TGTAGGCTTCGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
6903 TATGGGCTTTGAAAGAGGTTGCCACCGACT
1 TGTGGGCTTTG-AA-AGGATGCCACTGACT
* *
6933 TGTGTGGGTTTCGAAAGGGTGCCACTGACT
1 TGTG-GGCTTT-GAAAGGATGCCACTGACT
* *
6963 TGTGGGTTTTTAAAAGG-TGCCACTGACT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
*
6991 TATGGGCTTTTGAAAGGATG---CT-AC-
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
7015 --TGGGCTTTTGAAAGGATGCCACT-A--
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
7039 ----GGCTTTTGAAAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
7064 CGTGGGGTTTTGAAAGGATGCCATTGACT
1 TGT-GGGCTTTGAAAGGATGCCACTGACT
*
7093 CGTGGGCTTTTGAAAAGGATGCCACTGACT
1 TGTGGGC-TTTG-AAAGGATGCCACTGACT
* * *
7123 CGTGGGCTTTGAAAGGGTGCCACTTACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
7151 TGTGGGCTTTGAAAGAGGTTGCCACCGACTT
1 TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* *
7182 GTGTGGGCTTTGAAAGGGTGCCACTGATT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
7211 TGTGGGCTTTTAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
7239 TATGGGCTTTGAAAGGGTGCTACTGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
7267 CGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* ** * * *
7296 CGTGGAATTTGGAAGAATGCCACTTACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
7324 TATGGGCTTTAAAAGGGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
7352 CGTGGGCTTTTGAAAAGATACCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
** * * *
7381 CATGGGCTTTGGAAGAATGCCACTCACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
7409 TGTGGGCTTTAAAAGAGGTGTCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
7438 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
7452 AAGGGTCGTA
Statistics
Matches: 512, Mismatches: 92, Indels: 58
0.77 0.14 0.09
Matches are distributed among these distances:
22 38 0.07
23 1 0.00
25 5 0.01
26 2 0.00
27 5 0.01
28 230 0.45
29 125 0.24
30 84 0.16
31 10 0.02
32 12 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:6957 original size:88 final size:87
Alignment explanation
Indices: 6790--7423 Score: 415
Period size: 85 Copynumber: 7.5 Consensus size: 87
6780 CACCAACTTG
* *
6790 TGTGGGCTTT-AGAAGGGTTACCACTGACTTATGGGCTTT-AAAAGGATGCCACTGA-TT-TGTG
1 TGTGGGCTTTGA-AAGGG-TGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTG
* * * *
6851 GGCTTCAAAAAGGTGCCACTAACT
64 GGTTTCGAAAGGGTGCCACTGACT
* * * *
6875 TGTAGGCTTCGAAAGGGTGCCACCGACTTATGGGCTTTGAAAGAGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAA-AGGATGCCACCGACTTGTGTGG
6940 GTTTCGAAAGGGTGCCACTGACT
65 GTTTCGAAAGGGTGCCACTGACT
* * * *
6963 TGTGGGTTTTTAAAAGGTGCCACTGACTTATGGGCTTTTG-AAAGGATG----CTAC---TG-GG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGC-TTTGAAAAGGATGCCACCGACTTGTGTGG
* * *
7019 CTTTTGAAAGGATGCCACT-A--
65 GTTTCGAAAGGGTGCCACTGACT
* ** * ** *
7039 ----GGCTTTTGAAAGGTTGCCACTGACTCGTGGGGTTTTG-AAAGGATGCCATTGACTCGTG-G
1 TGTGGGC-TTTGAAAGGGTGCCACTGACTTAT-GGGCTTTGAAAAGGATGCCACCGACTTGTGTG
* * *
7098 GCTTTTGAAAAGGATGCCACTGACT
64 GGTTTCG-AAAGGGTGCCACTGACT
* * * *
7123 CGTGGGCTTTGAAAGGGTGCCACTTACTTGTGGGCTTTGAAAGAGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAA-AGGATGCCACCGACTTGTGTGG
*
7188 GCTTT-GAAAGGGTGCCACTGATT
65 G-TTTCGAAAGGGTGCCACTGACT
* * * * * * *
7211 TGTGGGCTTTTAAAGGGTGCCACTGACTTATGGGCTTTG-AAAGGGTGCTACTGAATCGTG-GGC
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTGGG
* *
7274 TTTTGAAAGGATGCCACTGACT
66 TTTCGAAAGGGTGCCACTGACT
* ** * ** * * * * * *
7296 CGTGGAATTTGGAAGAATGCCACTTACTTATGGGCTTT-AAAAGGGTGCCACTGAATCGTG-GGC
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTGGG
* * * *
7359 TTTTGAAAAGATACCACTGACT
66 TTTCGAAAGGGTGCCACTGACT
** * ** * *
7381 CATGGGCTTTGGAAGAATGCCACTCACTTGTGGGCTTT-AAAAG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAG
7424 AGGTGTCATT
Statistics
Matches: 451, Mismatches: 69, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
72 2 0.00
73 31 0.07
74 3 0.01
77 2 0.00
78 1 0.00
79 18 0.04
80 12 0.03
81 13 0.03
82 1 0.00
83 3 0.01
84 22 0.05
85 145 0.32
86 33 0.07
87 32 0.07
88 123 0.27
89 7 0.02
90 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (87 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTGGG
TTTCGAAAGGGTGCCACTGACT
Found at i:7021 original size:22 final size:22
Alignment explanation
Indices: 6993--7060 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
6983 CACTGACTTA
*
6993 TGGGCTTTTGAAAGGATGCTAC
1 TGGGCTTTTGAAAGGATGCCAC
7015 TGGGCTTTTGAAAGGATGCCAC
1 TGGGCTTTTGAAAGGATGCCAC
* *
7037 TAGGCTTTTGAAAGGTTGCCAC
1 TGGGCTTTTGAAAGGATGCCAC
7059 TG
1 TG
7061 ACTCGTGGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (22 bp):
TGGGCTTTTGAAAGGATGCCAC
Found at i:7513 original size:13 final size:13
Alignment explanation
Indices: 7468--7534 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
7458 CGTATTGATG
*
7468 AAAATTTCTTGAC
1 AAAAGTTCTTGAC
7481 -AAAGTT-TTGAC
1 AAAAGTTCTTGAC
*
7492 AAACA-TTCTCGAC
1 AAA-AGTTCTTGAC
7505 AAAAGTTCTTGA-
1 AAAAGTTCTTGAC
*
7517 AGATAATTTCTTGAC
1 A-A-AAGTTCTTGAC
7532 AAA
1 AAA
7535 TGGAAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 5 0.12
12 11 0.26
13 16 0.37
14 10 0.23
15 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
AAAAGTTCTTGAC
Found at i:8524 original size:12 final size:12
Alignment explanation
Indices: 8509--8543 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8499 TTCTTTTTTA
8509 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
8521 TTTTTTTTTGGT
1 TTTTTTTTTGTT
*
8533 TTTTGTTTTGT
1 TTTTTTTTTGT
8544 ACGAAGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:8527 original size:13 final size:13
Alignment explanation
Indices: 8509--8541 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8499 TTCTTTTTTA
8509 TTTTTTTTT-GTT
1 TTTTTTTTTGGTT
8521 TTTTTTTTTGGTT
1 TTTTTTTTTGGTT
*
8534 TTTGTTTT
1 TTTTTTTT
8542 GTACGAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTGGTT
Found at i:12767 original size:13 final size:13
Alignment explanation
Indices: 12749--12775 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12739 TACTCAAATG
12749 TATCGATACATTA
1 TATCGATACATTA
12762 TATCGATACATTA
1 TATCGATACATTA
12775 T
1 T
12776 TCAATGTATC
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:17817 original size:15 final size:15
Alignment explanation
Indices: 17778--17818 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
17768 GTGTATTGAC
17778 GATTTTGTGGTGGAT
1 GATTTTGTGGTGGAT
* **
17793 AATTAGGTGGTGGAT
1 GATTTTGTGGTGGAT
17808 GATTTTGTGGT
1 GATTTTGTGGT
17819 AGATTTGGCA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (15 bp):
GATTTTGTGGTGGAT
Found at i:25734 original size:20 final size:20
Alignment explanation
Indices: 25706--25762 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
25696 GTAAAAAGAC
*
25706 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTAA
* *
25726 TACATGTATCGATACATTAA
1 AAAATGTATCGATACATTAA
25746 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
25763 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTAA
Found at i:26959 original size:103 final size:103
Alignment explanation
Indices: 26827--27035 Score: 409
Period size: 103 Copynumber: 2.0 Consensus size: 103
26817 AGTTGCCACC
*
26827 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAATTTATCCTTTTTATAAAATTTTAAAAT
1 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
26892 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
66 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
26930 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
1 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
26995 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
66 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
27033 AAT
1 AAT
27036 GAAGTTGGGT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (103 bp):
AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
Found at i:27750 original size:21 final size:21
Alignment explanation
Indices: 27725--27764 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27715 ATTAAATGAC
*
27725 ATGTTTGTTAACAATAAATTA
1 ATGTTTATTAACAATAAATTA
*
27746 ATGTTTATTAATAATAAAT
1 ATGTTTATTAACAATAAAT
27765 ATATTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
ATGTTTATTAACAATAAATTA
Found at i:28776 original size:3 final size:3
Alignment explanation
Indices: 28768--28805 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
28758 TATAAAAATT
28768 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
28806 TTTCATAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:29474 original size:16 final size:15
Alignment explanation
Indices: 29457--29540 Score: 73
Period size: 14 Copynumber: 5.5 Consensus size: 15
29447 AATTACTTTC
29457 TTGCAATTTTATTTT
1 TTGCAATTTTATTTT
*
29472 CTTGCAATGTTTAATTT
1 -TTGCAAT-TTTATTTT
*
29489 ATGCAA-TTTATTTT
1 TTGCAATTTTATTTT
* *
29503 TTGCAATTTAAATTT
1 TTGCAATTTTATTTT
* *
29518 ATGTAA-TTTATTTT
1 TTGCAATTTTATTTT
29532 CTTGCAATT
1 -TTGCAATT
29541 CATTTCTTCG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
14 18 0.35
15 14 0.27
16 13 0.25
17 7 0.13
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.57
Consensus pattern (15 bp):
TTGCAATTTTATTTT
Found at i:29488 original size:46 final size:46
Alignment explanation
Indices: 29418--29511 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 46
29408 CATATACTAA
29418 TTTATTTTCTGGAAATTTTCAATTTACGCAA-TTACTTTCTTGCAAT
1 TTTATTTTCTGGAAATTTTCAATTTACGCAATTTA-TTTCTTGCAAT
* * * *
29464 TTTATTTTCTTGCAATGTTT-AATTTATGCAATTTATTTTTTGCAAT
1 TTTATTTTCTGGAAAT-TTTCAATTTACGCAATTTATTTCTTGCAAT
29510 TT
1 TT
29512 AAATTTATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 36 0.86
47 6 0.14
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (46 bp):
TTTATTTTCTGGAAATTTTCAATTTACGCAATTTATTTCTTGCAAT
Found at i:29520 original size:29 final size:30
Alignment explanation
Indices: 29458--29540 Score: 123
Period size: 29 Copynumber: 2.7 Consensus size: 30
29448 ATTACTTTCT
*
29458 TGCAATTTTATTTTCTTGCAATGTTTAATTTA
1 TGCAA-TTTATTTTCTTGCAAT-TTAAATTTA
29490 TGCAATTTATTTT-TTGCAATTTAAATTTA
1 TGCAATTTATTTTCTTGCAATTTAAATTTA
*
29519 TGTAATTTATTTTCTTGCAATT
1 TGCAATTTATTTTCTTGCAATT
29541 CATTTCTTCG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 20 0.42
30 15 0.31
31 8 0.17
32 5 0.10
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (30 bp):
TGCAATTTATTTTCTTGCAATTTAAATTTA
Found at i:29558 original size:45 final size:45
Alignment explanation
Indices: 29490--29586 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
29480 GTTTAATTTA
* * *
29490 TGCAATTTATTTTTTGCAATTTAAATTTATGTAATTTA-TTTTCT
1 TGCAATTCATTTTTCGCAATTTAAATTTATGCAATTTACTTTTCT
* * *
29534 TGCAATTCATTTCTTCGTAATTTAAATTTATGCACTTTACTTTTTT
1 TGCAATTCATTT-TTCGCAATTTAAATTTATGCAATTTACTTTTCT
29580 TGCAATT
1 TGCAATT
29587 TAATCTATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 11 0.24
45 22 0.49
46 12 0.27
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (45 bp):
TGCAATTCATTTTTCGCAATTTAAATTTATGCAATTTACTTTTCT
Found at i:29705 original size:2 final size:2
Alignment explanation
Indices: 29698--29730 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
29688 TAAAATATGT
*
29698 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29731 CTATGTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:29870 original size:22 final size:23
Alignment explanation
Indices: 29839--29894 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
29829 ACACATTTCA
29839 TATTAATTATAACTAATTTAATT
1 TATTAATTATAACTAATTTAATT
* * *
29862 TATT-ATTATTACTATTTTTATT
1 TATTAATTATAACTAATTTAATT
*
29884 TTTTAAGTTAT
1 TATTAA-TTAT
29895 TTTGGCTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 18 0.67
23 5 0.19
24 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTAATTATAACTAATTTAATT
Found at i:30503 original size:144 final size:144
Alignment explanation
Indices: 30188--30503 Score: 360
Period size: 144 Copynumber: 2.2 Consensus size: 144
30178 TAAATAATCA
* *
30188 AAACTT-TGGGGT-TAAAAATGTAATTTT-TCTTTAATTTTTAGGCTATTTAGGGGCTGTTTTGA
1 AAACTTATGGGGTCT-AAAATGTAATTTTCTCTTTAATTTTTAGACCATTTAGGGGCTGTTTTGA
30250 TTCATGGCAGCACTTATAAGGACTGTTTTCTAATTTACTTAATTTTTCAAACTCATTTAAAAGTC
65 TTCATGGCAGCACTTATAAGGACTGTTTTCTAATTTACTTAATTTTTCAAACTCATTTAAAAGTC
*
30315 TTCTTAAGTTAGTTG
130 TTCTTAAGTTAGTCG
* * * * *
30330 AAACCTAT-GGGTCTAAAATGCATTTTTTTCTTTTAATTTTTAGACCATTTAGGGGCTGTTTTGG
1 AAACTTATGGGGTCTAAAATGTAATTTTCTC-TTTAATTTTTAGACCATTTAGGGGCTGTTTTGA
* * * * *
30394 TTCATTGCAGCACTTATAAGGATTG-TTTCATAATTT-TTCTAATTTTTTCAAACTCGTTTAGGG
65 TTCATGGCAGCACTTATAAGGACTGTTTTC-TAATTTACT-TAA-TTTTTCAAACTCATTTA--A
* * *
30457 ATGT-TT-TTAGGTTGGTCG
125 AAGTCTTCTTAAGTTAGTCG
*
30475 AAACTTATGGGGTCTAAATTGTAATTTTC
1 AAACTTATGGGGTCTAAAATGTAATTTTC
30504 ACATTATTAG
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
142 20 0.14
143 9 0.06
144 62 0.43
145 32 0.22
146 18 0.12
147 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (144 bp):
AAACTTATGGGGTCTAAAATGTAATTTTCTCTTTAATTTTTAGACCATTTAGGGGCTGTTTTGAT
TCATGGCAGCACTTATAAGGACTGTTTTCTAATTTACTTAATTTTTCAAACTCATTTAAAAGTCT
TCTTAAGTTAGTCG
Found at i:32394 original size:2 final size:2
Alignment explanation
Indices: 32389--32428 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32379 GATTGTGTGC
32389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32429 TCTTGATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35389 original size:27 final size:27
Alignment explanation
Indices: 35351--35423 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
35341 AACCACCCAT
*
35351 TGTTTGTTAAAAATTGTGGTTACTTTG
1 TGTTTGTCAAAAATTGTGGTTACTTTG
* * *
35378 TGTTTGTCAAAAATTATGGTTTCTTTT
1 TGTTTGTCAAAAATTGTGGTTACTTTG
* *
35405 TATTTGTCAAAAATGGTGG
1 TGTTTGTCAAAAATTGTGG
35424 CATGTTGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.05, G:0.21, T:0.49
Consensus pattern (27 bp):
TGTTTGTCAAAAATTGTGGTTACTTTG
Found at i:38025 original size:21 final size:22
Alignment explanation
Indices: 37996--38037 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37986 TGTTCAGACA
* *
37996 AGTAGTACTCCACAGCAGGTGC
1 AGTAGTACTCCAAAACAGGTGC
38018 AGTA-TACTCCAAAACAGGTG
1 AGTAGTACTCCAAAACAGGTG
38038 GAGTTTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGC
Found at i:39953 original size:27 final size:26
Alignment explanation
Indices: 39922--39988 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
39912 AACCACCCAT
39922 TGTTTGTCAAAAATTGTGGTTACTTTG
1 TGTTTGTCAAAAATTGTGGTT-CTTTG
* *
39949 TGTTTGTCAAAAATTGTGGTTTTTTT
1 TGTTTGTCAAAAATTGTGGTTCTTTG
*
39975 TATTTGTCAAAAAT
1 TGTTTGTCAAAAAT
39989 GGTGACATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 16 0.43
27 21 0.57
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (26 bp):
TGTTTGTCAAAAATTGTGGTTCTTTG
Found at i:46495 original size:26 final size:26
Alignment explanation
Indices: 46459--46520 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
46449 TCCTTTTTTG
*
46459 TTTGTTAAAAATGATAATTCTTGTTA
1 TTTGTCAAAAATGATAATTCTTGTTA
* **
46485 TTTGTCAAAAATGGTGGTTCTTGTTA
1 TTTGTCAAAAATGATAATTCTTGTTA
*
46511 TTTATCAAAA
1 TTTGTCAAAA
46521 TTAGTGGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (26 bp):
TTTGTCAAAAATGATAATTCTTGTTA
Found at i:46527 original size:26 final size:26
Alignment explanation
Indices: 46476--46529 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
46466 AAAATGATAA
* *
46476 TTCTTGTTATTTGTCAAAAATGGTGG
1 TTCTTGTTATTTATCAAAAATAGTGG
*
46502 TTCTTGTTATTTATCAAAATTAGTGG
1 TTCTTGTTATTTATCAAAAATAGTGG
46528 TT
1 TT
46530 AATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (26 bp):
TTCTTGTTATTTATCAAAAATAGTGG
Found at i:50992 original size:26 final size:26
Alignment explanation
Indices: 50929--51003 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
50919 AAGAGCCACC
* *
50929 CTTTTTGTTTGTAAAAAAAGGTGGTT
1 CTTTTTGTTTGTCAAAAATGGTGGTT
50955 CCATTTTT-TTTGTCAAAAATGGTGGTT
1 -C-TTTTTGTTTGTCAAAAATGGTGGTT
*
50982 -TTTGTTGTTTGTCAAAATTGGT
1 CTTT-TTGTTTGTCAAAAATGGT
51004 AGCTAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.07
25 2 0.05
26 14 0.33
27 18 0.43
28 5 0.12
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.49
Consensus pattern (26 bp):
CTTTTTGTTTGTCAAAAATGGTGGTT
Found at i:51559 original size:17 final size:16
Alignment explanation
Indices: 51529--51562 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
51519 TTGTTTCCTT
*
51529 AAGAATAAAGTAATTA
1 AAGAATAAACTAATTA
51545 AAGAATTAAACTAATTA
1 AAGAA-TAAACTAATTA
51562 A
1 A
51563 TTATATACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (16 bp):
AAGAATAAACTAATTA
Found at i:55369 original size:20 final size:20
Alignment explanation
Indices: 55344--55448 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
55334 TTTTAACTAG
55344 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
55364 ATGTATTGATACATCTGGATAAAAA
1 ATGTATCGATACAT-T-G---AAAA
* *
55389 GATAGAATATATCGATATATTGAAGA
1 -AT-G--T--ATCGATACATTGAAAA
*
55415 ATGTATCGATACATTAAAAA
1 ATGTATCGATACATTGAAAA
55435 ATGTATCGATACAT
1 ATGTATCGATACAT
55449 CTGGGTACTT
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
20 40 0.60
21 1 0.01
22 2 0.03
24 1 0.01
25 6 0.09
26 5 0.07
27 1 0.01
29 2 0.03
30 1 0.01
31 8 0.12
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:56317 original size:16 final size:16
Alignment explanation
Indices: 56296--56346 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
56286 GGTACAAGTT
56296 ATTTTAGTTTTGAGTC
1 ATTTTAGTTTTGAGTC
56312 ATTTTA-TATTTGAGTC
1 ATTTTAGT-TTTGAGTC
* *
56328 ACTTCAGTTTTGAGTC
1 ATTTTAGTTTTGAGTC
56344 ATT
1 ATT
56347 GCAAGTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.53
Consensus pattern (16 bp):
ATTTTAGTTTTGAGTC
Found at i:59540 original size:37 final size:37
Alignment explanation
Indices: 59485--59583 Score: 144
Period size: 37 Copynumber: 2.7 Consensus size: 37
59475 CGACAAGTAA
* **
59485 TATTTAGGTGGCTTTGCCAATCCACTATGATTGTCAG
1 TATTTGGGTGGCAGTGCCAATCCACTATGATTGTCAG
*
59522 TATTTGGGTGGCAGTGCCAATCCACTATGATTGTTAG
1 TATTTGGGTGGCAGTGCCAATCCACTATGATTGTCAG
* *
59559 AATTTGGGTGGCAGCGCCAATCCAC
1 TATTTGGGTGGCAGTGCCAATCCAC
59584 GGAAAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (37 bp):
TATTTGGGTGGCAGTGCCAATCCACTATGATTGTCAG
Found at i:64273 original size:37 final size:37
Alignment explanation
Indices: 64232--64316 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
64222 CGGTGGCTTG
* * *
64232 GCCAATCCACTATGATTGTCAGTATTTGGGTGGTAGT
1 GCCAATCCACTATGATTGTCAGAATTTGGGTGGCAGC
* * *
64269 GCCAATCCACTATGATTTTTAGAATTTTGGTGGCAGC
1 GCCAATCCACTATGATTGTCAGAATTTGGGTGGCAGC
64306 GCCAATCCACT
1 GCCAATCCACT
64317 GAAAAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (37 bp):
GCCAATCCACTATGATTGTCAGAATTTGGGTGGCAGC
Found at i:67125 original size:21 final size:21
Alignment explanation
Indices: 67099--67149 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
67089 CTGATTTGAG
*
67099 TTTATTAATAT-TTTTTAAAT
1 TTTATTAATATATTTTCAAAT
*
67119 ATTTATTAGTATATTTTCAAAT
1 -TTTATTAATATATTTTCAAAT
67141 TTT-TTAATA
1 TTTATTAATA
67150 AAATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATTAATATATTTTCAAAT
Found at i:68494 original size:19 final size:21
Alignment explanation
Indices: 68456--68495 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68446 ATGTTATTTT
68456 TATTTAAAATAAATTAATTAA
1 TATTTAAAATAAATTAATTAA
*
68477 TATTTTAAA-AAA-TAATTAA
1 TATTTAAAATAAATTAATTAA
68496 ATGAAGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAAATAAATTAATTAA
Found at i:70536 original size:5 final size:5
Alignment explanation
Indices: 70526--70550 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
70516 ATTTACTTTC
70526 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
70551 GTATCTGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:71619 original size:20 final size:22
Alignment explanation
Indices: 71575--71623 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
71565 TATATAGCAT
*
71575 AAATTTTGTATTTTTAATACTA
1 AAATTTTGTAGTTTTAATACTA
*
71597 AAATTTTTTAGTTTT-AT-CTA
1 AAATTTTGTAGTTTTAATACTA
71617 AAATTTT
1 AAATTTT
71624 AAAAAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
AAATTTTGTAGTTTTAATACTA
Found at i:73113 original size:34 final size:34
Alignment explanation
Indices: 73058--73274 Score: 249
Period size: 34 Copynumber: 6.4 Consensus size: 34
73048 GGTTTGGTAA
* *
73058 AAACCACCAAATCACCCATTTATTCAACAATGGC
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* * *
73092 AAACTACCAAATCTCCTATTTAGTCAACAATGGT
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* * *
73126 AAA-TCACTAAATCACACATTTAATCAACAATGGC
1 AAACT-ACCAAATCACCCATTTAGTCAACAATGGC
* *
73160 AAACTACCAAATCTCCCATTTAGTCAACAATGGT
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* *
73194 AAACCACCAAATCACCCATTTAATCAACAATGGC
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* * * *
73228 AAACTATCAAATC-TCCATTTAGTCAATAATGGA
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* *
73261 AAACCACCGAATCA
1 AAACTACCAAATCA
73275 ATGGCAAACT
Statistics
Matches: 151, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
33 27 0.18
34 123 0.81
35 1 0.01
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (34 bp):
AAACTACCAAATCACCCATTTAGTCAACAATGGC
Found at i:73139 original size:68 final size:67
Alignment explanation
Indices: 73058--73274 Score: 344
Period size: 68 Copynumber: 3.2 Consensus size: 67
73048 GGTTTGGTAA
*
73058 AAACCACCAAATCACCCATTTATTCAACAATGGCAAACTACCAAATCTCCTATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCC-ATTTAGTCAACAAT
73123 GGT
65 GGT
* * *
73126 AAATCACTAAATCACACATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCT-CCATTTAGTCAACAAT
73191 GGT
65 GGT
* *
73194 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTATCAAATCTCCATTTAGTCAATAATG
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCCATTTAGTCAACAATG
*
73259 GA
66 GT
*
73261 AAACCACCGAATCA
1 AAACCACCAAATCA
73275 ATGGCAAACT
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
67 30 0.22
68 105 0.77
69 2 0.01
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (67 bp):
AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCCATTTAGTCAACAATG
GT
Found at i:77727 original size:34 final size:34
Alignment explanation
Indices: 77682--77899 Score: 258
Period size: 34 Copynumber: 6.4 Consensus size: 34
77672 GGTTTAGTAA
* *
77682 AAACCACCAAATCACCCATTTATTCAACAATGGC
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* * * *
77716 AAACTATCAAATCTCCCATTTAGTCAAAAATAGC
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* * *
77750 AAA-TCACCAAATCACCCATTTAATTAACAATGGT
1 AAACT-ACCAAATCACCCATTTAGTCAACAATGGC
* * *
77784 AAACTACTAAATCTCCCATTTAGTCAACAATGGT
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* *
77818 AAACCACCAAATCACCCATTTAATCAACAATGGC
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
* * *
77852 AAACTATCAAATCTCCCATTTAGTCAATAATGGC
1 AAACTACCAAATCACCCATTTAGTCAACAATGGC
*
77886 AAACCACCAAATCA
1 AAACTACCAAATCA
77900 ATGGCAAACT
Statistics
Matches: 152, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
33 1 0.01
34 150 0.99
35 1 0.01
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (34 bp):
AAACTACCAAATCACCCATTTAGTCAACAATGGC
Found at i:77758 original size:68 final size:68
Alignment explanation
Indices: 77682--77899 Score: 341
Period size: 68 Copynumber: 3.2 Consensus size: 68
77672 GGTTTAGTAA
77682 AAACCACCAAATCACCCATTTATTCAACAATGGCAAACTATCAAATCTCCCATTTAGTCAAAAAT
1 AAACCACCAAATCACCCATTTATTCAACAATGGCAAACTATCAAATCTCCCATTTAGTCAAAAAT
*
77747 AGC
66 GGC
* * *
77750 AAATCACCAAATCACCCATTTAATT-AACAATGGTAAACTA-CTAAATCTCCCATTTAGTCAACA
1 AAACCACCAAATCACCCATTT-ATTCAACAATGGCAAACTATC-AAATCTCCCATTTAGTCAAAA
*
77813 ATGGT
64 ATGGC
* *
77818 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTATCAAATCTCCCATTTAGTCAATAAT
1 AAACCACCAAATCACCCATTTATTCAACAATGGCAAACTATCAAATCTCCCATTTAGTCAAAAAT
77883 GGC
66 GGC
77886 AAACCACCAAATCA
1 AAACCACCAAATCA
77900 ATGGCAAACT
Statistics
Matches: 136, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
67 3 0.02
68 129 0.95
69 4 0.03
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (68 bp):
AAACCACCAAATCACCCATTTATTCAACAATGGCAAACTATCAAATCTCCCATTTAGTCAAAAAT
GGC
Found at i:79641 original size:2 final size:2
Alignment explanation
Indices: 79634--79660 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79624 TTTCCAATAA
79634 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
79661 GGGCCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81235 original size:34 final size:34
Alignment explanation
Indices: 81194--81310 Score: 180
Period size: 34 Copynumber: 3.4 Consensus size: 34
81184 TAGGTGAAAC
*
81194 ATATTAGGTGTGTTAGGTGATATATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
*
81228 ATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
* * *
81262 ATATTAGATGTGTTAGGTAATGTATTTGGTGAAA
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
*
81296 ATATTATGTGTGTTA
1 ATATTAGGTGTGTTA
81311 AGTAATGTGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 75 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (34 bp):
ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
Found at i:81316 original size:34 final size:34
Alignment explanation
Indices: 81186--81318 Score: 176
Period size: 34 Copynumber: 3.9 Consensus size: 34
81176 AAGTGTGTTA
* *
81186 GGTGAAACATATTAGGTGTGTTAGGTGATATATTT
1 GGTGAAA-ATATTAGGTGTGTTAGGTAATGTATTT
* * *
81221 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAAAATATTAGGTGTGTTAGGTAATGTATTT
* *
81255 GGTGAGAATATTAGATGTGTTAGGTAATGTATTT
1 GGTGAAAATATTAGGTGTGTTAGGTAATGTATTT
* *
81289 GGTGAAAATATTATGTGTGTTAAGTAATGT
1 GGTGAAAATATTAGGTGTGTTAGGTAATGT
81319 GTTAGATGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
34 82 0.93
35 6 0.07
ACGTcount: A:0.28, C:0.01, G:0.31, T:0.41
Consensus pattern (34 bp):
GGTGAAAATATTAGGTGTGTTAGGTAATGTATTT
Found at i:86096 original size:34 final size:34
Alignment explanation
Indices: 86055--86189 Score: 198
Period size: 34 Copynumber: 4.0 Consensus size: 34
86045 TAGGTGAAGC
*
86055 ATATTAGGTGTGTTAGGTGATATATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
*
86089 ATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGA
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
* * *
86123 ATATTAGATGTGTTAGGTAATGTATTTGGTGAAA
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
* * *
86157 ATATTAGGTGTGTTAGGTAATGTGTTAGGTGAG
1 ATATTAGGTGTGTTAGGTGATGTATTTGGTGAG
86190 TAAGATATTT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 91 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (34 bp):
ATATTAGGTGTGTTAGGTGATGTATTTGGTGAGA
Found at i:88520 original size:15 final size:15
Alignment explanation
Indices: 88500--88529 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88490 CTATATTCGA
88500 ATACTAAGTTATACT
1 ATACTAAGTTATACT
88515 ATACTAAGTTATACT
1 ATACTAAGTTATACT
88530 TTAGTCATAT
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:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
ATACTAAGTTATACT
Found at i:96086 original size:15 final size:13
Alignment explanation
Indices: 96056--96098 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
96046 AAGCCTATCA
*
96056 ATTTTTTTAATTT
1 ATTTTTTTAATAT
*
96069 ATTTTTTTAAAAT
1 ATTTTTTTAATAT
96082 ATATTTTTTAA-AT
1 AT-TTTTTTAATAT
96095 ATTT
1 ATTT
96099 AATATTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 2 0.07
13 17 0.63
14 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTTAATAT
Found at i:96214 original size:25 final size:24
Alignment explanation
Indices: 96159--96214 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
96149 ATATATTTTT
* *
96159 TAATATTTACACTATAATATTACA
1 TAATATTTACACCATAAAATTACA
* *
96183 TATATATTTATACCATAAAAATTACC
1 TA-ATATTTACACCAT-AAAATTACA
96209 TAATAT
1 TAATAT
96215 ATAAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 9 0.35
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATATTTACACCATAAAATTACA
Found at i:96238 original size:13 final size:14
Alignment explanation
Indices: 96213--96255 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
96203 ATTACCTAAT
*
96213 ATATAAAATATAAA
1 ATATAATATATAAA
*
96227 AT-TAATATATAAC
1 ATATAATATATAAA
96240 ATATAAT-TATAAA
1 ATATAATATATAAA
96253 ATA
1 ATA
96256 GGTGGATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAATATATAAA
Found at i:98187 original size:79 final size:78
Alignment explanation
Indices: 98066--98421 Score: 487
Period size: 79 Copynumber: 4.5 Consensus size: 78
98056 TTTTAGAGAT
* * * * *
98066 AACAACGGGGCTAGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGAGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGG
**
98131 AGTATCCCTTCGAA
65 AGTATCCCCGCGAA
* *
98145 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAACACCGGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-GTTTTAGAAATAAAACCGGGGTTGG
* *
98210 AGTATCTCTGCGAA
65 AGTATCCCCGCGAA
* ** *
98224 AACAACAGGGTTGGAGTATCCCCGATTACAAAAAATTGAAGTTTTAGAAATAAAACCAGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGG
*
98289 AGTATCCCCGCGGA
65 AGTATCCCCGCGAA
*
98303 AACAACGGGGTTGGAGTATCCCCGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGG
*
98368 AGTATCCCCGCGGA
65 AGTATCCCCGCGAA
* * *
98382 AATAACGGAGTTGGAGTATCCCCGATTGTGAAAAATTAAG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAG
98422 AAACTTAACA
Statistics
Matches: 250, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
78 4 0.02
79 244 0.98
80 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (78 bp):
AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAGTTTTAGAAATAAAACCGGGGTTGGA
GTATCCCCGCGAA
Found at i:99854 original size:21 final size:21
Alignment explanation
Indices: 99828--99893 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
99818 TATGCCCATC
99828 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
99849 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
99863 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
99884 ATTCCATGCC
1 ATTCCATGCC
99894 CATCATTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 8 0.23
15 2 0.06
16 2 0.06
19 3 0.09
20 2 0.06
21 18 0.51
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:99858 original size:35 final size:35
Alignment explanation
Indices: 99819--99951 Score: 243
Period size: 35 Copynumber: 3.9 Consensus size: 35
99809 TCATTTTTTT
*
99819 ATGCCCATCATTCCATGCCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
99854 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
99889 ATGCCCATCATTCCATGCCTTCA-TTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
99922 ATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
99952 TATTTTTTTT
Statistics
Matches: 95, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
33 29 0.31
34 8 0.08
35 58 0.61
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:99868 original size:14 final size:14
Alignment explanation
Indices: 99849--99940 Score: 58
Period size: 14 Copynumber: 5.7 Consensus size: 14
99839 CCATTTTTAT
99849 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
99863 ATTCCATGCCTTCATTTTT
1 ATTCCATGCC--CA---TC
99882 ATATTCCATGCCCATC
1 AT--TCCATGCCCATC
*
99898 ATTCCATGCCTTCATTTTT
1 ATTCCATGCC--CA---TC
99917 ATTCCATGCCCATC
1 ATTCCATGCCCATC
99931 ATTCCATGCC
1 ATTCCATGCC
99941 TTCATTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
14 29 0.47
16 7 0.11
17 2 0.03
19 16 0.26
21 8 0.13
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.39
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:99925 original size:33 final size:33
Alignment explanation
Indices: 99800--99952 Score: 231
Period size: 35 Copynumber: 4.6 Consensus size: 33
99790 CTCATTTTCG
*
99800 TCCATGCTTTCATTTTT-TT--ATGCCCATCAT
1 TCCATGCCTTCATTTTTATTCCATGCCCATCAT
*
99830 TCCATGCCTCCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCA-TTTT-TATTCCATGCCCATCAT
99865 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCA-TTTT-TATTCCATGCCCATCAT
99900 TCCATGCCTTCATTTTTATTCCATGCCCATCAT
1 TCCATGCCTTCATTTTTATTCCATGCCCATCAT
99933 TCCATGCCTTCATTTTTATT
1 TCCATGCCTTCATTTTTATT
99953 ATTTTTTTTG
Statistics
Matches: 115, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
30 10 0.09
31 4 0.03
32 1 0.01
33 39 0.34
34 4 0.03
35 57 0.50
ACGTcount: A:0.18, C:0.31, G:0.06, T:0.45
Consensus pattern (33 bp):
TCCATGCCTTCATTTTTATTCCATGCCCATCAT
Found at i:99944 original size:68 final size:70
Alignment explanation
Indices: 99819--99951 Score: 243
Period size: 68 Copynumber: 1.9 Consensus size: 70
99809 TCATTTTTTT
99819 ATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
99884 ATTCC
66 ATTCC
*
99889 ATGCCCATCATTCCATGCCTTCA-TTTT-TATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
99952 TATTTTTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
68 36 0.58
69 4 0.06
70 22 0.35
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (70 bp):
ATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
ATTCC
Found at i:99978 original size:12 final size:13
Alignment explanation
Indices: 99958--99986 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
99948 TTATTATTTT
99958 TTTTGAATTTTAA
1 TTTTGAATTTTAA
99971 TTTT-AATTTTAA
1 TTTTGAATTTTAA
99983 TTTT
1 TTTT
99987 TGATTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:100460 original size:40 final size:42
Alignment explanation
Indices: 100416--100509 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
100406 TCCCACTTTT
* *
100416 TTGAGGACAAAGAAAAAG-AGAATTAA-ATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAAGAA-AAAGAAAGTGTCCTGCTCC
* *
100456 TTGAGGACAAAGGAAAAGAAGAAAAAGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAAGAAAAAGAAAGTGTCCTGCTCC
*
100498 TTAAGGACAAAG
1 TTGAGGACAAAG
100510 TGAAAAGGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 19 0.41
41 7 0.15
42 20 0.43
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (42 bp):
TTGAGGACAAAGAAAAAGAAGAAAAAGAAAGTGTCCTGCTCC
Found at i:100742 original size:61 final size:61
Alignment explanation
Indices: 100652--101129 Score: 528
Period size: 61 Copynumber: 7.9 Consensus size: 61
100642 AAAGAAGTGT
* * * *
100652 GTCCAGCTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
* * *
100713 GTCCTGCTCTTCGAGGACT-AGAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGA-AAAGGC
* * * *
100774 ATCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
* * * *
100835 GTCCTACTCTTCGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGA-AAAGGC
* * * *
100896 ATCCTGTTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
* * * * *
100957 GTCCTGCTCTTCGAGGACTG-GAAGATGACACCAACTAGTGTGGGATTTGCAAAA-AAAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGAAAAGGC
* * *
101018 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAA-GAAAAGGC
* *
101079 GTCCTGCTCTTTGAGGACTG-AAAGTGCC-CTCAACTTGTGCGGGCTTTGAAA
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCAC-CAACTAGTGTGGGCTTTGAAA
101130 GGCGTCTTGC
Statistics
Matches: 349, Mismatches: 49, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
59 5 0.01
60 48 0.14
61 268 0.77
62 28 0.08
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
Found at i:100799 original size:122 final size:122
Alignment explanation
Indices: 100657--101106 Score: 769
Period size: 122 Copynumber: 3.7 Consensus size: 122
100647 AGTGTGTCCA
*
100657 GCTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
* *
100722 TTCGAGGACTAGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCAT
66 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
*
100779 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTACTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
100844 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
66 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
*
100901 GTTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
* *
100966 TTCGAGGACTGGAAGATGACACCAACTAGTGTGGGATTTGCAAAAAAAAAGCATCCT
66 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
* * *
101023 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTGCT
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAA-GAAAAGGCGTCCTGCT
* *
101087 CTTTGAGGACTGAAAG-TGCC
65 CTTCGAGGACTGGAAGATGCC
101107 CTCAACTTGT
Statistics
Matches: 312, Mismatches: 15, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
121 7 0.02
122 305 0.98
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (122 bp):
GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
Found at i:101235 original size:94 final size:94
Alignment explanation
Indices: 101067--101251 Score: 277
Period size: 94 Copynumber: 2.0 Consensus size: 94
101057 GTGGGCTTTA
*
101067 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCCTCAACTTGTGCGGGCTTTGAAAGG
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCCTCAACTTGTGCGGGCTTTAAAAGG
* *
101132 CGTCTTGCTCTTTGAGGACT-AAAGGGTG
66 AGTCCTGCTCTTTGAGGACTGAAAGGGTG
* *
101160 AAAGGAG-AGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCAC-CAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACT-GAAAGTGCC-CTCAACTTGTGCGGGCTTTAAA
101223 AGGAGTCCTGCTCTTTGAGGACTGAAAGG
63 AGGAGTCCTGCTCTTTGAGGACTGAAAGG
101252 TGTCACCAAC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
92 2 0.02
93 28 0.34
94 47 0.57
95 6 0.07
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (94 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCCTCAACTTGTGCGGGCTTTAAAAGG
AGTCCTGCTCTTTGAGGACTGAAAGGGTG
Found at i:101237 original size:55 final size:55
Alignment explanation
Indices: 101170--102432 Score: 763
Period size: 55 Copynumber: 22.5 Consensus size: 55
101160 AAAGGAGAGA
*
101170 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
101225 GAGTCCTGCTCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
101280 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
101335 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTAGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
101390 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
101445 GCGTCCTGCTCTTTGAGGGCTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* *
101506 GCGTCCTGCCCTTTGAGGACT-AAAGGGTGCCACGAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * ** * ** *
101567 GCGTCCTGCTCTTTGAGGACTGGAAGG-GCTAAAGGAGGGAGC--GTCCTGCTCTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGC--CACCA---A-CTTGT-GTGGGCTTT-A--A-AA
101629 G
55 G
* ** * * * ** *** *** ** * * ** *
101630 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC-TCTTTGAGG-ACTGAAAG
1 G-CGT-CCTGC-TCTT-TGAGGACTGAAAGGTGCCACCAACTTGTGTG-GGCTTTAAAAG
* ** * * * *** *** ** ** * * * * *
101688 GTG-CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC-TCTTTGAAG-ATTGAAAG
1 GCGTCCTGC-TCTT-TGAGGACTGAAAGGTGCCACCAACTTGTGTG-GGCTTTAAAAG
* * * ** ** *
101743 GTG-CC-AC-C----A--ACTTG---TGTG-----GGCTT-TGAAAGGC---GAA-G
1 GCGTCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTG-TGGGCTTTAAAAG
* * * *
101778 GCGTCCTGCTTTTTGAGGATTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
101834 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-
1 GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* *
101889 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* *
101950 GCGTCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
102005 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAG
*
102066 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
102122 GTGTCTTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGT---CTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
102174 GCATCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
102229 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
102284 GCGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * *
102345 GCATCCTGCCCTTTGAGGACT-AAAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT------AAAAG
*
102406 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
102433 GCTAAAAAAG
Statistics
Matches: 998, Mismatches: 127, Indels: 160
0.78 0.10 0.12
Matches are distributed among these distances:
35 3 0.00
36 5 0.01
37 1 0.00
38 4 0.00
39 1 0.00
42 1 0.00
43 2 0.00
44 2 0.00
45 1 0.00
46 1 0.00
47 3 0.00
52 54 0.05
53 2 0.00
54 12 0.01
55 532 0.53
56 55 0.06
57 2 0.00
58 3 0.00
59 1 0.00
60 17 0.02
61 225 0.23
62 40 0.04
63 4 0.00
64 4 0.00
65 10 0.01
66 4 0.00
67 8 0.01
68 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:101601 original size:40 final size:41
Alignment explanation
Indices: 101557--101633 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
101547 GTGGGCTTTA
101557 AAAGGAAA-AGGCGTCCTGCTCTTTGAGGACT-GGAAGGGCT
1 AAAGGAAAGA-GCGTCCTGCTCTTTGAGGACTAGGAAGGGCT
**
101597 AAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAG
1 AAAGGAAAGAGCGTCCTGCTCTTTGAGGACTAGGAAG
101634 TGCCACCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.27, C:0.17, G:0.36, T:0.19
Consensus pattern (41 bp):
AAAGGAAAGAGCGTCCTGCTCTTTGAGGACTAGGAAGGGCT
Found at i:101897 original size:172 final size:165
Alignment explanation
Indices: 101607--102432 Score: 975
Period size: 172 Copynumber: 4.8 Consensus size: 165
101597 AAAGGAGGGA
* *
101607 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* * *
101671 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
65 TCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGA
*
101736 TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
129 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AAG
* * *
101778 GCGTCCTGCTTTTTGAGGATTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
101843 TCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGA
65 TCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGA
*
101908 CTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAG
129 CTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAAG
* * * *
101950 GCGTCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
102015 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTT
66 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AA-GAGTCCTGCTCTTT
*
102080 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
124 GAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * * * *
102122 GTGTCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT---CTTTGAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
102184 CTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGTCCTGCTCTTTGAGG
66 CTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGTCCTGCTCTTTGAGG
102247 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG
128 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * *
102284 GCGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
* * *
102349 CCTGCCCTTTGAGGACTAAAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
60 CCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GAGTCCTG
*
102414 CTCTTTGAGGACTGGAAGG
118 CTCTTTGAGGACTGAAAGG
102433 GCTAAAAAAG
Statistics
Matches: 575, Mismatches: 45, Indels: 64
0.84 0.07 0.09
Matches are distributed among these distances:
162 70 0.12
163 23 0.04
165 4 0.01
167 2 0.00
169 54 0.09
170 3 0.01
171 143 0.25
172 193 0.34
173 1 0.00
176 4 0.01
177 51 0.09
178 27 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (165 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
Found at i:102029 original size:26 final size:26
Alignment explanation
Indices: 101946--102033 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
101936 TTTGAAAGGA
*
101946 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * *
101972 AGAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC--TG
102001 AAAGGTGTCCTGCTCTTTGAGGACTG
1 AAAGGTGTCCTGCTCTTTGAGGACTG
102027 AAAGGTG
1 AAAGGTG
102034 CCACCAACTT
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 5 0.11
28 5 0.11
29 11 0.25
30 3 0.07
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.27
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:102119 original size:288 final size:280
Alignment explanation
Indices: 101609--102400 Score: 1234
Period size: 288 Copynumber: 2.8 Consensus size: 280
101599 AGGAGGGAGC
101609 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
* *
101674 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGATTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
* *
101739 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTTTTTGAGGATTAGAAA
131 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAA
*
101804 AGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA-AGAAGTGCCACC
196 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGA-AAGTGCCACC
101868 AACTCGTGTGGGCTTTGAAAAG-A
260 AACT--TGT-GGCTTTGAAAAGCA
* * *
101891 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGAGTC
* *
101955 CTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
59 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
102020 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGA
124 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGA
* * *
102085 CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTCTTTGAGGACTGGAAAGT
189 CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGT
* *
102150 GCCACCAACTTGTGTCTTTGAAAGGCA
254 GCCACCAACTTGTGGCTTTGAAAAGCA
*
102177 -TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
*
102241 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGGCTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
** * * *
102306 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCCCTTTGAGGACTA-AAG
131 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAA
* *
102370 GGTGCCACCAACTTTTGTGGGCTTTAAAAGG
196 AGTGCCACCAACTTGTGTGGGCTTTAAAAGG
102401 AAAAGGCGTC
Statistics
Matches: 472, Mismatches: 28, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
278 31 0.07
279 135 0.29
281 3 0.01
282 42 0.09
285 51 0.11
286 7 0.01
288 202 0.43
289 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (280 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAA
AGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCA
ACTTGTGGCTTTGAAAAGCA
Found at i:102310 original size:26 final size:26
Alignment explanation
Indices: 102225--102310 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
102215 GTGGGCTTTA
*
102225 AAAGGAGTCCTGCTCTTTGAGGACTG
1 AAAGGAGTCCTGCTCTTTGAGGGCTG
* ** * *
102251 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGAGTCCTGC-TCTT-TGAGGGC--TG
*
102280 AAAGGCGTCCTGCTCTTTGAGGGCTG
1 AAAGGAGTCCTGCTCTTTGAGGGCTG
102306 AAAGG
1 AAAGG
102311 TGCCACCAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 5 0.11
28 6 0.14
29 11 0.25
30 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (26 bp):
AAAGGAGTCCTGCTCTTTGAGGGCTG
Found at i:102339 original size:110 final size:109
Alignment explanation
Indices: 101170--102432 Score: 1422
Period size: 110 Copynumber: 11.2 Consensus size: 109
101160 AAAGGAGAGA
*
101170 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
*
101234 TCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
101280 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * *
101345 CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAG
66 CTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
101390 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
101455 CTTTGAGGGCTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
66 CTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
101506 GCGTCCTGCCCTTTGAGGACT-AAAGGGTGCCACGAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A---G
* * * *
101570 TCCTGCTCTTTGAGGACTGGAAGGGCTA--AA---G-G-AGG----G--A-
59 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
101607 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
101671 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
101717 GCGTCCTGCTCTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAGGAGT
* * * *
101782 CCTGCTTTTTGAGGATTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAG
60 CCTGCTCTTTGAGGACT-G-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
101834 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAGTCCTG
1 GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGTCCTG
*
101897 CTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAG
64 CTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * *
101950 GCGTCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
102015 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
66 CTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTG--A----AAG
* * *
102066 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
102131 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT---CTTTGAAAG
65 TCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
102174 GCATCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
102238 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
102284 GCGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A-G--T
* *
102349 CCTGCCCTTTGAGGACT-AAAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
60 CCTGCTCTTTGAGGACTGAAA--GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
*
102406 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
102433 GCTAAAAAAG
Statistics
Matches: 1001, Mismatches: 75, Indels: 142
0.82 0.06 0.12
Matches are distributed among these distances:
95 22 0.02
96 4 0.00
98 3 0.00
101 50 0.05
102 2 0.00
103 4 0.00
105 1 0.00
106 4 0.00
107 66 0.07
108 26 0.03
109 16 0.02
110 312 0.31
111 22 0.02
112 7 0.01
113 1 0.00
114 8 0.01
115 10 0.01
116 239 0.24
117 140 0.14
118 7 0.01
119 2 0.00
121 5 0.00
122 50 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (109 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:108658 original size:79 final size:78
Alignment explanation
Indices: 108527--108869 Score: 454
Period size: 79 Copynumber: 4.3 Consensus size: 78
108517 AAAGGGGCTA
* * * * * *
108527 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAATATCCCTTCGA
1 GAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGA
108592 AAATAACGGGGTTG
65 AAATAACGGGGTTG
* * ** * *
108606 GAGTATCCCCGATTATGAAAAATTAATGTTCTAGAAATAACATTGGGGTTGGATTATCCCTGCGG
1 GAGTATCCCCGATTATGAAAAATTAA-GTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGA
* *
108671 AAACAATGGGGTTG
65 AAATAACGGGGTTG
* *
108685 GAGTATCCCCGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTAT-CCTAACG
1 GAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCT-GCG
108749 AAAATAACGGGGTTG
64 AAAATAACGGGGTTG
* * *
108764 GAGTATCCCCGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
1 GAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGA
108829 AAATAACGGGGTTG
65 AAATAACGGGGTTG
*
108843 GAGTATCCCCGATTGTGAAAAATTAAG
1 GAGTATCCCCGATTATGAAAAATTAAG
108870 AAACTTAACA
Statistics
Matches: 234, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
78 7 0.03
79 223 0.95
80 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAAAAATTAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGAA
AATAACGGGGTTG
Found at i:110278 original size:30 final size:34
Alignment explanation
Indices: 110242--110395 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 34
110232 CTCATTTTCG
*
110242 TCCATG-CTTTAATTTT-T-TT-ATGCCCATCAT
1 TCCATGCCTTCAATTTTATATTCATGCCCATCAT
*
110272 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCAATTTTATATT-CATGCCCATCAT
*
110307 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCAATTTTATATT-CATGCCCATCAT
* *
110342 TCCATGCCTTCATTTTTATATTCCATTCCCATCAT
1 TCCATGCCTTCAATTTTATATT-CATGCCCATCAT
*
110377 TCCATGCCTTCATTTTTAT
1 TCCATGCCTTCAATTTTAT
110396 TTTTTTTTTG
Statistics
Matches: 116, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
30 6 0.05
31 8 0.07
32 1 0.01
33 2 0.02
35 99 0.85
ACGTcount: A:0.19, C:0.29, G:0.05, T:0.46
Consensus pattern (34 bp):
TCCATGCCTTCAATTTTATATTCATGCCCATCAT
Found at i:110300 original size:35 final size:35
Alignment explanation
Indices: 110261--110395 Score: 261
Period size: 35 Copynumber: 3.9 Consensus size: 35
110251 TAATTTTTTT
110261 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
110296 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
110331 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
110366 ATTCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
110396 TTTTTTTTTG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 99 1.00
ACGTcount: A:0.20, C:0.31, G:0.05, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:115926 original size:20 final size:20
Alignment explanation
Indices: 115879--115950 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
115869 AAAAAGACAG
* * *
115879 AATGTATCGATATATTGAAG
1 AATGTATCGATACATTAAAA
* * *
115899 AATATATCGATACATTCATA
1 AATGTATCGATACATTAAAA
*
115919 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
115939 AATGTATCGATA
1 AATGTATCGATA
115951 TATCTGGGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:116907 original size:33 final size:32
Alignment explanation
Indices: 116869--116934 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
116859 CATTGGGTTT
*
116869 AGAAGGGATAATACCAACTTGTGTGGCCTTTAG
1 AGAA-GGATAACACCAACTTGTGTGGCCTTTAG
* ** *
116902 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGATAACACCAACTTGTGTGGCCTTTAG
116934 A
1 A
116935 AGGGTTACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (32 bp):
AGAAGGATAACACCAACTTGTGTGGCCTTTAG
Found at i:116984 original size:28 final size:28
Alignment explanation
Indices: 116922--117582 Score: 481
Period size: 28 Copynumber: 23.5 Consensus size: 28
116912 CACCAACTTG
* * *
116922 TGTGGGCTTTAGAAGGGTTACCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
116951 TATGGGCTTTAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
116979 TGTGGGCTTCAAAAAGG-TGCCACTAACT
1 TGTGGGCTT-TGAAAGGATGCCACTGACT
* * * *
117007 TGTAGGCTTCGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
117035 TATGGGCTTTGAAAGAGGTTGCCACCGACT
1 TGTGGGCTTTG-AA-AGGATGCCACTGACT
* *
117065 TGTGTGGGTTTCGAAAGGGTGCCACTGACT
1 TGTG-GGCTTT-GAAAGGATGCCACTGACT
* *
117095 TGTGGGTTTTTAAAAGG-TGCCACTGACT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
*
117123 TATGGGCTTTTGAAAGGATG---CT-AC-
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
117147 --TGGGCTTTTGAAAGGATGCCACT-A--
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
117171 ----GGCTTTTGAAAGGTTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
117196 CGTGGGGTTTTGAAAGGATGCCATTGACT
1 TGT-GGGCTTTGAAAGGATGCCACTGACT
*
117225 CGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
117254 CGTGGGCTTTGAAAGGGTGCCACTTACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
117282 TGTGGGCTTTGAAAGAGGTTGCCACCGACTT
1 TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* *
117313 GTGTGGGCTTTGAAAGGGTGCCACTGATT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
117342 TGTGGGCTTTTAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
117370 TATGGGCTTTGAAAGGGTGCTACTGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
117398 CGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* ** * * *
117427 CGTGGAATTTGGAAGAATGCCACTTACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
117455 TATGGGCTTTAAAAGGGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
117483 CGTGGGCTTTTGAAAAGATACCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
** * * *
117512 CATGGGCTTTGGAAGAATGCCACTCACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
117540 TGTGGGCTTTAAAAGAGGTGTCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
117569 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
117583 AAGGGTCGTA
Statistics
Matches: 512, Mismatches: 92, Indels: 56
0.78 0.14 0.08
Matches are distributed among these distances:
22 38 0.07
23 1 0.00
25 5 0.01
26 2 0.00
27 5 0.01
28 234 0.46
29 144 0.28
30 61 0.12
31 10 0.02
32 12 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:117089 original size:88 final size:87
Alignment explanation
Indices: 116922--117554 Score: 422
Period size: 85 Copynumber: 7.5 Consensus size: 87
116912 CACCAACTTG
* *
116922 TGTGGGCTTT-AGAAGGGTTACCACTGACTTATGGGCTTT-AAAAGGATGCCACTGA-TT-TGTG
1 TGTGGGCTTTGA-AAGGG-TGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTG
* * * *
116983 GGCTTCAAAAAGGTGCCACTAACT
64 GGTTTCGAAAGGGTGCCACTGACT
* * * *
117007 TGTAGGCTTCGAAAGGGTGCCACCGACTTATGGGCTTTGAAAGAGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAA-AGGATGCCACCGACTTGTGTGG
117072 GTTTCGAAAGGGTGCCACTGACT
65 GTTTCGAAAGGGTGCCACTGACT
* * * *
117095 TGTGGGTTTTTAAAAGGTGCCACTGACTTATGGGCTTTTG-AAAGGATG----CTAC---TG-GG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGC-TTTGAAAAGGATGCCACCGACTTGTGTGG
* * *
117151 CTTTTGAAAGGATGCCACT-A--
65 GTTTCGAAAGGGTGCCACTGACT
* ** * ** *
117171 ----GGCTTTTGAAAGGTTGCCACTGACTCGTGGGGTTTTG-AAAGGATGCCATTGACTCGTG-G
1 TGTGGGC-TTTGAAAGGGTGCCACTGACTTAT-GGGCTTTGAAAAGGATGCCACCGACTTGTGTG
* * *
117230 GCTTTTGAAAGGATGCCACTGACT
64 GGTTTCGAAAGGGTGCCACTGACT
* * * *
117254 CGTGGGCTTTGAAAGGGTGCCACTTACTTGTGGGCTTTGAAAGAGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAA-AGGATGCCACCGACTTGTGTGG
*
117319 GCTTT-GAAAGGGTGCCACTGATT
65 G-TTTCGAAAGGGTGCCACTGACT
* * * * * * *
117342 TGTGGGCTTTTAAAGGGTGCCACTGACTTATGGGCTTTG-AAAGGGTGCTACTGAATCGTG-GGC
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTGGG
* *
117405 TTTTGAAAGGATGCCACTGACT
66 TTTCGAAAGGGTGCCACTGACT
* ** * ** * * * * * *
117427 CGTGGAATTTGGAAGAATGCCACTTACTTATGGGCTTT-AAAAGGGTGCCACTGAATCGTG-GGC
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTGGG
* * * *
117490 TTTTGAAAAGATACCACTGACT
66 TTTCGAAAGGGTGCCACTGACT
** * ** * *
117512 CATGGGCTTTGGAAGAATGCCACTCACTTGTGGGCTTT-AAAAG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAG
117555 AGGTGTCATT
Statistics
Matches: 451, Mismatches: 69, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
72 2 0.00
73 31 0.07
74 3 0.01
77 2 0.00
78 1 0.00
79 18 0.04
80 25 0.06
81 1 0.00
83 3 0.01
84 22 0.05
85 152 0.34
86 49 0.11
87 27 0.06
88 108 0.24
89 7 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (87 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAAGGATGCCACCGACTTGTGTGGG
TTTCGAAAGGGTGCCACTGACT
Found at i:117153 original size:22 final size:22
Alignment explanation
Indices: 117125--117192 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
117115 CACTGACTTA
*
117125 TGGGCTTTTGAAAGGATGCTAC
1 TGGGCTTTTGAAAGGATGCCAC
117147 TGGGCTTTTGAAAGGATGCCAC
1 TGGGCTTTTGAAAGGATGCCAC
* *
117169 TAGGCTTTTGAAAGGTTGCCAC
1 TGGGCTTTTGAAAGGATGCCAC
117191 TG
1 TG
117193 ACTCGTGGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (22 bp):
TGGGCTTTTGAAAGGATGCCAC
Found at i:117644 original size:13 final size:13
Alignment explanation
Indices: 117599--117665 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
117589 CGTATTGATG
*
117599 AAAATTTCTTGAC
1 AAAAGTTCTTGAC
117612 -AAAGTT-TTGAC
1 AAAAGTTCTTGAC
*
117623 AAACA-TTCTCGAC
1 AAA-AGTTCTTGAC
117636 AAAAGTTCTTGA-
1 AAAAGTTCTTGAC
*
117648 AGATAATTTCTTGAC
1 A-A-AAGTTCTTGAC
117663 AAA
1 AAA
117666 TGGAAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 5 0.12
12 11 0.26
13 16 0.37
14 10 0.23
15 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
AAAAGTTCTTGAC
Found at i:118656 original size:12 final size:12
Alignment explanation
Indices: 118641--118674 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
118631 TTCTTTTTTA
118641 TTTTTTTTTT-G
1 TTTTTTTTTTGG
118652 TTTTTTTTTTGG
1 TTTTTTTTTTGG
*
118664 TTTTTGTTTTG
1 TTTTTTTTTTG
118675 TACGAAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGG
Found at i:118662 original size:11 final size:11
Alignment explanation
Indices: 118634--118675 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
118624 TGGACCCTTC
*
118634 TTTTTTATTTT
1 TTTTTTGTTTT
118645 TTTTTTGTTTT
1 TTTTTTGTTTT
118656 TTTTTTGGTTTT
1 TTTTTT-GTTTT
*
118668 TGTTTTGT
1 TTTTTTGT
118676 ACGAAGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:122899 original size:13 final size:13
Alignment explanation
Indices: 122881--122907 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
122871 TACTCAAATG
122881 TATCGATACATTA
1 TATCGATACATTA
122894 TATCGATACATTA
1 TATCGATACATTA
122907 T
1 T
122908 TCAATGTATC
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:127949 original size:15 final size:15
Alignment explanation
Indices: 127910--127950 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
127900 GTGTATTGAC
127910 GATTTTGTGGTGGAT
1 GATTTTGTGGTGGAT
* **
127925 AATTAGGTGGTGGAT
1 GATTTTGTGGTGGAT
127940 GATTTTGTGGT
1 GATTTTGTGGT
127951 AGATTTGGCA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (15 bp):
GATTTTGTGGTGGAT
Found at i:135862 original size:19 final size:19
Alignment explanation
Indices: 135835--135889 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
135825 GTAAAAAGAC
135835 AAAATGTATCGATACATTA
1 AAAATGTATCGATACATTA
* *
135854 TACATGTATCGATACATTA
1 AAAATGTATCGATACATTA
135873 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
135890 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (19 bp):
AAAATGTATCGATACATTA
Found at i:137076 original size:103 final size:103
Alignment explanation
Indices: 136944--137152 Score: 409
Period size: 103 Copynumber: 2.0 Consensus size: 103
136934 AGTTGCCACC
*
136944 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAATTTATCCTTTTTATAAAATTTTAAAAT
1 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
137009 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
66 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
137047 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
1 AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
137112 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
66 CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
137150 AAT
1 AAT
137153 GAAGTTGGGT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (103 bp):
AATCTTTTTATTTAGATATAATTGACAACTTAAGGAAACTTATCCTTTTTATAAAATTTTAAAAT
CAATTAAATTTTATTAAGAACATAATTTTGGTCTAAAA
Found at i:137866 original size:21 final size:21
Alignment explanation
Indices: 137841--137880 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
137831 ATTAAATGAC
*
137841 ATGTTTGTTAACAATAAATTA
1 ATGTTTATTAACAATAAATTA
*
137862 ATGTTTATTAATAATAAAT
1 ATGTTTATTAACAATAAAT
137881 ATATTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
ATGTTTATTAACAATAAATTA
Found at i:138890 original size:3 final size:3
Alignment explanation
Indices: 138882--138911 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
138872 GTATAAAAAT
138882 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
138912 ATTTTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:138902 original size:14 final size:14
Alignment explanation
Indices: 138883--138914 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
138873 TATAAAAATT
138883 TATTATTATTATTA
1 TATTATTATTATTA
138897 TATTATTATTATTA
1 TATTATTATTATTA
138911 TATT
1 TATT
138915 TTTCATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Done.