Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 29
Found at i:638584 original size:15 final size:15
Alignment explanation
Indices: 638564--638593 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
638554 TGTTACGATT
638564 ACTGGACAATGGCTC
1 ACTGGACAATGGCTC
638579 ACTGGACAATGGCTC
1 ACTGGACAATGGCTC
638594 CACTCACTCT
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:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (15 bp):
ACTGGACAATGGCTC
Found at i:642672 original size:9 final size:9
Alignment explanation
Indices: 642658--642737 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
642648 GTAGCTGAAA
642658 ACCGGTTTG
1 ACCGGTTTG
642667 ACCGGTTTTG
1 ACCGG-TTTG
642677 AACCGGGTTTG
1 -ACC-GGTTTG
* *
642688 ATCGGTTCG
1 ACCGGTTTG
*
642697 AACCGGTCTG
1 -ACCGGTTTG
*
642707 ACCGGTCTG
1 ACCGGTTTG
642716 AACCGGTTTG
1 -ACCGGTTTG
*
642726 ACCGGTCTG
1 ACCGGTTTG
642735 ACC
1 ACC
642738 CGACCCGACC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
9 30 0.51
10 20 0.34
11 7 0.12
12 2 0.03
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:642718 original size:19 final size:19
Alignment explanation
Indices: 642657--642735 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
642647 AGTAGCTGAA
*
642657 AACCGGTTTGACCGGTTTTG
1 AACCGGTTTGACCGG-TCTG
*
642677 AACCGGGTTTGATCGGT-TCG
1 AACC-GGTTTGACCGGTCT-G
*
642697 AACCGGTCTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
642716 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
642735 A
1 A
642736 CCCGACCCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
19 31 0.60
20 11 0.21
21 10 0.19
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:646295 original size:43 final size:42
Alignment explanation
Indices: 646235--646565 Score: 355
Period size: 43 Copynumber: 7.8 Consensus size: 42
646225 TTTGTATAAA
*
646235 AAAAACGCCGTTATAGAT-TTGACCTTTTGCGGCGTTTGTATC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGT-TC
646277 AAAAAACGCCGCTATAGAT-TTGACCTTTTGCGGCGTTTGTTC
1 -AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTC
* * * *
646319 CAAAACGTCGTTATAGATCTTGATCTTTTGCGGCGTTTGTTC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTC
* * *
646361 TAAAAACGCTGCGATAGATC-TGACCTTTTGCGGGGTTTGTTTC
1 -AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTG-TTC
* * *
646404 AAAAACGCCACTATAGATC-TGACCTTCTACGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTT-C
* * * ** *
646446 AAAAACGCCACTGTAGATGTCAACCTTTTGTGGCGTTTGTTC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTC
* * * * **
646488 TCAAAACGTCACTATAGATGTCAACCTTTTGCGGCGTTTGTTCC
1 -AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTT-C
*
646532 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGC
646566 ATTTTTTGTT
Statistics
Matches: 247, Mismatches: 34, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
41 17 0.07
42 92 0.37
43 137 0.55
44 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTC
Found at i:646335 original size:84 final size:85
Alignment explanation
Indices: 646236--646565 Score: 389
Period size: 84 Copynumber: 3.9 Consensus size: 85
646226 TTGTATAAAA
** * *
646236 AAAACGCCGTTATAGAT-TTGACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGAT-TTG
1 AAAACGCCACTATAGATCTTGACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTCG
646299 ACCTTTTGCGGCGTTTGTTCC
65 ACCTTTTGCGGCGTTTGTTCC
* ** * * * *
646320 AAAACGTCGTTATAGATCTTGATCTTTTGCGGCGTTTGTTCTAAAAACGCTGCGATAGATCT-GA
1 AAAACGCCACTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGA
* *
646384 CCTTTTGCGGGGTTTGTTTCA
66 CCTTTTGCGGCGTTTG-TTCC
* * * * * *
646405 AAAACGCCACTATAGATC-TGACCTTCTACGGCGTTTGTTCCAAAAACGCCACTGTAGATGTCAA
1 AAAACGCCACTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGA
*
646469 CCTTTTGTGGCGTTTGTTCTC
66 CCTTTTGCGGCGTTTGTTC-C
* * **
646490 AAAACGTCACTATAGATGTCAACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGA
1 AAAACGCCACTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGA
646555 CCTTTTGCGGC
66 CCTTTTGCGGC
646566 ATTTTTTGTT
Statistics
Matches: 206, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
84 88 0.43
85 70 0.34
86 48 0.23
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (85 bp):
AAAACGCCACTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGA
CCTTTTGCGGCGTTTGTTCC
Found at i:651899 original size:14 final size:13
Alignment explanation
Indices: 651873--651898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
651863 CGATACGCCC
651873 CTAAAGTTTTTTT
1 CTAAAGTTTTTTT
651886 CTAAAGTTTTTTT
1 CTAAAGTTTTTTT
651899 TTATTAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
CTAAAGTTTTTTT
Found at i:660082 original size:34 final size:35
Alignment explanation
Indices: 660038--660138 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 35
660028 AAAAAATCAG
*
660038 TTTTAAAATATATATTATATAGTTTTGAAAATGAT
1 TTTTGAAATATATATTATATAGTTTTGAAAATGAT
*
660073 TTTTGAATATATATATTATATAGCTTTGAAAATGAT
1 TTTTGAA-ATATATATTATATAGTTTTGAAAATGAT
660109 TTTTG-AATATATA-TATATAGTTTTTGAAAA
1 TTTTGAAATATATATTATATAG-TTTTGAAAA
660139 CATTTAAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
33 7 0.11
34 15 0.25
35 7 0.11
36 32 0.52
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.49
Consensus pattern (35 bp):
TTTTGAAATATATATTATATAGTTTTGAAAATGAT
Found at i:660287 original size:37 final size:37
Alignment explanation
Indices: 660115--660424 Score: 358
Period size: 37 Copynumber: 8.6 Consensus size: 37
660105 TGATTTTTGA
*
660115 ATATATATATATAGTTTTTGAAAACA-TTT-AAAA---
1 ATATA-ATATATAGTTTTTAAAAACATTTTGAAAACTT
* *
660148 A-ATAATATATAGTTTTT-AAAACAATTTAAAAACTT
1 ATATAATATATAGTTTTTAAAAACATTTTGAAAACTT
660183 ATATAATATATAGTTTTTAATAAACATTTTGAAAACTT
1 ATATAATATATAGTTTTTAA-AAACATTTTGAAAACTT
*
660221 ATATAATATATAGTTATTTTAAAACATTTTGAAAACTT
1 ATATAATATATAGTT-TTTAAAAACATTTTGAAAACTT
*
660259 ATATAATATATAGTTTTTTAAAACATTTTGAAAACTT
1 ATATAATATATAGTTTTTAAAAACATTTTGAAAACTT
* *
660296 GTATAATATATAGTTTTTAAAAACATTTTG-AAA-GT
1 ATATAATATATAGTTTTTAAAAACATTTTGAAAACTT
* *
660331 ATATATTATATAATTTTTAAAAAACATTTTGAAAAC-T
1 ATATAATATATAGTTTTT-AAAAACATTTTGAAAACTT
* * * *
660368 ATATAAAATATAG-TTTTGAAAAC-TTTTTAAAATTAT
1 ATATAATATATAGTTTTTAAAAACATTTTGAAAACT-T
*
660404 ATATAATATAT-GGTTTTAAAA
1 ATATAATATATAGTTTTTAAAA
660425 TCTATTTTAT
Statistics
Matches: 245, Mismatches: 17, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.02
31 16 0.07
32 7 0.03
33 1 0.00
34 8 0.03
35 23 0.09
36 53 0.22
37 65 0.27
38 62 0.25
39 4 0.02
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATAATATATAGTTTTTAAAAACATTTTGAAAACTT
Found at i:660451 original size:16 final size:16
Alignment explanation
Indices: 660430--660485 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 16
660420 TAAAATCTAT
660430 TTTA-TTATTATTATTA
1 TTTATTTATT-TTATTA
660446 TTTATTTATTTTATTA
1 TTTATTTATTTTATTA
* *
660462 --AATTCATTTTATT-
1 TTTATTTATTTTATTA
660475 TTTATTT-TTTT
1 TTTATTTATTTT
660486 GGTCCAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.45
15 3 0.09
16 10 0.30
17 5 0.15
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTTATTTTATTA
Found at i:661697 original size:3 final size:3
Alignment explanation
Indices: 661689--661723 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
661679 TTTAACCCTG
* *
661689 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
661724 TCATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:661749 original size:14 final size:14
Alignment explanation
Indices: 661696--661750 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
661686 CTGTTATTAT
*
661696 TATTATTATTATTAC
1 TATTATTTTTATT-C
661711 TATTATTTTTATT-
1 TATTATTTTTATTC
661724 TCATTATTTTTTATTC
1 T-ATTA-TTTTTATTC
*
661740 TATTACTTTTA
1 TATTATTTTTA
661751 CTCAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 1 0.03
14 9 0.26
15 24 0.69
16 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTTTTATTC
Found at i:662202 original size:23 final size:22
Alignment explanation
Indices: 662170--662223 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
662160 GGCGACAAGC
*
662170 ATAATTGAACATATAAACGAATG
1 ATAATCGAACA-ATAAACGAATG
*
662193 ATAATCGAACACTAAACGAATG
1 ATAATCGAACAATAAACGAATG
* *
662215 TTAAACGAA
1 ATAATCGAA
662224 TATACTCGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (22 bp):
ATAATCGAACAATAAACGAATG
Found at i:662281 original size:23 final size:23
Alignment explanation
Indices: 662229--662319 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 23
662219 ACGAATATAC
* *
662229 TCGTGAACACTAAATGAACATGT
1 TCGTGAACATTAAATGAACAAGT
**
662252 TTATGAACATTAAATGAACAAGT
1 TCGTGAACATTAAATGAACAAGT
* * *
662275 TCGTGAATATATAAACGAACACGT
1 TCGTGAACAT-TAAATGAACAAGT
* * * *
662299 TTGCGAACAATAAATAAACAA
1 TCGTGAACATTAAATGAACAA
662320 ACACGAACAC
Statistics
Matches: 51, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
23 34 0.67
24 17 0.33
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (23 bp):
TCGTGAACATTAAATGAACAAGT
Found at i:662756 original size:11 final size:11
Alignment explanation
Indices: 662740--662781 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
662730 AATTGAACAT
662740 ATAAACGAATG
1 ATAAACGAATG
*
662751 ATAAACGAA-A
1 ATAAACGAATG
662761 ACTAAACGAATG
1 A-TAAACGAATG
*
662773 TTAAACGAA
1 ATAAACGAA
662782 CATGCTCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.04
11 25 0.96
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (11 bp):
ATAAACGAATG
Found at i:662806 original size:11 final size:11
Alignment explanation
Indices: 662790--662828 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
662780 AACATGCTCG
*
662790 TGAACACTAAA
1 TGAACATTAAA
662801 TGAACATTAAA
1 TGAACATTAAA
662812 TGAACATTAAA
1 TGAACATTAAA
662823 TGAACA
1 TGAACA
662829 AGTTCGTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (11 bp):
TGAACATTAAA
Found at i:662851 original size:24 final size:24
Alignment explanation
Indices: 662812--662869 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
662802 GAACATTAAA
*
662812 TGAACAT-TAAATGAACAAGTTCG
1 TGAACATATAAACGAACAAGTTCG
* *
662835 TGAACATATAAACGAACACGTTTG
1 TGAACATATAAACGAACAAGTTCG
*
662859 CGAACA-ATAAA
1 TGAACATATAAA
662870 TAAACAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (24 bp):
TGAACATATAAACGAACAAGTTCG
Found at i:662875 original size:23 final size:23
Alignment explanation
Indices: 662813--662876 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
662803 AACATTAAAT
* *
662813 GAACATTAAATGAACAAGTTCGT
1 GAACAATAAATGAACAAGTTCGC
* * *
662836 GAACATATAAACGAACACGTTTGC
1 GAACA-ATAAATGAACAAGTTCGC
*
662860 GAACAATAAATAAACAA
1 GAACAATAAATGAACAA
662877 ACACGAACAC
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (23 bp):
GAACAATAAATGAACAAGTTCGC
Found at i:665568 original size:42 final size:42
Alignment explanation
Indices: 665521--665613 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
665511 TTTAAAGCAA
**
665521 AAAAAGTAAGAATAAAAAATTAGGGGCCCCAATTATAAAAGT
1 AAAAAGTAAGAATAAAAAATTAAAGGCCCCAATTATAAAAGT
* * * * * *
665563 AAAAAGTGAGATTGAAAAATTAAATGCCTCAATTATAAAGGT
1 AAAAAGTAAGAATAAAAAATTAAAGGCCCCAATTATAAAAGT
665605 AAAAAGTAA
1 AAAAAGTAA
665614 TATTGAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.22
Consensus pattern (42 bp):
AAAAAGTAAGAATAAAAAATTAAAGGCCCCAATTATAAAAGT
Found at i:665636 original size:42 final size:41
Alignment explanation
Indices: 665550--665664 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 41
665540 TTAGGGGCCC
* * *
665550 CAATTATAAAAGTAAAAAGTGAGATTGAAAAATTAAATGCCT
1 CAATTATAAAAGTAAAAAGTAAGATTGAAAAAATAAA-GACT
* *
665592 CAATTATAAAGGTAAAAAGTAATATTGAAAAACATAGAA-ACT
1 CAATTATAAAAGTAAAAAGTAAGATTGAAAAA-ATA-AAGACT
* * *
665634 CAATTATAAAAGTACAGAGTGAGATTGAAAA
1 CAATTATAAAAGTAAAAAGTAAGATTGAAAA
665665 CCTTAGGGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 57 0.93
43 2 0.03
44 2 0.03
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (41 bp):
CAATTATAAAAGTAAAAAGTAAGATTGAAAAAATAAAGACT
Found at i:665727 original size:21 final size:20
Alignment explanation
Indices: 665683--665723 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
665673 TTATCAATTA
665683 TAAATATAAAAAAGTGAGAT
1 TAAATATAAAAAAGTGAGAT
665703 TAAATATAAAAAAGTGAGAT
1 TAAATATAAAAAAGTGAGAT
665723 T
1 T
665724 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (20 bp):
TAAATATAAAAAAGTGAGAT
Found at i:666289 original size:44 final size:43
Alignment explanation
Indices: 666151--666290 Score: 226
Period size: 44 Copynumber: 3.2 Consensus size: 43
666141 CCCGAGTTAA
*
666151 AAAAAAAGAGCGTCTCGCACTAACATGACCTCTGACCAATGTT
1 AAAAAAGGAGCGTCTCGCACTAACATGACCTCTGACCAATGTT
666194 CAAAAAAGGAGCGTCTCGCACTAACATGACCTCTGACCAATGTCT
1 -AAAAAAGGAGCGTCTCGCACTAACATGACCTCTGACCAATGT-T
*
666239 AAAAAAGGAGCGTCTCGCACTAACATGACCTCCGACCAATGCTT
1 AAAAAAGGAGCGTCTCGCACTAACATGACCTCTGACCAATG-TT
*
666283 GAAAAAGG
1 AAAAAAGG
666291 TCCCGCTAGA
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
44 89 0.98
45 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (43 bp):
AAAAAAGGAGCGTCTCGCACTAACATGACCTCTGACCAATGTT
Found at i:678639 original size:29 final size:30
Alignment explanation
Indices: 678607--678674 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
678597 TATAAATGTT
678607 GAAAAATAAA-GGCATAAAT-TAAAACAATA
1 GAAAAATAAAGGGCATAAATGT-AAACAATA
** * *
678636 GAAATTTAAAGGGCATCAATGTAAATAATA
1 GAAAAATAAAGGGCATAAATGTAAACAATA
678666 G-AAAATAAA
1 GAAAAATAAA
678675 CCAATCGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
29 14 0.45
30 16 0.52
31 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (30 bp):
GAAAAATAAAGGGCATAAATGTAAACAATA
Found at i:684446 original size:103 final size:103
Alignment explanation
Indices: 684262--684487 Score: 391
Period size: 103 Copynumber: 2.2 Consensus size: 103
684252 GTCGAGGGTC
684262 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
684327 TTGATCCTTGGCATATGTATATTATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
684365 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
684430 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
684468 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
684488 TATTATATGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
103 116 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:684529 original size:23 final size:23
Alignment explanation
Indices: 684496--684561 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
684486 ATTATTATAT
*
684496 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* * *
684519 GGCACTCCGGTGTAATTATACGT
1 GGCACTACGGTGCAATTATACGC
*
684542 GGCACTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
684562 TGAGCTGTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:689132 original size:64 final size:63
Alignment explanation
Indices: 688984--689138 Score: 154
Period size: 64 Copynumber: 2.4 Consensus size: 63
688974 GAAGGTGTAT
* *** * *
688984 CGATGCACAAGTAGTGCATCGATGCACTCTTTTAATATAAAAACACGAATGCAATTGGTGCAT
1 CGATGCACAGGTAGTGCATCGATGCACTCCAATAATATAAAAACACGAATGCAATTGATGCAC
* * * * *
689047 CGATGCATAAGG-AATGCATCGATGCA-TCCCAATAATA-AACAAACATCGAATGTATTTTATGC
1 CGATGCA-CAGGTAGTGCATCGATGCACT-CCAATAATATAA-AAACA-CGAATGCAATTGATGC
689109 AC
62 AC
689111 CGATGCACAGGTAGTGCATCGATGCACT
1 CGATGCACAGGTAGTGCATCGATGCACT
689139 GATAGGGAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
62 3 0.04
63 34 0.47
64 35 0.48
65 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (63 bp):
CGATGCACAGGTAGTGCATCGATGCACTCCAATAATATAAAAACACGAATGCAATTGATGCAC
Found at i:690126 original size:101 final size:102
Alignment explanation
Indices: 689903--690118 Score: 371
Period size: 101 Copynumber: 2.1 Consensus size: 102
689893 GTCGAGGGTC
689903 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACA-GTGTGAAGTCTAGTGAGACACATAC
* *
689968 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
690006 TATGCGGTCCTTCGGGACATATATGTATTCTTTGGAACA-TGTGAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACAGTGTGAAGTCTAGTGAGACACATACT
*
690070 TGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
690107 TATGTGGTCCTT
1 TATGTGGTCCTT
690119 ATGGACATTA
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 69 0.64
103 38 0.36
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (102 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACAGTGTGAAGTCTAGTGAGACACATACT
TGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:690197 original size:23 final size:23
Alignment explanation
Indices: 690134--690199 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
690124 CATTATTATA
* *
690134 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTATACG
* *
690157 CGGCAC-TCCGTGCAATTATACG
1 TGGCACTTCGGTGCAATTATACG
*
690179 TGGCACTTCGGTGCCATTATA
1 TGGCACTTCGGTGCAATTATA
690200 TGAGCTGTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTATACG
Found at i:691809 original size:21 final size:21
Alignment explanation
Indices: 691765--691809 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
691755 GATTTCTGGG
* * *
691765 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
691786 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
691807 CAA
1 CAA
691810 ACGAACATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:693016 original size:32 final size:31
Alignment explanation
Indices: 692975--693100 Score: 141
Period size: 31 Copynumber: 4.0 Consensus size: 31
692965 GAGTCGAGGG
692975 TTACCTATGTTCTACG-GAACATATGGACAGTT
1 TTACCTATGTTCTACGAG-ACATATGGACAG-T
*
693007 TTACCTATG-TCTTTCGAGACATATGGACAGT
1 TTACCTATGTTC-TACGAGACATATGGACAGT
* *
693038 ATACCTATGTTCTAAG-GAACATATGGACAGT
1 TTACCTATGTTCTACGAG-ACATATGGACAGT
* * *
693069 TTACCTAGGTTCTTCGAGACCTATGGACAGT
1 TTACCTATGTTCTACGAGACATATGGACAGT
693100 T
1 T
693101 ACCGAGGATC
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.01
31 51 0.64
32 27 0.34
33 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (31 bp):
TTACCTATGTTCTACGAGACATATGGACAGT
Found at i:693120 original size:30 final size:30
Alignment explanation
Indices: 693086--693304 Score: 386
Period size: 30 Copynumber: 7.3 Consensus size: 30
693076 GGTTCTTCGA
*
693086 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
*
693116 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
693146 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
693176 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
693206 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
693236 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
693266 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
693295 GACCTCTGGA
1 GACCTCTGGA
693305 TAGGTCCTTC
Statistics
Matches: 185, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
29 18 0.10
30 167 0.90
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:693587 original size:2 final size:2
Alignment explanation
Indices: 693575--693606 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
693565 GTATGCGTGG
*
693575 AT AT GT 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
693607 GAAAGGTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:698538 original size:171 final size:171
Alignment explanation
Indices: 698253--698596 Score: 672
Period size: 171 Copynumber: 2.0 Consensus size: 171
698243 CACCTATAAA
698253 GATGTGTGTAGATTTACTTTAGTATGTATACGAGTAAAAGTGAGAGAAAAAATCGAGAGTTAGAA
1 GATGTGTGTAGATTTACTTTAGTATGTATACGAGTAAAAGTGAGAGAAAAAATCGAGAGTTAGAA
698318 ATTGAAGCTTCCCAAAGTTTTGAATAGCGGAGTTTTGTTTATAAATTAGTTTGCGGTTAATGTTT
66 ATTGAAGCTTCCCAAAGTTTTGAATAGCGGAGTTTTGTTTATAAATTAG-TTGCGGTTAATGTTT
698383 GTATCATA-TTGTATTTTTATTTCGTATTAATAATAATGTGC
130 GTATCATATTTGTATTTTTATTTCGTATTAATAATAATGTGC
698424 GATGTGTGTAGATTTACTTTAGTATGTATACGAGTAAAAGTGAGAGAAAAAATCGAGAGTTAGAA
1 GATGTGTGTAGATTTACTTTAGTATGTATACGAGTAAAAGTGAGAGAAAAAATCGAGAGTTAGAA
698489 ATTGAAGCTTCCCAAAGTTTTGAATAGCGGAGTTTTGTTTATAAATTAGTTGCGGTTAATGTTTG
66 ATTGAAGCTTCCCAAAGTTTTGAATAGCGGAGTTTTGTTTATAAATTAGTTGCGGTTAATGTTTG
698554 TATCATATTTGTATTTTTATTTCGTATTAATAATAATGTGC
131 TATCATATTTGTATTTTTATTTCGTATTAATAATAATGTGC
698595 GA
1 GA
698597 GTTATAAATT
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
170 23 0.13
171 149 0.87
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (171 bp):
GATGTGTGTAGATTTACTTTAGTATGTATACGAGTAAAAGTGAGAGAAAAAATCGAGAGTTAGAA
ATTGAAGCTTCCCAAAGTTTTGAATAGCGGAGTTTTGTTTATAAATTAGTTGCGGTTAATGTTTG
TATCATATTTGTATTTTTATTTCGTATTAATAATAATGTGC
Found at i:704210 original size:21 final size:21
Alignment explanation
Indices: 704159--704211 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
704149 ATTATGACTA
704159 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
704180 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
704201 TCGCAATGCGA
1 TCGCAATGCGA
704212 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:704226 original size:20 final size:21
Alignment explanation
Indices: 704201--704252 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
704191 TTTTCCCAAT
*
704201 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
704221 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
704242 TCGCAATGCGA
1 TCGCAATGCGA
704253 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:704231 original size:41 final size:41
Alignment explanation
Indices: 704186--704377 Score: 113
Period size: 41 Copynumber: 4.7 Consensus size: 41
704176 AATTTCGCGT
*
704186 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
704227 TGCGAATTTGGAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * **
704268 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATAAGTAAATCGCAA
* * * *
704309 TGCGATTTTCATAATTCGTAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAA-TAAGTAAATCGCAA
* * * *
704351 TGCGA-ATACGTAAATCGCAATGCGAAT
1 TGCGATTTTCCTAATTCGCAATGCGAAT
704378 CTTACTATCG
Statistics
Matches: 108, Mismatches: 36, Indels: 15
0.68 0.23 0.09
Matches are distributed among these distances:
39 2 0.02
40 4 0.04
41 90 0.83
42 10 0.09
43 1 0.01
44 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:704296 original size:21 final size:21
Alignment explanation
Indices: 704262--704326 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
704252 ATACTGACTA
* * *
704262 TCGCAATGCAATTTTCCTAAT
1 TCGCATTGCGATTTTCATAAT
* *
704283 TCGCATTGCGATTTACGT-AT
1 TCGCATTGCGATTTTCATAAT
*
704303 TCGCGTTGCGATTTTCATAAT
1 TCGCATTGCGATTTTCATAAT
704324 TCG
1 TCG
704327 TAATGCGAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCATAAT
Found at i:704332 original size:103 final size:103
Alignment explanation
Indices: 704139--704355 Score: 253
Period size: 103 Copynumber: 2.1 Consensus size: 103
704129 GTTTCCAGAT
* * * *
704139 TCGCAACGCGATTATGACTATCGCAATGCGATTTTCCAATTTCGCGTTGCGATTTTCCCAATTCG
1 TCGCAATGCGATTATGACTATCGCAATGCAATTTTCCAATTTCGCATTGCGATTTTACCAATTCG
*
704204 CAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAA
66 CAATGCGAATAAGTAAATCGCAATGCGAATTAGGAAAA
**
704242 TCGCAATGCGA-TACTGACTATCGCAATGCAATTTTCCTAA-TTCGCATTGCGA-TTTACGTATT
1 TCGCAATGCGATTA-TGACTATCGCAATGCAATTTTCC-AATTTCGCATTGCGATTTTACCAATT
** * * * *
704304 CGCGTTGCGATTTTCA-TAATTCGTAATGCGAATTAGGAAAA
64 CGCAATGCGA--ATAAGTAAATCGCAATGCGAATTAGGAAAA
704345 TCGCAATGCGA
1 TCGCAATGCGA
704356 ATACGTAAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
102 17 0.18
103 76 0.78
104 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (103 bp):
TCGCAATGCGATTATGACTATCGCAATGCAATTTTCCAATTTCGCATTGCGATTTTACCAATTCG
CAATGCGAATAAGTAAATCGCAATGCGAATTAGGAAAA
Found at i:704352 original size:21 final size:21
Alignment explanation
Indices: 704328--704377 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
704318 CATAATTCGT
*
704328 AATGCGAATTAGGAAAATCGC
1 AATGCGAATTACGAAAATCGC
*
704349 AATGCGAA-TACGTAAATCGC
1 AATGCGAATTACGAAAATCGC
704369 AATGCGAAT
1 AATGCGAAT
704378 CTTACTATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (21 bp):
AATGCGAATTACGAAAATCGC
Found at i:704392 original size:20 final size:20
Alignment explanation
Indices: 704201--704377 Score: 74
Period size: 20 Copynumber: 8.7 Consensus size: 20
704191 TTTTCCCAAT
*
704201 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
** *
704221 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
704242 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
* * *
704262 TCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAA--TACGTAAA
* * *
704283 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * * * *
704303 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
* * *
704324 TCGTAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
704345 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
704365 TCGCAATGCGAAT
1 TCGCAATGCGAAT
704378 CTTACTATCG
Statistics
Matches: 117, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
19 2 0.02
20 60 0.51
21 50 0.43
22 4 0.03
23 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:704947 original size:19 final size:19
Alignment explanation
Indices: 704908--704974 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
704898 TTCGAGAATG
* *
704908 AAAATTGCAACGCGGAAATA
1 AAAATCGCAACGC-AAAATA
**
704928 ACTATCGCAACGCAAAATA
1 AAAATCGCAACGCAAAATA
* **
704947 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCAAAATA
704966 AAAATCGCA
1 AAAATCGCA
704975 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 28 0.74
20 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCAAAATA
Found at i:705011 original size:14 final size:14
Alignment explanation
Indices: 704992--705047 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
704982 TTTCATTTCG
704992 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
705006 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
705025 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
705039 CGTTGCGAT
1 CGTTGCGAT
705048 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:705021 original size:33 final size:33
Alignment explanation
Indices: 704975--705071 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
704965 CAAAATCGCA
**
704975 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
705008 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
705041 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
705072 ATTATCTCGT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 46 0.75
34 15 0.25
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:705073 original size:20 final size:19
Alignment explanation
Indices: 704970--705096 Score: 94
Period size: 20 Copynumber: 7.1 Consensus size: 19
704960 GAAACCAAAA
* *
704970 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
704989 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
705005 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
705022 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
705038 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
705055 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTCTCATT
* *
705075 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTCTCATT
705095 TC
1 TC
705097 AACCAAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 22 0.26
16 2 0.02
17 2 0.02
19 27 0.32
20 30 0.36
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:707265 original size:21 final size:21
Alignment explanation
Indices: 707249--707307 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
707239 CGAGAGTCCC
707249 CTCCCACCGTTCAAGAGGCCA
1 CTCCCACCGTTCAAGAGGCCA
** * * *
707270 CTGTCATCGTTGAAGAGGCCT
1 CTCCCACCGTTCAAGAGGCCA
*
707291 CTCCCACCATTCAAGAG
1 CTCCCACCGTTCAAGAG
707308 CCCGATTCAC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (21 bp):
CTCCCACCGTTCAAGAGGCCA
Found at i:707265 original size:42 final size:42
Alignment explanation
Indices: 707189--707307 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
707179 GACTCACCTG
* * *
707189 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
707231 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
** * * * *
707273 TCATCGTTGAAGAGGCCTCTCCCACCATTCAAGAG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAG
707308 CCCGATTCAC
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:708683 original size:14 final size:14
Alignment explanation
Indices: 708664--708698 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
708654 ATTATTTAAT
708664 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
708678 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
708692 TGATTTG
1 TGATTTG
708699 CTTAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:708843 original size:14 final size:14
Alignment explanation
Indices: 708824--708880 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
708814 TCGAAATGAA
708824 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
708838 AATCGCAACGTGAAATGAA
1 AATCGCAAC--G--A-GAG
708857 AATCGCAACGAGAG
1 AATCGCAACGAGAG
708871 AATCGCAACG
1 AATCGCAACG
708881 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:708853 original size:33 final size:33
Alignment explanation
Indices: 708806--708895 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
708796 AAAAAGTACT
**
708806 ATCGCAATTCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
708839 ATCGCAACGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
708872 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
708896 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:708913 original size:19 final size:19
Alignment explanation
Indices: 708891--709041 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
708881 CGAAATTAAA
708891 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
708910 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* * *
708925 -CCTCGTTTCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
708943 TTCGCATTACGA----AAT
1 TTCGCGTTGCGATTTTCAT
708958 -TCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
708976 TTTGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
708991 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
709009 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
709028 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
709042 AGACATTAAG
Statistics
Matches: 92, Mismatches: 24, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 24 0.26
15 2 0.02
16 6 0.07
17 6 0.07
18 2 0.02
19 42 0.46
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:708942 original size:33 final size:32
Alignment explanation
Indices: 708895--709021 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
708885 ATTAAATTCG
708895 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* * *
708928 CGTTTCGATTTTCATTTCGCATTACGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
708961 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
708994 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
709022 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:708970 original size:66 final size:66
Alignment explanation
Indices: 708888--709016 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
708878 ACGCGAAATT
*
708888 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTTCGATTTTCATTTCGCATTAC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
708953 G
66 G
* *
708954 AAATTCGCGTTGCGATTTTCATTTTGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATT
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATT
709017 GCGATAGTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.44
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTAC
G
Found at i:711330 original size:12 final size:12
Alignment explanation
Indices: 711313--711337 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
711303 TCTTCGGGGA
711313 CTTTTTCTTCTT
1 CTTTTTCTTCTT
711325 CTTTTTCTTCTT
1 CTTTTTCTTCTT
711337 C
1 C
711338 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:711541 original size:24 final size:24
Alignment explanation
Indices: 711511--711565 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
711501 TCTGAAACAT
711511 CATCAAAATCCGAGTATTGACCAA
1 CATCAAAATCCGAGTATTGACCAA
* *
711535 CATCAAAGTCCGGGTATTGACCAA
1 CATCAAAATCCGAGTATTGACCAA
*
711559 GATCAAA
1 CATCAAA
711566 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (24 bp):
CATCAAAATCCGAGTATTGACCAA
Found at i:712359 original size:21 final size:21
Alignment explanation
Indices: 712335--712389 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
712325 CGATTTTCCT
*
712335 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
**
712356 AATT-GCAATGCGAATTTGGA
1 AATTCGCAATGCGAATAAGGA
*
712376 AAATCGCAATGCGA
1 AATTCGCAATGCGA
712390 TACTGACTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:712411 original size:20 final size:20
Alignment explanation
Indices: 712378--712456 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
712368 AATTTGGAAA
* *
712378 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
712398 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
712419 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
712439 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
712457 AAATCGTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 30 0.62
21 14 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:712704 original size:20 final size:20
Alignment explanation
Indices: 712679--712746 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
712669 CAACGGGGAA
712679 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
712699 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
*
712719 ATTGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
712739 ATCGCAAC
1 ATCGCAAC
712747 TAGAAAATCG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 5 0.15
20 24 0.71
21 5 0.15
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:712817 original size:19 final size:19
Alignment explanation
Indices: 712795--712840 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
712785 TTTCTCGTTG
712795 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
*
712814 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTA
712833 CGATTTTC
1 CGATTTTC
712841 TCGTTGCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:714904 original size:20 final size:19
Alignment explanation
Indices: 714862--715014 Score: 74
Period size: 20 Copynumber: 8.4 Consensus size: 19
714852 TAGTTTACTT
* * *
714862 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAATA
*
714882 TCGCAACGCGAAAATGACTA
1 TCGCAACGCG-AAATGAATA
* **
714902 TCGCAACACGGAAATGGTTA
1 TCGCAACGC-GAAATGAATA
* *
714922 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAATA
*
714941 TCGCAA--CGACA--AA-A
1 TCGCAACGCGAAATGAATA
* *
714955 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAATA
*
714974 TCGCAA--CGACA--AA-A
1 TCGCAACGCGAAATGAATA
* *
714988 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAATA
715007 TCGCAACG
1 TCGCAACG
715015 ACAAAATCGC
Statistics
Matches: 104, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
14 14 0.13
15 4 0.04
16 8 0.08
17 8 0.08
18 4 0.04
19 28 0.27
20 34 0.33
21 4 0.04
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAATA
Found at i:714956 original size:14 final size:14
Alignment explanation
Indices: 714937--715060 Score: 86
Period size: 14 Copynumber: 7.9 Consensus size: 14
714927 ATGCGAAATG
714937 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
714951 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
714970 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
714984 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
715003 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
715017 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
715033 ATGAAATCGTAACGAC
1 A--AAATCGCAACGAC
715049 AAAATCGCAACG
1 AAAATCGCAACG
715061 CGAAACACAA
Statistics
Matches: 88, Mismatches: 8, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
14 40 0.45
15 2 0.02
16 12 0.14
17 4 0.05
18 10 0.11
19 20 0.23
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:714963 original size:33 final size:33
Alignment explanation
Indices: 714921--715065 Score: 265
Period size: 33 Copynumber: 4.4 Consensus size: 33
714911 GGAAATGGTT
714921 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
714954 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
714987 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
715020 ATCGCAATGCGAAATG-AAATCGTAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
715052 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
715066 CACAAATCGC
Statistics
Matches: 110, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 28 0.25
33 82 0.75
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:715158 original size:33 final size:33
Alignment explanation
Indices: 715077--715167 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 33
715067 ACAAATCGCA
* *
715077 TTGCGATTTTCATTTCACGTTGCGATTTGGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTGGTCG
*
715110 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTGGTCG
*
715142 TTGTGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
715168 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 28 0.53
33 25 0.47
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTGGTCG
Found at i:715186 original size:20 final size:19
Alignment explanation
Indices: 715152--715206 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
715142 TTGTGATTTT
*
715152 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
715171 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
715191 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
715207 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:715714 original size:18 final size:18
Alignment explanation
Indices: 715688--715732 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
715678 GTCGATCAGA
*
715688 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
715706 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
715724 TGATGGCTC
1 TGATGGCTC
715733 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:717099 original size:20 final size:20
Alignment explanation
Indices: 717051--717109 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
717041 AATAGTTTCT
** *
717051 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
717071 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
717091 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
717110 AGATAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:717400 original size:22 final size:22
Alignment explanation
Indices: 717373--717416 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
717363 GATGGAGATA
717373 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
717395 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
717417 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:717630 original size:20 final size:20
Alignment explanation
Indices: 717605--717656 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
717595 ATTATGTGTT
717605 ATCGCGTTGCAAAAGTCAGA
1 ATCGCGTTGCAAAAGTCAGA
* *
717625 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCAAAAGTCAGA
*
717645 ATCTCGTTGCAA
1 ATCGCGTTGCAA
717657 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCAAAAGTCAGA
Found at i:717693 original size:20 final size:20
Alignment explanation
Indices: 717665--717718 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
717655 AATTTTGTAT
717665 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
717685 TATCTCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
717705 TATCGCATTGCGAT
1 TATCGCATTGCGAT
717719 TTTCCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:717829 original size:21 final size:21
Alignment explanation
Indices: 717789--717829 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
717779 ACTGTAGACC
** *
717789 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
717810 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
717830 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:719966 original size:22 final size:22
Alignment explanation
Indices: 719917--719966 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
719907 ATTCGGGAAC
* *
719917 ACTAGCAATCTAATTCAGTAAA
1 ACTAGTAATCCAATTCAGTAAA
719939 ACTAGTAATCCAATTCAGTAAA
1 ACTAGTAATCCAATTCAGTAAA
719961 ACTAGT
1 ACTAGT
719967 GTTCCCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (22 bp):
ACTAGTAATCCAATTCAGTAAA
Found at i:725612 original size:12 final size:12
Alignment explanation
Indices: 725597--725642 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
725587 CGGTTTTTTT
*
725597 ACCGGATAAAAA
1 ACCGGTTAAAAA
725609 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
725624 ACCGGTTAAAAA
1 ACCGGTTAAAAA
725636 ACCGGTT
1 ACCGGTT
725643 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:725624 original size:15 final size:13
Alignment explanation
Indices: 725603--725643 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
725593 TTTTACCGGA
725603 TAAAAAACCGGTT
1 TAAAAAACCGGTT
725616 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
725630 TAAAAAACCGGTT
1 TAAAAAACCGGTT
725643 T
1 T
725644 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:727966 original size:21 final size:21
Alignment explanation
Indices: 727942--727983 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
727932 AGTTTATTTT
*
727942 TAAACTTTATTTTAATTATCG
1 TAAACTTTATTTCAATTATCG
*
727963 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
727984 AACTTGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:728031 original size:33 final size:33
Alignment explanation
Indices: 727972--728080 Score: 161
Period size: 33 Copynumber: 3.4 Consensus size: 33
727962 GTAAACTTTG
727972 TTTCAA-TTATCGAACTT-GAAGTTTTTAAGTA
1 TTTCAATTTATCGAACTTGGAAGTTTTTAAGTA
*
728003 TTTGAATTTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTTATCGAACTTGGAAGTTTTTAAGTA
* * *
728036 TTTTAATTTATCGAACTTGGAAGTATTTAAATA
1 TTTCAATTTATCGAACTTGGAAGTTTTTAAGTA
728069 TTTCAA-TTATCG
1 TTTCAATTTATCG
728081 TAAACTTTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
31 5 0.07
32 17 0.24
33 49 0.69
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (33 bp):
TTTCAATTTATCGAACTTGGAAGTTTTTAAGTA
Found at i:728294 original size:15 final size:17
Alignment explanation
Indices: 728268--728299 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
728258 TTCTATGGGA
728268 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
728284 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
728300 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:734139 original size:17 final size:19
Alignment explanation
Indices: 734100--734140 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
734090 AAATTTTTGT
734100 TTAAAATAAATATAATCAA
1 TTAAAATAAATATAATCAA
*
734119 -TAAAAT-AATATACT-AA
1 TTAAAATAAATATAATCAA
734135 TTAAAA
1 TTAAAA
734141 AGTTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAAAATAAATATAATCAA
Found at i:735263 original size:21 final size:21
Alignment explanation
Indices: 735219--735294 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
735209 TTGCAGCCTT
* *
735219 GATGCATGGATGCATGAC-AG
1 GATGCATCGATGCATGGCAAG
735239 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
735260 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
735281 GATGCATCGATGCA
1 GATGCATCGATGCA
735295 CTAATTGCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 16 0.30
21 37 0.70
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:735383 original size:21 final size:21
Alignment explanation
Indices: 735357--735414 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
735347 CATTAGTGCA
735357 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
735378 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
735399 GATGCATGGATGCACT
1 GATGCATGGATGCACT
735415 TTGACACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:735552 original size:30 final size:31
Alignment explanation
Indices: 735498--735558 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
735488 AACTTTGAAT
735498 AAATTCAATTCAAATCCAAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAAACATTTTGC
*
735529 AAATTCAATTCAAGTCC-AAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAAACATTTTGC
735559 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (31 bp):
AAATTCAATTCAAATCCAAAAAACATTTTGC
Found at i:737805 original size:34 final size:33
Alignment explanation
Indices: 737745--737810 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
737735 CCTTACAACT
* *
737745 CCCTAGTTTTTCACGGGTTAAACTAGAACCTTA
1 CCCTAGTTTTACACGGGCTAAACTAGAACCTTA
*
737778 CCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 CCCTAG-TTTTACACGGGCTAAACTAGAACCTT
737811 TCCCCTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (33 bp):
CCCTAGTTTTACACGGGCTAAACTAGAACCTTA
Found at i:738222 original size:21 final size:21
Alignment explanation
Indices: 738178--738253 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
738168 TTGCAGCCTT
* *
738178 GATGCATGGATGCATGAC-AG
1 GATGCATCGATGCATGGCAAG
738198 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
*
738219 GATGCATCAATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
738240 GATGCATCGATGCA
1 GATGCATCGATGCA
738254 CTAATTGCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 16 0.31
21 35 0.69
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:738343 original size:21 final size:21
Alignment explanation
Indices: 738317--738373 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
738307 ATTAGTGCAT
738317 ATGCATGGATGCACTGCAGGG
1 ATGCATGGATGCACTGCAGGG
*
738338 ATGCATGGATGCATTGCAGGG
1 ATGCATGGATGCACTGCAGGG
*
738359 ATGCATGAATGCACT
1 ATGCATGGATGCACT
738374 TTGACACCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (21 bp):
ATGCATGGATGCACTGCAGGG
Found at i:738491 original size:30 final size:30
Alignment explanation
Indices: 738457--738516 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
738447 AACTTTGAAT
738457 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
738487 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
738517 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:740753 original size:34 final size:33
Alignment explanation
Indices: 740693--740758 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
740683 CCTTACAACT
* *
740693 CCCTAGTTTTTCACGGGTTAAACTAGAACCTTA
1 CCCTAGTTTTACACGGGCTAAACTAGAACCTTA
*
740726 CCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 CCCTAG-TTTTACACGGGCTAAACTAGAACCTT
740759 TCCCCTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (33 bp):
CCCTAGTTTTACACGGGCTAAACTAGAACCTTA
Found at i:741171 original size:21 final size:21
Alignment explanation
Indices: 741127--741202 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
741117 TTGCAGCCTT
* *
741127 GATGCATGGATGCATGAC-AG
1 GATGCATCGATGCATGGCAAG
741147 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
741168 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
741189 GATGCATCGATGCA
1 GATGCATCGATGCA
741203 CTAATTGCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 16 0.30
21 37 0.70
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:741288 original size:13 final size:13
Alignment explanation
Indices: 741267--741333 Score: 55
Period size: 13 Copynumber: 5.9 Consensus size: 13
741257 TTAGTGCAGA
*
741267 TGCATGGATGCAC
1 TGCAGGGATGCAC
741280 TGCAGGGATGCA-
1 TGCAGGGATGCAC
741292 T----GGATGCAC
1 TGCAGGGATGCAC
741301 TGCAGGGATGCA-
1 TGCAGGGATGCAC
741313 T----GGATGCAC
1 TGCAGGGATGCAC
741322 TGCAGGGATGCA
1 TGCAGGGATGCA
741334 TGGATGCACT
Statistics
Matches: 43, Mismatches: 1, Indels: 20
0.67 0.02 0.31
Matches are distributed among these distances:
8 14 0.33
9 2 0.05
12 2 0.05
13 25 0.58
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.19
Consensus pattern (13 bp):
TGCAGGGATGCAC
Found at i:741291 original size:21 final size:21
Alignment explanation
Indices: 741265--741343 Score: 158
Period size: 21 Copynumber: 3.8 Consensus size: 21
741255 CATTAGTGCA
741265 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
741286 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
741307 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
741328 GATGCATGGATGCACT
1 GATGCATGGATGCACT
741344 TTGACACCCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.20
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:741461 original size:30 final size:30
Alignment explanation
Indices: 741427--741486 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
741417 AACTTTGAAT
741427 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
741457 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
741487 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:743720 original size:34 final size:33
Alignment explanation
Indices: 743658--743728 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
743648 ACCTTACAAC
* *
743658 TCCCTAGTTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
**
743691 TCCCTAGCTTTTACACGGGCTAAGTTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACCTT
743725 TCCC
1 TCCC
743729 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:744137 original size:21 final size:21
Alignment explanation
Indices: 744093--744161 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
744083 TTGCAGCCTT
* *
744093 GATGCATGGATGCATGAC-AG
1 GATGCATCGATGCATGGCAAG
744113 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
744134 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
744155 GATGCAT
1 GATGCAT
744162 GGCAAGGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.20
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:744162 original size:34 final size:34
Alignment explanation
Indices: 744121--744195 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
744111 AGGATGCATC
744121 GATGCATGGCAAGGATGCATCGATGCATGGCAAG
1 GATGCATGGCAAGGATGCATCGATGCATGGCAAG
744155 GATGCATGGCAAGGATGCATCGATGCATGGCAAG
1 GATGCATGGCAAGGATGCATCGATGCATGGCAAG
744189 GATGCAT
1 GATGCAT
744196 CGATGCATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.19
Consensus pattern (34 bp):
GATGCATGGCAAGGATGCATCGATGCATGGCAAG
Found at i:744179 original size:21 final size:21
Alignment explanation
Indices: 744155--744223 Score: 138
Period size: 21 Copynumber: 3.3 Consensus size: 21
744145 GCATGGCAAG
744155 GATGCATGGCAAGGATGCATC
1 GATGCATGGCAAGGATGCATC
744176 GATGCATGGCAAGGATGCATC
1 GATGCATGGCAAGGATGCATC
744197 GATGCATGGCAAGGATGCATC
1 GATGCATGGCAAGGATGCATC
744218 GATGCA
1 GATGCA
744224 CTAATTACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.29, C:0.19, G:0.33, T:0.19
Consensus pattern (21 bp):
GATGCATGGCAAGGATGCATC
Found at i:744183 original size:55 final size:54
Alignment explanation
Indices: 744100--744216 Score: 216
Period size: 55 Copynumber: 2.1 Consensus size: 54
744090 CTTGATGCAT
744100 GGATGCATGACAGGATGCATCGATGCATGGCAAGGATGCATCGATGCATGGCAA
1 GGATGCATGACAGGATGCATCGATGCATGGCAAGGATGCATCGATGCATGGCAA
*
744154 GGATGCATGGCAAGGATGCATCGATGCATGGCAAGGATGCATCGATGCATGGCAA
1 GGATGCATGAC-AGGATGCATCGATGCATGGCAAGGATGCATCGATGCATGGCAA
744209 GGATGCAT
1 GGATGCAT
744217 CGATGCACTA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 10 0.16
55 51 0.84
ACGTcount: A:0.29, C:0.18, G:0.34, T:0.19
Consensus pattern (54 bp):
GGATGCATGACAGGATGCATCGATGCATGGCAAGGATGCATCGATGCATGGCAA
Found at i:744214 original size:34 final size:34
Alignment explanation
Indices: 744121--744216 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
744111 AGGATGCATC
* * *
744121 GATGCATGGCAAGGATGCATCGATGCATGGCAAG
1 GATGCATCGCAAGCATGCAACGATGCATGGCAAG
* * *
744155 GATGCATGGCAAGGATGCATCGATGCATGGCAAG
1 GATGCATCGCAAGCATGCAACGATGCATGGCAAG
* *
744189 GATGCATCG-ATGCATGGCAAGGATGCAT
1 GATGCATCGCAAGCAT-GCAACGATGCAT
744217 CGATGCACTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 4 0.07
34 52 0.93
ACGTcount: A:0.29, C:0.18, G:0.34, T:0.19
Consensus pattern (34 bp):
GATGCATCGCAAGCATGCAACGATGCATGGCAAG
Found at i:744312 original size:21 final size:21
Alignment explanation
Indices: 744286--744343 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
744276 CATTAGTGCA
744286 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
744307 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
744328 GATGCATGGATGCACT
1 GATGCATGGATGCACT
744344 TTGACACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:744482 original size:30 final size:30
Alignment explanation
Indices: 744425--744484 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
744415 AACTTTGAAT
744425 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
744455 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
744485 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:744964 original size:13 final size:14
Alignment explanation
Indices: 744936--744965 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
744926 AGATGATGGT
744936 AAGGAAGATGAAGA
1 AAGGAAGATGAAGA
744950 AAGGAAGAT-AAGA
1 AAGGAAGATGAAGA
744963 AAG
1 AAG
744966 AGGTAGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (14 bp):
AAGGAAGATGAAGA
Found at i:746756 original size:30 final size:30
Alignment explanation
Indices: 746720--746778 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
746710 ACAATTTAAG
746720 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
746750 GCAAAATGTTTTTGGATTTGAATTGAATT
1 GCAAAATGTTTTTGGACTTGAATTGAATT
746779 ATTCAAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:747016 original size:30 final size:30
Alignment explanation
Indices: 746945--747004 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
746935 ACAATTTAAG
746945 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
746975 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
747005 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:747097 original size:8 final size:8
Alignment explanation
Indices: 747084--747183 Score: 55
Period size: 8 Copynumber: 14.0 Consensus size: 8
747074 GGTGTCAAAG
747084 TGCATCCA
1 TGCATCCA
*
747092 TGCATCCC
1 TGCATCCA
*
747100 TGCA---G
1 TGCATCCA
747105 TGCATCCA
1 TGCATCCA
*
747113 TGCATCCC
1 TGCATCCA
747121 TGCA---A
1 TGCATCCA
747126 TGCATCCA
1 TGCATCCA
747134 TGCAT-C-
1 TGCATCCA
*
747140 TGCA-CTAA
1 TGCATC-CA
*
747148 TGCATCGA
1 TGCATCCA
747156 TGCAT-CA
1 TGCATCCA
747163 TGCA---A
1 TGCATCCA
747168 TGCATCCA
1 TGCATCCA
747176 TGCATCCA
1 TGCATCCA
747184 AACATCGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 26
0.68 0.08 0.25
Matches are distributed among these distances:
5 13 0.18
6 4 0.06
7 6 0.08
8 47 0.66
9 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (8 bp):
TGCATCCA
Found at i:747108 original size:21 final size:21
Alignment explanation
Indices: 747084--747182 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
747074 GGTGTCAAAG
*
747084 TGCATCCATGCATCCCTGCAG
1 TGCATCCATGCATCCCTGCAA
747105 TGCATCCATGCATCCCTGCAA
1 TGCATCCATGCATCCCTGCAA
747126 TGCATCCATGCAT--CTGCACTAA
1 TGCATCCATGCATCCCTG--C-AA
* *
747148 TGCATCGATGCAT-CATGCAA
1 TGCATCCATGCATCCCTGCAA
747168 TGCATCCATGCATCC
1 TGCATCCATGCATCC
747183 AAACATCGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
19 3 0.04
20 14 0.20
21 36 0.52
22 14 0.20
23 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.25
Consensus pattern (21 bp):
TGCATCCATGCATCCCTGCAA
Found at i:747128 original size:13 final size:13
Alignment explanation
Indices: 747112--747179 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
747102 CAGTGCATCC
*
747112 ATGCATCCCTGCA
1 ATGCATCCATGCA
747125 ATGCATCCATGCA
1 ATGCATCCATGCA
* *
747138 TCTGCA-CTAATGCA
1 -ATGCATC-CATGCA
747152 TCGATGCAT-CATGCA
1 ---ATGCATCCATGCA
747167 ATGCATCCATGCA
1 ATGCATCCATGCA
747180 TCCAAACATC
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 6 0.14
13 19 0.44
14 9 0.21
15 5 0.12
16 4 0.09
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (13 bp):
ATGCATCCATGCA
Found at i:747171 original size:20 final size:20
Alignment explanation
Indices: 747084--747256 Score: 110
Period size: 20 Copynumber: 8.8 Consensus size: 20
747074 GGTGTCAAAG
* *
747084 TGCATCCATGCATCCCTGCAG
1 TGCATCCATGCAT-CATGCAA
*
747105 TGCATCCATGCATCCCTGCAA
1 TGCATCCATGCAT-CATGCAA
747126 TGCATCCATGCATC-TGCACTAA
1 TGCATCCATGCATCATG--C-AA
*
747148 TGCATCGATGCATCATGCAA
1 TGCATCCATGCATCATGCAA
747168 TGCATCCATGCATC---CAA
1 TGCATCCATGCATCATGCAA
* * * *
747185 -ACATCGAATGCA--AT-TAG
1 TGCATC-CATGCATCATGCAA
* * *
747202 TGCATCGATGCATCTTGCTA
1 TGCATCCATGCATCATGCAA
* * *
747222 TGCATCGATGCATCCTGCGA
1 TGCATCCATGCATCATGCAA
747242 TGCATCCATGCATCA
1 TGCATCCATGCATCA
747257 AGGCTGCAAC
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
16 4 0.03
17 14 0.11
18 4 0.03
19 3 0.02
20 47 0.38
21 35 0.28
22 15 0.12
23 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (20 bp):
TGCATCCATGCATCATGCAA
Found at i:749930 original size:31 final size:31
Alignment explanation
Indices: 749810--749931 Score: 95
Period size: 31 Copynumber: 3.9 Consensus size: 31
749800 ATGATCATTT
* *
749810 TGGTTATTAAATTT-TCATAA-GTTATAAAAA
1 TGGTCATTAAATTTATCAAAATGTTAT-AAAA
* * * * *
749840 TGGTCATTAAATATAACTATATGTTACAAAA
1 TGGTCATTAAATTTATCAAAATGTTATAAAA
* ***
749871 TGGTCATTAAGTTTTATCAAACCATTATAAAA
1 TGGTCATTAA-ATTTATCAAAATGTTATAAAA
* *
749903 TGATCATTAAATTTATCAAAATTTTATAA
1 TGGTCATTAAATTTATCAAAATGTTATAA
749932 TTATTATAAC
Statistics
Matches: 68, Mismatches: 21, Indels: 5
0.72 0.22 0.05
Matches are distributed among these distances:
30 12 0.18
31 31 0.46
32 25 0.37
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (31 bp):
TGGTCATTAAATTTATCAAAATGTTATAAAA
Found at i:750403 original size:2 final size:2
Alignment explanation
Indices: 750396--750426 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
750386 AAATGAATGA
750396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
750427 AAACAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:750830 original size:33 final size:32
Alignment explanation
Indices: 750790--750892 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 32
750780 AAATGCTTCA
750790 GTTTTAGTGTTTTAATATGACTCAAATACGTTG
1 GTTTTAGTGTTTTAATA-GACTCAAATACGTTG
750823 GTTTTAGTGTTTTAATAGAACTCAAATACGTTG
1 GTTTTAGTGTTTTAATAG-ACTCAAATACGTTG
*
750856 GTTTTAGTGTTTCAATAGGACTCAAATACGTTG
1 GTTTTAGTGTTTTAATA-GACTCAAATACGTTG
750889 GTTT
1 GTTT
750893 ATTTTATGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
32 1 0.01
33 65 0.97
34 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (32 bp):
GTTTTAGTGTTTTAATAGACTCAAATACGTTG
Found at i:751469 original size:84 final size:83
Alignment explanation
Indices: 751313--752009 Score: 508
Period size: 84 Copynumber: 8.4 Consensus size: 83
751303 TGATACGCCC
* * * * * * *
751313 TCGAGCTGAATGGAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTTAGTTAT
1 TCGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
*
751375 G-C-TACAAATGATGGTGTCT
66 GTCGT--AAATGAT-GTGCCT
* *
751394 TTGATCTGAGTAG-AGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
1 TCGAGCTGAGT-GTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
*
751458 TGTCGTAAATGATGTGCCC
65 TGTCGTAAATGATGTGCCT
* * * * * * * * *
751477 TCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTG--G-CTGATAGCCCTTCTCGACTTAAGCTA
1 TCG-AGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
* *
751539 AGTTGTAAATGATGTGCCT
65 TGTCGTAAATGATGTGCCT
* * * * *
751558 TGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTA
1 TCGAGCTGAGTGTAGTCAAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
* *
751623 T-ACTGCAAATGATGATGCCT
65 TGTC-GTAAATGATG-TGCCT
* * * * *
751643 TTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTCTATCCTTGAGTTAT
1 TCGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
* *
751708 GCCGTAAATGATGTGCCC
66 GTCGTAAATGATGTGCCT
* * * * * * * * * *
751726 TCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TT-TAG-CAGATAGCCTTTCTCGACTTAAGCTA
1 TCG-AGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
* * *
751788 TGTTGCAAATGATGTACCT
65 TGTCGTAAATGATGTGCCT
* ** * * *
751807 TGGAGCTGAGCATAGTCAAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTA
1 TCGAGCTGAGTGTAGTCAAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
751872 TGAT-GTAAATGATGTGTCC-
65 TG-TCGTAAATGATGTG-CCT
* * * * * * * * *
751891 TCGAAGCTGAGTGTAATCGAATTCGAGGGTCTTCGATT-AGCAGATAATCCTTCTTGACTTAAGT
1 TCG-AGCTGAGTGTAGTCAAACTCGAAGGTCTTTG-TTGA-CAGATAACCCTTCTAGCCTTGAGT
* * *
751955 TATGTTGCAAATGATGTACCT
63 TATGTCGTAAATGATGTGCCT
* * * *
751976 TAGAGCTGAGCGTAGTCGAACTCGAAGGCCTTTG
1 TCGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTG
752010 GTGGGCACGA
Statistics
Matches: 478, Mismatches: 111, Indels: 51
0.75 0.17 0.08
Matches are distributed among these distances:
80 44 0.09
81 104 0.22
82 5 0.01
83 16 0.03
84 215 0.45
85 93 0.19
86 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
TCGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
GTCGTAAATGATGTGCCT
Found at i:751521 original size:165 final size:165
Alignment explanation
Indices: 751309--751676 Score: 456
Period size: 165 Copynumber: 2.2 Consensus size: 165
751299 CGGTTGATAC
* * * * *
751309 GCCCTCGAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTTAGTTA
1 GCCCTCGAGCTGAGTGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* * * * * * *
751374 TGCTACAAATGATGGTGTCTTTGATCTGAGTAG-AGTCAAACTCGAAGGTC-TTTGTTGACAGAT
66 AGCTACAAATGAT-GTGCCTTGGAGCTGAG-AGTAGTCAAACTCGAAGGTCTTTTGGTCACAAAT
* *
751437 AACCCTTCTAGCCTTGAGTTAT-GTCGTAAATGATG-T
129 AACCCTTCTAGCCTTGAGTTATACT-GCAAATGATGAT
* * *
751473 GCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCTGATAGCCCTTCTCGACTTAAGCT
1 GCCCTCG-AGCTGAGTGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* ** *
751538 AAGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTCACAAATA
65 AAGCTACAAATGATGTGCCTTGGAGCTGAGAGTAGTCAAACTCGAAGGTCTTTTGGTCACAAATA
751603 ACCCTTCTAGCCTTGAGTTATACTGCAAATGATGAT
130 ACCCTTCTAGCCTTGAGTTATACTGCAAATGATGAT
* * *
751639 GCCTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTG
1 GCCCTCGAGCTGAGTGGAATCGAACTCGAAGGTCTTTG
751677 TTAACAGATA
Statistics
Matches: 173, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
163 1 0.01
164 37 0.21
165 128 0.74
166 7 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (165 bp):
GCCCTCGAGCTGAGTGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
AGCTACAAATGATGTGCCTTGGAGCTGAGAGTAGTCAAACTCGAAGGTCTTTTGGTCACAAATAA
CCCTTCTAGCCTTGAGTTATACTGCAAATGATGAT
Found at i:751797 original size:165 final size:166
Alignment explanation
Indices: 751626--752011 Score: 535
Period size: 165 Copynumber: 2.3 Consensus size: 166
751616 TGAGTTATAC
* * * * *
751626 TGCAAATGATGATGCCTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTAACAGATAACCC
1 TGCAAATGATG-TACCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAACAGATAACCC
* *
751691 TTCTATCCTTGAGTTATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT
65 TTCTAGCCTTGAGTTATGACGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT
751756 C-T-TTAGCAGAT-AGCCTTTCTCGACTTAAGCTATGT
130 CTTATTAGCAGATAAGCC-TTCTCGACTTAAGCTATGT
* * * * *
751791 TGCAAATGATGTACCTTGGAGCTGAGCATAGTCAAACTCAAAGGTCTTTTGGTCACAGATAACCC
1 TGCAAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTAACAGATAACCC
* * *
751856 TTCTAGCCTTGAGTTATGATGTAAATGATGTGTCCTCGAAGCTGAGTGTAATCGAATTCGAGGGT
65 TTCTAGCCTTGAGTTATGACGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT
* * *
751921 CTTCGATTAGCAGATAATCCTTCTTGACTTAAGTTATGT
130 CTT--ATTAGCAGATAAGCCTTCTCGACTTAAGCTATGT
*
751960 TGCAAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAGGCCTTTGGT
1 TGCAAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
752012 GGGCACGATT
Statistics
Matches: 193, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
164 28 0.15
165 88 0.46
166 1 0.01
168 6 0.03
169 67 0.35
170 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (166 bp):
TGCAAATGATGTACCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAACAGATAACCCT
TCTAGCCTTGAGTTATGACGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
TTATTAGCAGATAAGCCTTCTCGACTTAAGCTATGT
Found at i:751800 original size:249 final size:248
Alignment explanation
Indices: 751331--752000 Score: 868
Period size: 249 Copynumber: 2.7 Consensus size: 248
751321 AATGGAATCG
* * * * * *
751331 AACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTTGCCTTTAGTTATGCTACAAATGATGGTGT
1 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGAT-GTGC
* * * *
751392 CTTTGATCTGAGTAGAGTCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTT
65 CTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTCTAGCCTTGAGTT
* * *
751457 ATGTCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCTGATAGCC
130 ATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGCAGATAGCC
* * *
751522 CTTCTCGACTTAAGCTAAGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCA
195 CTTCTCGACTTAAGCTAAGTTGCAAATGATGTACCTTGGAGCTGAGCATAGTCA
*
751576 AACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATGATGC
1 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATG-TGC
*
751641 CTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTCTATCCTTGAGTT
65 CTTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTCTAGCCTTGAGTT
751706 ATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGCAGATAGCC
130 ATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGCAGATAGCC
* *
751771 TTTCTCGACTTAAGCTATGTTGCAAATGATGTACCTTGGAGCTGAGCATAGTCA
195 CTTCTCGACTTAAGCTAAGTTGCAAATGATGTACCTTGGAGCTGAGCATAGTCA
* *
751825 AACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGA-TGTAAATGATGTGT
1 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTAT-ACTGCAAATGATGTG-
* * * * * * * * * * *
751889 CC-TCGAAGCTGAGTGTAATCGAATTCGAGGGTCTTCGATTAGCAGATAATCCTTCTTGACTTAA
64 CCTTTG-AGCTGAGTGGAGTCGAACTCGAAGGTCTTTG-TTAACAGATAACCCTTCTAGCCTTGA
** * * * * * *
751953 GTTATGTTGCAAATGATGTACCTTAG-AGCTGAGCGTAGTCGAACTCGA
127 GTTATGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
752001 AGGCCTTTGG
Statistics
Matches: 373, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
245 12 0.03
246 5 0.01
248 5 0.01
249 310 0.83
250 41 0.11
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (248 bp):
AACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATGATGTGCC
TTTGAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTCTAGCCTTGAGTTA
TGCCGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGCAGATAGCCC
TTCTCGACTTAAGCTAAGTTGCAAATGATGTACCTTGGAGCTGAGCATAGTCA
Found at i:752330 original size:110 final size:110
Alignment explanation
Indices: 752118--752994 Score: 1296
Period size: 110 Copynumber: 8.0 Consensus size: 110
752108 ATCCAAATAT
* * * *
752118 TTGTGTTGTTTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGA--CT--ATGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
*
752179 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * * *
752224 TTGTATTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
752289 AGTTGTTTATTGACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * *
752334 TTGTGTTGTATCGAGTCAAATATCCTTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * *
752399 AGTTGTTTGTTGATAGTCAGCCGCCCCTTCGTTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
*
752444 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAATCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
752509 AATTGTTTGTTGACAGTCAGTTGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* *
752554 TTGTGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAATTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * * * *
752619 AATTATTTGTTGACAGTCAGTCACCCCTTTGTTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * *
752664 TTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTTAAATTGACTCTAAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
752729 AGTTGTTTGTTGACAGTCAGACGCCCTTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * *
752774 TTGTGTTGTCTCGAGTCCAATATCTTTTTGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGAA
1 TTGTGTTGTCTCGAGTCCAATATC-CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAA
* * *
752839 AATTTGTTTGTTGACAGTCAGTCACCCCTTCGTTGTGAAGTTGAGC
65 AAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * *
752885 TTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTTTAAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * * *
752950 ATTTATTTGTTGACCA-TCAGTCACCCATTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGA-CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
752995 AACCACCATC
Statistics
Matches: 693, Mismatches: 72, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
106 41 0.06
108 2 0.00
110 549 0.79
111 101 0.15
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (110 bp):
TTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:757225 original size:3 final size:3
Alignment explanation
Indices: 757217--757241 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
757207 AAATAAAGAT
757217 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
757242 ACAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:767888 original size:23 final size:22
Alignment explanation
Indices: 767838--767888 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
767828 TAAATTTAAA
767838 CTTAAAACAAAAAATATAAAAG
1 CTTAAAACAAAAAATATAAAAG
*
767860 -TATAAAA-AATAAATTATTAAAAG
1 CT-TAAAACAA-AAAATA-TAAAAG
767883 CTTAAA
1 CTTAAA
767889 TATTCAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 3 0.12
22 10 0.42
23 10 0.42
24 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (22 bp):
CTTAAAACAAAAAATATAAAAG
Found at i:768741 original size:24 final size:25
Alignment explanation
Indices: 768699--768748 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
768689 TTTTACGTTA
768699 AGGGATGAGTACTTTATAAAATTTT
1 AGGGATGAGTACTTTATAAAATTTT
*
768724 AGGGATGTGTA-TTTATAAAATTTT
1 AGGGATGAGTACTTTATAAAATTTT
768748 A
1 A
768749 AGACGAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (25 bp):
AGGGATGAGTACTTTATAAAATTTT
Found at i:770398 original size:2 final size:2
Alignment explanation
Indices: 770393--770422 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
770383 AACTTTACCC
*
770393 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
770423 AACTAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:771777 original size:21 final size:21
Alignment explanation
Indices: 771752--771792 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
771742 GCAAATTCGC
771752 GTTGGAAATCGCGTTGCGATA
1 GTTGGAAATCGCGTTGCGATA
771773 GTTGGAAATCGCGTTGCGAT
1 GTTGGAAATCGCGTTGCGAT
771793 GGTATACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (21 bp):
GTTGGAAATCGCGTTGCGATA
Found at i:771891 original size:20 final size:20
Alignment explanation
Indices: 771866--771956 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
771856 TGGGAAAATT
*
771866 GCAATGCGATACTGACTATC
1 GCAACGCGATACTGACTATC
* * *
771886 GCAATGCGATAAT-ACAAAATC
1 GCAACGCGATACTGAC--TATC
* *
771907 GCAACGAGATACTGACTTTC
1 GCAACGCGATACTGACTATC
* *
771927 GCAACGCGATTCTGACTTTC
1 GCAACGCGATACTGACTATC
771947 GCAACGCGAT
1 GCAACGCGAT
771957 TTACATAGCG
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 42 0.71
21 13 0.22
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (20 bp):
GCAACGCGATACTGACTATC
Found at i:771957 original size:20 final size:20
Alignment explanation
Indices: 771905--771957 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
771895 TAATACAAAA
* *
771905 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
771925 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
771945 TCGCAACGCGATT
1 TCGCAACGCGATT
771958 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:772561 original size:19 final size:19
Alignment explanation
Indices: 772514--772555 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
772504 ACGAGATAAT
*
772514 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
772533 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
772552 CGCA
1 CGCA
772556 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:772573 original size:19 final size:19
Alignment explanation
Indices: 772551--772735 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
772541 GAAACAAAAA
* **
772551 TCGCATTGCGATTTTTGTT
1 TCGCGTTGCGATTTTCATT
772570 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
772589 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
772608 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
772628 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
772644 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
772661 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
772675 TCTCGTTGCAATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
772694 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
772714 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
772734 TC
1 TC
772736 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 58 0.43
20 48 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:772628 original size:39 final size:38
Alignment explanation
Indices: 772551--772640 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
772541 GAAACAAAAA
* *
772551 TCGCATTGCGATTTTTGTTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
772589 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
772628 TCGCGTTGCGATT
1 TCGCGTTGCGATT
772641 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 21 0.43
39 28 0.57
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (38 bp):
TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
Done.