Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 27
Found at i:222 original size:31 final size:29
Alignment explanation
Indices: 186--251 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 29
176 TCTAAAAACA
*
186 TAAGATATGATCAATTTTATTTTTATTTAAT
1 TAAGATATGATCAATTTCA-TTTT-TTTAAT
*
217 TAAGATATGATCACTTTCATTTTTTTAAT
1 TAAGATATGATCAATTTCATTTTTTTAAT
246 TAAGAT
1 TAAGAT
252 GTGGCCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 12 0.36
30 4 0.12
31 17 0.52
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (29 bp):
TAAGATATGATCAATTTCATTTTTTTAAT
Found at i:730 original size:25 final size:25
Alignment explanation
Indices: 660--746 Score: 72
Period size: 27 Copynumber: 3.4 Consensus size: 25
650 GATTATATGT
* *
660 AATATAATTATATATATTAACTTA-AA
1 AATAT-ATTTTAT-TATTAACTTATTA
* *
686 AATAT-TTTTA-TGTTATCTTATTA
1 AATATATTTTATTATTAACTTATTA
709 AATATATTTTATTATTAACTTAATTTA
1 AATATATTTTATTATTAACTT-A-TTA
*
736 AAAATATTTTA
1 AATATATTTTA
747 AAATTTTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 8 0.16
23 6 0.12
24 9 0.18
25 7 0.14
26 6 0.12
27 13 0.27
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (25 bp):
AATATATTTTATTATTAACTTATTA
Found at i:2877 original size:24 final size:23
Alignment explanation
Indices: 2843--2896 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
2833 AAAAGTAATT
*
2843 AAATTATTATTTA-TATATTTTATA
1 AAATTAATA-TTAGTATATTTTA-A
*
2867 AAATTAATATTAGTTTATTTTAA
1 AAATTAATATTAGTATATTTTAA
2890 AAATTAA
1 AAATTAA
2897 ATGTATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTAATATTAGTATATTTTAA
Found at i:2941 original size:14 final size:14
Alignment explanation
Indices: 2922--2972 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
2912 AGTTAGATAA
2922 TAATTTAATATATT
1 TAATTTAATATATT
2936 TAATTT-ATATATT
1 TAATTTAATATATT
*
2949 TAACTTAA-ATTATT
1 TAATTTAATA-TATT
2963 TAATTTAATA
1 TAATTTAATA
2973 ACGTAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 13 0.41
14 18 0.56
15 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTTAATATATT
Found at i:5575 original size:16 final size:15
Alignment explanation
Indices: 5554--5587 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
5544 AAGTTTTGGT
5554 GAGCTTAACGAGCAAC
1 GAGCTTAACGAGC-AC
5570 GAGCTTAACGAGCAC
1 GAGCTTAACGAGCAC
5585 GAG
1 GAG
5588 TCGAGCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.35, C:0.24, G:0.29, T:0.12
Consensus pattern (15 bp):
GAGCTTAACGAGCAC
Found at i:5592 original size:27 final size:28
Alignment explanation
Indices: 5562--5639 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 28
5552 GTGAGCTTAA
*
5562 CGAGCAACGAG-CTTAACGAGCACGAGT
1 CGAGCAACAAGTCTTAACGAGCACGAGT
5589 CGAGCAACAAGTTTTCTTAACGAGCACGAGT
1 CGAGCAACAAG---TCTTAACGAGCACGAGT
* *
5620 TGAGCAA-AA-TTTTAACGAGC
1 CGAGCAACAAGTCTTAACGAGC
5640 TTAACGAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 10 0.23
27 10 0.23
30 2 0.05
31 22 0.50
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CGAGCAACAAGTCTTAACGAGCACGAGT
Found at i:5634 original size:26 final size:29
Alignment explanation
Indices: 5573--5680 Score: 91
Period size: 31 Copynumber: 3.8 Consensus size: 29
5563 GAGCAACGAG
5573 CTTAACGAGCACGAGTCGAGCAACAAGTTTT
1 CTTAACGAGCACGAGTCGAGCAACAA--TTT
*
5604 CTTAACGAGCACGAGTTGAGCAA-AA-TT
1 CTTAACGAGCACGAGTCGAGCAACAATTT
** *
5631 -TTAACGAGC-TTA-ACGAGCAACAATTTT
1 CTTAACGAGCACGAGTCGAGCAACAA-TTT
* *
5658 TTTCAACGAGCACAAGTCGAGCA
1 CTT-AACGAGCACGAGTCGAGCA
5681 CTGCCTAACT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
24 6 0.10
25 3 0.05
26 9 0.15
27 4 0.06
28 2 0.03
29 7 0.11
30 3 0.05
31 28 0.45
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (29 bp):
CTTAACGAGCACGAGTCGAGCAACAATTT
Found at i:13652 original size:23 final size:23
Alignment explanation
Indices: 13626--13691 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
13616 TTGAATGATT
* *
13626 CAGTGTTGACTGATTCAGTAAAA
1 CAGTGTTGAATGATTCAGCAAAA
*
13649 CAGTGCTGAATGATTCAGCAAAA
1 CAGTGTTGAATGATTCAGCAAAA
* *
13672 TAGTGTTGAATGATTTAGCA
1 CAGTGTTGAATGATTCAGCA
13692 CATAAGTACA
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:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (23 bp):
CAGTGTTGAATGATTCAGCAAAA
Found at i:15701 original size:24 final size:24
Alignment explanation
Indices: 15674--15719 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15664 AGATATGATT
*
15674 TAAAA-AAACTAAAAATTTATATAA
1 TAAAATAAA-TAAAAATTAATATAA
*
15698 TAAAATAAATCAAAATTAATAT
1 TAAAATAAATAAAAATTAATAT
15720 TTAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAATAAATAAAAATTAATATAA
Found at i:16512 original size:28 final size:28
Alignment explanation
Indices: 16472--16540 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
16462 TTATAACTGA
* *
16472 AAAAAATAAAATAATTA-AATTAAAT-ACT
1 AAAAAATTAAATAA-TACAA-TAAATAAAT
16500 AAAAAATTAAATAATACAATAAATAAAT
1 AAAAAATTAAATAATACAATAAATAAAT
*
16528 AAAATATTAAATA
1 AAAAAATTAAATA
16541 TAATAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAAATTAAATAATACAATAAATAAAT
Found at i:16532 original size:21 final size:20
Alignment explanation
Indices: 16499--16547 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
16489 AATTAAATAC
*
16499 TAAA-AAATTAAATAATACAA
1 TAAATAAATAAAATAATA-AA
*
16519 TAAATAAATAAAATATTAAA
1 TAAATAAATAAAATAATAAA
16539 TATAATAAA
1 TA-AATAAA
16548 ATATATCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAATAAATAAAATAATAAA
Found at i:16547 original size:17 final size:16
Alignment explanation
Indices: 16519--16551 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
16509 AATAATACAA
16519 TAAATAAATAAAATAT
1 TAAATAAATAAAATAT
16535 TAAATATAATAAAATAT
1 TAAATA-AATAAAATAT
16552 ATCTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATAAATAAAATAT
Found at i:21254 original size:13 final size:13
Alignment explanation
Indices: 21236--21278 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
21226 TTGCAAATTG
*
21236 AATTATATAAAAT
1 AATTATAAAAAAT
21249 AATTATAAAAAAT
1 AATTATAAAAAAT
*
21262 AA-AATAAAAATAT
1 AATTATAAAAA-AT
21275 AATT
1 AATT
21279 TTAACTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTATAAAAAAT
Found at i:23561 original size:2 final size:2
Alignment explanation
Indices: 23554--23665 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
23544 GCTTTTCATT
23554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23596 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23666 ATTTCCTACA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23817 original size:2 final size:2
Alignment explanation
Indices: 23810--23920 Score: 215
Period size: 2 Copynumber: 56.0 Consensus size: 2
23800 GATCATATCC
23810 AT 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 AT
23852 -T 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 AT
23893 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
23921 GCGCGCGCCA
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 107 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25917 original size:18 final size:20
Alignment explanation
Indices: 25881--25917 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25871 ATTTATATTT
*
25881 TAAATTATTTAATTCTTATA
1 TAAATTATTAAATTCTTATA
25901 TAAATT-TTAAATT-TTAT
1 TAAATTATTAAATTCTTAT
25918 CAAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAATTATTAAATTCTTATA
Found at i:29400 original size:2 final size:2
Alignment explanation
Indices: 29393--29434 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
29383 ATTCTTTTTA
29393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29434 A
1 A
29435 ATTTGCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29528 original size:37 final size:37
Alignment explanation
Indices: 29446--29902 Score: 385
Period size: 37 Copynumber: 12.1 Consensus size: 37
29436 TTTGCAAACG
* * *
29446 ATTTTTGAAAACATGTATAATATATATAGTTTTCAAAA-
1 ATTTTTGAAAATATATAT-A-ATATATAGTTTTTAAAAT
* **
29484 ATATTTTGGAAATGCATATAATATATAGTTTTTAAAAT
1 AT-TTTTGAAAATATATATAATATATAGTTTTTAAAAT
* * *
29522 ATTTTTGAAAA-CTATATAGTATATAGTTTTTAAAAC
1 ATTTTTGAAAATATATATAATATATAGTTTTTAAAAT
* *
29558 ATTTTAG-AAA-GTATATAATATATAGTTTTTAAAAT
1 ATTTTTGAAAATATATATAATATATAGTTTTTAAAAT
* *
29593 CA-TTTTGAAAACT-TATATAATATATAGTTTTGAAAAC
1 -ATTTTTGAAAA-TATATATAATATATAGTTTTTAAAAT
* ** *
29630 ATTTTTGAAAACATTTATATGTTATATAGTTTTTAAAAAC
1 ATTTTTG-AAA-ATATATATAATATATAGTTTTT-AAAAT
*
29670 ATTTTTTGAAAATATATATAATATATAGTTTTTAAAAC
1 A-TTTTTGAAAATATATATAATATATAGTTTTTAAAAT
* * *
29708 ATTTTTGAAAATATTTATATTATATAGTTTTTAAAAAA
1 ATTTTTGAAAATATATATAATATATAGTTTTT-AAAAT
* *
29746 ACATTTT-AAAA-ATATATAATATTTAGTTTTTAAAAT
1 A-TTTTTGAAAATATATATAATATATAGTTTTTAAAAT
29782 ATTTTTGAAAATATATATATATATATCATATAGTTTTTAAAAT
1 ATTTTTG--AA-A-ATATATATA-AT-ATATAGTTTTTAAAAT
** * *
29825 GCTTTTGAAAATATGTATAATATATAGTTTCTAAAA-
1 ATTTTTGAAAATATATATAATATATAGTTTTTAAAAT
* * * * *
29861 ATGTTT-AGAAATTTATATATTACATATTTTTTGAAAAT
1 ATTTTTGA-AAATATATATAATATATAGTTTTT-AAAAT
29899 ATTT
1 ATTT
29903 ATATATATAA
Statistics
Matches: 346, Mismatches: 48, Indels: 50
0.78 0.11 0.11
Matches are distributed among these distances:
35 34 0.10
36 58 0.17
37 115 0.33
38 31 0.09
39 60 0.17
40 11 0.03
41 15 0.04
42 2 0.01
43 20 0.06
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
ATTTTTGAAAATATATATAATATATAGTTTTTAAAAT
Found at i:29637 original size:12 final size:12
Alignment explanation
Indices: 29620--29645 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29610 TAATATATAG
29620 TTTTGAAAACAT
1 TTTTGAAAACAT
29632 TTTTGAAAACAT
1 TTTTGAAAACAT
29644 TT
1 TT
29646 ATATGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:29707 original size:78 final size:77
Alignment explanation
Indices: 29447--29902 Score: 394
Period size: 76 Copynumber: 6.0 Consensus size: 77
29437 TTGCAAACGA
* * * * ** *
29447 TTTTTGAAAACATGTATAATATATATAGTTTTCAAAA-ATATTTTG-GAAATGCATATAATATAT
1 TTTTTGAAAATATATAT-A-ATATATAGTTTTTAAAACAT-TTTTGAAAAATTTATATATTATAT
*
29510 AGTTTTT-AAAATA-
63 AGTTTTTAAAAACAT
* * * * *
29523 TTTTTGAAAA-CTATATAGTATATAGTTTTTAAAACA-TTTT-AGAAA-GTATATAATATATAGT
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAAATTTATATATTATATAGT
*
29584 TTTTAAAATCA-
66 TTTTAAAAACAT
* *
29595 -TTTTGAAAACT-TATATAATATATAGTTTTGAAAACATTTTTGAAAACATTTATATGTTATATA
1 TTTTTGAAAA-TATATATAATATATAGTTTTTAAAACATTTTTGAAAA-ATTTATATATTATATA
29658 GTTTTTAAAAACAT
64 GTTTTTAAAAACAT
29672 TTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTG-AAAATATT-TATATTATATAG
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAAAT-TTATATATTATATAG
* *
29735 TTTTTAAAAAAAC
65 TTTTTAAAAACAT
* * *
29748 ATTTT-AAAA-ATATATAATATTTAGTTTTTAAAATATTTTTGAAAATATATATATATATATCAT
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAA-AT-T-TATATAT-T-AT
29811 ATAGTTTTT--AAA-AT
61 ATAGTTTTTAAAAACAT
* * * * * * *
29825 GCTTTTGAAAATATGTATAATATATAGTTTCTAAAA-ATGTTT-AGAAATTTATATATTACATAT
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAAATTTATATATTATATAG
* *
29888 TTTTTGAAAATAT
65 TTTTTAAAAACAT
29901 TT
1 TT
29903 ATATATATAA
Statistics
Matches: 324, Mismatches: 31, Indels: 51
0.80 0.08 0.13
Matches are distributed among these distances:
71 28 0.09
72 35 0.11
73 28 0.09
74 36 0.11
75 23 0.07
76 68 0.21
77 10 0.03
78 54 0.17
79 10 0.03
80 32 0.10
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (77 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAAATTTATATATTATATAGT
TTTTAAAAACAT
Found at i:31238 original size:2 final size:2
Alignment explanation
Indices: 31231--31260 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31221 TTTTTATCAG
31231 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
31261 TTAAGTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32537 original size:22 final size:24
Alignment explanation
Indices: 32493--32541 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
32483 AAACTAGGGC
32493 TTTTTCAAAATAAAATATTTTAAA
1 TTTTTCAAAATAAAATATTTTAAA
* *
32517 TTTTTTAAAATAAAAT-TTTAAAA
1 TTTTTCAAAATAAAATATTTTAAA
32540 TT
1 TT
32542 ATCAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTTCAAAATAAAATATTTTAAA
Found at i:36590 original size:7 final size:7
Alignment explanation
Indices: 36578--36603 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36568 CTAACTGCTC
36578 AGAGAGG
1 AGAGAGG
36585 AGAGAGG
1 AGAGAGG
36592 AGAGAGG
1 AGAGAGG
36599 AGAGA
1 AGAGA
36604 ATGTGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (7 bp):
AGAGAGG
Found at i:59612 original size:292 final size:292
Alignment explanation
Indices: 59044--59917 Score: 1669
Period size: 292 Copynumber: 3.0 Consensus size: 292
59034 ATCAAATCTT
59044 CAGCAATTATATTGCAGACAGGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
1 CAGCAATTATATTGCAGACAGGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
*
59109 CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGATTTTGTGTAATGCCTAAAGAATTAT
66 CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGCTTTTGTGTAATGCCTAAAGAATTAT
59174 CTTATTATG-TTACAAGTTTCTTACTTTGAACAAATCCCTGCGTCATATTGGTAATGTCATAATG
131 CTTATTATGTTTACAAGTTTCTTACTTTGAACAAATCCCTGCGTCATATTGGTAATGTCATAATG
59238 CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
196 CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
59303 TTGTTTTACTTTCCTAAGTTTGTAATTAGCAA
261 TTGTTTTACTTTCCTAAGTTTGTAATTAGCAA
*
59335 CAGCAATTATATTGCAGACATGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
1 CAGCAATTATATTGCAGACAGGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
*
59400 CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGCTTTTGTGTAATGCCTAGAGAATTAT
66 CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGCTTTTGTGTAATGCCTAAAGAATTAT
59465 CTTATTATGTTTACAAGTTTCTTACTTTGAACAAATCCCTGCGTCATATTGGTAATGTCATAATG
131 CTTATTATGTTTACAAGTTTCTTACTTTGAACAAATCCCTGCGTCATATTGGTAATGTCATAATG
59530 CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
196 CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
59595 TTGTTTTACTTTCCTAAGTTTGTAATTAGCAA
261 TTGTTTTACTTTCCTAAGTTTGTAATTAGCAA
59627 CAGCAATTATATTGCAGACAGGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
1 CAGCAATTATATTGCAGACAGGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
* *
59692 CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGCTTTTGTTTAATGTCTAAAGAATTAT
66 CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGCTTTTGTGTAATGCCTAAAGAATTAT
* * *
59757 CTTATTATGTTTACAAGTTTCTTACTTTGAACAAATCCTTGCGTCATATTGGTGATATCATAATG
131 CTTATTATGTTTACAAGTTTCTTACTTTGAACAAATCCCTGCGTCATATTGGTAATGTCATAATG
59822 CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
196 CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
59887 TTGTTTTACTTTCCTAAGTTTGTAATTAGCA
261 TTGTTTTACTTTCCTAAGTTTGTAATTAGCA
59918 TTTAATATTT
Statistics
Matches: 572, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
291 136 0.24
292 436 0.76
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (292 bp):
CAGCAATTATATTGCAGACAGGTGTGCGTGCCATGGTTGCCCGTAATGAGTTTGAAACTAGGAAA
CAAAACCATGCTGCAGCTACTATACAGGTTATTGTCCAGCTTTTGTGTAATGCCTAAAGAATTAT
CTTATTATGTTTACAAGTTTCTTACTTTGAACAAATCCCTGCGTCATATTGGTAATGTCATAATG
CTGTTTCATCCTATAAGAAGATTAAAAAGGTATCAGTCCTTTCACAAAGCATATTACGGTAGGTA
TTGTTTTACTTTCCTAAGTTTGTAATTAGCAA
Found at i:61297 original size:21 final size:22
Alignment explanation
Indices: 61270--61331 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
61260 CAGGCTTCTA
61270 AAGAAGAAGAGAAGGACGATGG
1 AAGAAGAAGAGAAGGACGATGG
*
61292 -AGAAGAAGAGAAGGATGATGG
1 AAGAAGAAGAGAAGGACGATGG
61313 AAAGGAAGAAGAGAAGGAC
1 -AA-GAAGAAGAGAAGGAC
61332 AGTGGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 20 0.57
23 1 0.03
24 14 0.40
ACGTcount: A:0.52, C:0.03, G:0.40, T:0.05
Consensus pattern (22 bp):
AAGAAGAAGAGAAGGACGATGG
Found at i:61337 original size:24 final size:23
Alignment explanation
Indices: 61269--61348 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
61259 TCAGGCTTCT
61269 AAAGAAGAAGAGAAGGACGATGG
1 AAAGAAGAAGAGAAGGACGATGG
*
61292 --AGAAGAAGAGAAGGATGATGG
1 AAAGAAGAAGAGAAGGACGATGG
61313 AAAGGAAGAAGAGAAGGAC-AGTGG
1 AAA-GAAGAAGAGAAGGACGA-TGG
*
61337 AAAAGCAGAAGA
1 -AAAGAAGAAGA
61349 AGTAAAAACA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 20 0.41
23 2 0.04
24 24 0.49
25 3 0.06
ACGTcount: A:0.53, C:0.04, G:0.39, T:0.05
Consensus pattern (23 bp):
AAAGAAGAAGAGAAGGACGATGG
Found at i:61347 original size:27 final size:25
Alignment explanation
Indices: 61271--61350 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 25
61261 AGGCTTCTAA
*
61271 AGAAGAAGAGAAGGACGAT-G---G
1 AGAAGAAGAGAAGGAAGATGGAAAG
*
61292 AGAAGAAGAGAAGGATGATGGAAAG
1 AGAAGAAGAGAAGGAAGATGGAAAG
61317 -GAAGAAGAGAAGGACAG-TGGAAAAG
1 AGAAGAAGAGAAGGA-AGATGG-AAAG
61342 CAGAAGAAG
1 -AGAAGAAG
61351 TAAAAACAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
21 18 0.37
22 1 0.02
24 17 0.35
25 6 0.12
27 7 0.14
ACGTcount: A:0.51, C:0.04, G:0.40, T:0.05
Consensus pattern (25 bp):
AGAAGAAGAGAAGGAAGATGGAAAG
Found at i:61392 original size:30 final size:30
Alignment explanation
Indices: 61358--61902 Score: 403
Period size: 30 Copynumber: 18.1 Consensus size: 30
61348 AAGTAAAAAC
61358 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
* * * *
61388 AGAAGTAAAAGCAGAGGAAGAGGAA-AAGAAAGA
1 AGAAG-AAGAGGAAAAGAA-A-GAAGAAG-AAGA
* * * * * *
61421 AGAA-AA-AGCAGAAG-AGGAGGAAAAAGC
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
* *
61448 AGAAGAAGAGGAAAAGAAAGAAGAAAAAGC
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
* * *
61478 AGAAGAGGAAGAAAAGAAAGAAGAAGTAAAAGC
1 AGAAGAAGAGGAAAAGAAAGAAGAAG---AAGA
*
61511 AGAAGAAGAGGAAAAGAAAGAAGTAA-AAGC
1 AGAAGAAGAGGAAAAGAAAGAAG-AAGAAGA
*
61541 AGAAGAAGAGGTAAAGAAAGAAGAAGAAGA
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
* * *
61571 AGTAAAAGCAGAGGAAGAGGAAAAGAAAGAAGAAAA
1 AG---AAGAAGAGGAA-AAG-AAAG-AAGAAGAAGA
* * * *
61607 AGCAGAAGATG--AGGAAA-AAGCAGAAGA
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
* * * *
61634 AGAGGAA-AAG-AAAG-AAGAAAAAGCAGA
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
*
61661 AG-AG--GAGGAAAAGAAAGAAGAAGTAAAAGC
1 AGAAGAAGAGGAAAAGAAAGAAGAAG---AAGA
*
61691 AGAAGAAGAGGAAAAGAAAGAAGTAA-AAGC
1 AGAAGAAGAGGAAAAGAAAGAAG-AAGAAGA
*
61721 AGAAGAAGAGGAAAAGAAAGAAGTAA-AAGC
1 AGAAGAAGAGGAAAAGAAAGAAG-AAGAAGA
*
61751 AGAAGAAGAGGAAAAGAAAGAAGTAA-AAGC
1 AGAAGAAGAGGAAAAGAAAGAAG-AAGAAGA
61781 AGAAGAAGAGGAAAAGAAAGAAGTAA-AAGCA
1 AGAAGAAGAGGAAAAGAAAGAAG-AAGAAG-A
61812 A-AAGAAGAGGAAAAGAAAGAAGAA-AGAGA
1 AGAAGAAGAGGAAAAGAAAGAAGAAGA-AGA
* * *
61841 AGAAGAAGAAGTAAAGAAAGAAGAA-AAAA
1 AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
*
61870 CAGAAGAAGAGGAAAAGAAAGAAGAAAAAGA
1 -AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
61901 AG
1 AG
61903 CCCTACAAAA
Statistics
Matches: 431, Mismatches: 48, Indels: 72
0.78 0.09 0.13
Matches are distributed among these distances:
25 2 0.00
26 9 0.02
27 41 0.10
28 4 0.01
29 19 0.04
30 247 0.57
31 17 0.04
32 4 0.01
33 67 0.16
34 6 0.01
35 4 0.01
36 11 0.03
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.02
Consensus pattern (30 bp):
AGAAGAAGAGGAAAAGAAAGAAGAAGAAGA
Found at i:61471 original size:90 final size:88
Alignment explanation
Indices: 61369--61663 Score: 149
Period size: 87 Copynumber: 3.3 Consensus size: 88
61359 GAAGAAGAGG
* *
61369 AAAAGAAAGAAGAAGAAGAAGAAGTAAAAGCAGAGGAAGAGGAAAAGAAAGAAGAAAAAGCAGAA
1 AAAAG-AAGAAGAA-AAGAAGAAG-AAAAG-AGAAGAAGAAGAAAAGAAAGAAGAAAAAGCAGAA
* * *
61434 GAGGAGGAAAAAGCAGAAGAAGAGGAAAAGA
62 GAAGAGGAAAAAG-A-AAG-A-AGTAAAAGC
* * * * * * *
61465 AAGAAGAAAAAGCAGAAGAGGAAGAAAAGA-AAGAAGAAGTAAAAG-CAGAAG-AAGAGGAAAAG
1 AA-AAGAAGAAG-AAAAGAAGAAGAAAAGAGAAGAAGAAG-AAAAGAAAGAAGAAAAAGCAGAAG
* * * * *
61527 AAAGAAGTAAAAG-CAGAAG-AAGAGG
63 -AAGAGGAAAAAGAAAGAAGTAAAAGC
* * *
61552 TAAAG-A-AAGAAGAAGAAGAAGTAAAAGCAGAGGAAGAGGAAAAGAAAGAAGAAAAAGCAGAAG
1 AAAAGAAGAAGAA-AAGAAGAAG-AAAAG-AGAAGAAGAAGAAAAGAAAGAAGAAAAAGCAGAAG
* * * *
61615 ATGAGGAAAAAG-CAGAAG-AAGAGG
63 AAGAGGAAAAAGAAAGAAGTAAAAGC
*
61639 AAAAGAAAGAAGAAAAAGCAGAAGA
1 AAAAG-AAGAAG-AAAAGAAGAAGA
61664 GGAGGAAAAG
Statistics
Matches: 156, Mismatches: 29, Indels: 35
0.71 0.13 0.16
Matches are distributed among these distances:
83 1 0.01
84 11 0.07
85 6 0.04
86 9 0.06
87 42 0.27
88 10 0.06
89 3 0.02
90 13 0.08
91 2 0.01
92 8 0.05
93 21 0.13
94 6 0.04
95 5 0.03
96 15 0.10
97 4 0.03
ACGTcount: A:0.63, C:0.03, G:0.31, T:0.02
Consensus pattern (88 bp):
AAAAGAAGAAGAAAAGAAGAAGAAAAGAGAAGAAGAAGAAAAGAAAGAAGAAAAAGCAGAAGAAG
AGGAAAAAGAAAGAAGTAAAAGC
Found at i:61593 original size:180 final size:179
Alignment explanation
Indices: 61335--61899 Score: 783
Period size: 180 Copynumber: 3.1 Consensus size: 179
61325 GAAGGACAGT
*
61335 GGAAAAGCAGAAGAAGTAAAAACAGAAGAAGAGGAAAAGAAAGAAGAAGAAGAAGAAGTAAAAGC
1 GGAAAAG-A-AAGAAGTAAAAGCAGAAGAAGAGG-AAAG--A-AAGAAGAAGAAGAAGTAAAAGC
61400 AGAGGAAGAGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAGGAAAAAGCAGAAGAAGAGGAAAAGA
60 AGAGGAAGAGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAGGAAAAAGCAGAAGAAGAGGAAAAGA
61465 AAGAAGAAAAAGCAGAAGAGGAAGAAAAGAAAGAAGAAGTAAAAGCAGAAGAAGA
125 AAGAAGAAAAAGCAGAAGAGGAAGAAAAGAAAGAAGAAGTAAAAGCAGAAGAAGA
61520 GGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGTAAAGAAAGAAGAAGAAGAAGTAAAAGCAGAGG
1 GGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGG-AAAGAAAGAAGAAGAAGAAGTAAAAGCAGAGG
*
61585 AAGAGGAAAAGAAAGAAGAAAAAGCAGAAGATGAGGAAAAAGCAGAAGAAGAGGAAAAGAAAGAA
65 AAGAGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAGGAAAAAGCAGAAGAAGAGGAAAAGAAAGAA
*
61650 GAAAAAGCAGAAGAGGAGGAAAAGAAAGAAGAAGTAAAAGCAGAAGAAGA
130 GAAAAAGCAGAAGAGGAAGAAAAGAAAGAAGAAGTAAAAGCAGAAGAAGA
*
61700 GGAAAAGAAAGAAGTAAAAGCAGAAGAAGA-G---G-AA-AAG-A-AAGAAGTAAAAGCAGAAGA
1 GGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGAAAGAAAGAAGAAGAAGAAGTAAAAGCAGAGGA
* *
61757 AGAGGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAAAAGAAGAGG
66 AGAGGAAAAGAAAGAAG-AAAA--AGCAGAAGAGG---AG---G-A--AAAAGCAGAAGAAGAGG
* * * *
61822 AAAAGAAAGAAGAAAGAGAAGAAGAAGAAGTAAAGAAAGAAGAA--AAAA-CAGAAGAAGA
119 AAAAGAAAGAAGAAAAAGCAGAAGAGGAAGAAAAGAAAGAAGAAGTAAAAGCAGAAGAAGA
*
61880 GGAAAAGAAAGAAGAAAAAG
1 GGAAAAGAAAGAAGTAAAAG
61900 AAGCCCTACA
Statistics
Matches: 354, Mismatches: 14, Indels: 29
0.89 0.04 0.07
Matches are distributed among these distances:
171 35 0.10
172 5 0.01
173 3 0.01
174 11 0.03
175 1 0.00
177 2 0.01
179 1 0.00
180 200 0.56
181 6 0.02
183 82 0.23
184 1 0.00
185 7 0.02
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.02
Consensus pattern (179 bp):
GGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGAAAGAAAGAAGAAGAAGAAGTAAAAGCAGAGGA
AGAGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAGGAAAAAGCAGAAGAAGAGGAAAAGAAAGAAG
AAAAAGCAGAAGAGGAAGAAAAGAAAGAAGAAGTAAAAGCAGAAGAAGA
Found at i:61850 original size:48 final size:46
Alignment explanation
Indices: 61408--61899 Score: 320
Period size: 48 Copynumber: 10.8 Consensus size: 46
61398 GCAGAGGAAG
* * * * *
61408 AGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAGGAAAAAGCAGAAGAAG
1 AGGAAAAGAAAGAAG-AAGAG-AAAAGAAGAAGTAAAAGCAGAAGAAG
* * *
61456 AGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAAG-AAAAG-A-AAGAAG
1 AGGAAAAGAAAGAAG-AAGAG-AAAAGAAGAAGTAAAAGCAGAAGAAG
* *
61501 AAGTAAAAG-CAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAGAAGAAG
1 -AGGAAAAGAAAGAAGAAGA-GAAAAG-AAGAAGTAAAAGCAGAAGAAG
* *
61549 AGGTAAAG--A-AAG-A-AG--AAGAAGAAGTAAAAGCAGAGGAAG
1 AGGAAAAGAAAGAAGAAGAGAAAAGAAGAAGTAAAAGCAGAAGAAG
* * * * *
61588 AGGAAAAGAAAGAAGAAAAAGCAGAAGATGAGGAAAAAGCAGAAGAAG
1 AGGAAAAGAAAGAAG-AAGAG-AAAAGAAGAAGTAAAAGCAGAAGAAG
* *
61636 AGGAAAAGAAAGAAGAA-A-AAGCAGAAGAGGAGGAAAAG-A-AAGAAG
1 AGGAAAAGAAAGAAGAAGAGAA-AAGAAGA--AGTAAAAGCAGAAGAAG
* *
61681 AAGTAAAAG-CAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAGAAGAAG
1 -AGGAAAAGAAAGAAGAAGA-GAAAAG-AAGAAGTAAAAGCAGAAGAAG
* * *
61729 AGGAAAAGAAAGAAGTAAAAGCAGAAGAAG-AGGAAAAG-A-AAG-A-
1 AGGAAAAGAAAGAAG-AAGAG-AAAAGAAGAAGTAAAAGCAGAAGAAG
* * *
61772 AGTAAAAG-CAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAAAAGAAG
1 AGGAAAAGAAAGAAGAAGA-GAAAAG-AAGAAGTAAAAGCAGAAGAAG
61819 AGGAAAAGAAAGAAGAAAGAGAAGAAGAAGAAGT-AAAG-A-AAGAAG
1 AGGAAAAGAAAGAAG-AAGAGAA-AAGAAGAAGTAAAAGCAGAAGAAG
* *
61864 A--AAAA-ACAGAAGAAGAGGAAAAGAAAGAAGAAAAAG
1 AGGAAAAGAAAGAAGAAGA-GAAAAG-AAGAAGTAAAAG
61900 AAGCCCTACA
Statistics
Matches: 366, Mismatches: 37, Indels: 87
0.75 0.08 0.18
Matches are distributed among these distances:
39 27 0.07
40 3 0.01
41 15 0.04
42 28 0.08
43 23 0.06
44 12 0.03
45 53 0.14
46 34 0.09
47 48 0.13
48 109 0.30
49 14 0.04
ACGTcount: A:0.64, C:0.03, G:0.30, T:0.02
Consensus pattern (46 bp):
AGGAAAAGAAAGAAGAAGAGAAAAGAAGAAGTAAAAGCAGAAGAAG
Found at i:61896 original size:60 final size:59
Alignment explanation
Indices: 61387--61898 Score: 484
Period size: 60 Copynumber: 8.7 Consensus size: 59
61377 GAAGAAGAAG
* *
61387 AAGAAGTAAAAGCAGAGGAAGAGGAAAAGAAAGAAG--AAAA-AGCAGAAGAGG---AG-
1 AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAGA
* * *
61440 --G-A-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAAGAAAAGAAA
1 AAGAAGAAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAG--A
* * *
61497 GAAGAAGTAAAAGCAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGTAAAGA
1 -AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAGA
* * * * * * *
61558 AAGAAGAAGAAGAAGTAAAAGCAGAGGAAGAGGAA-AAG-AAAGA-AGAA-AA-AGCAGAAG-
1 AAGAAGAA-AAGCAG---AAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAGA
* * * *
61615 ATGAGGAAAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAGCAGAAGAGGAGGAAAAGAAA
1 AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAG--A
* *
61677 GAAGAAGTAAAAGCAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGAAAAGA
1 -AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAGA
* *
61738 AAGAAGTAAAAGCAGAAGAAGAGGAAAAGAAAGAAGTAAAAGCAGAAGAAGAGGAAAAGA
1 AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAGA
* * * *
61798 AAGAAGTAAAAGCAAAAGAAGAGGAAAAGAAAGAAGAAAGAGA-AGAAGAAGAAGTAAAGA
1 AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAA-AAACAGAAGAAGAGGAAAAGA
*
61858 AAGAAGAAAAAACAGAAGAAGAGGAAAAGAAAGAAGAAAAA
1 AAGAAG-AAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAA
61899 GAAGCCCTAC
Statistics
Matches: 385, Mismatches: 44, Indels: 54
0.80 0.09 0.11
Matches are distributed among these distances:
48 28 0.07
50 4 0.01
51 9 0.02
54 16 0.04
55 3 0.01
56 3 0.01
57 13 0.03
58 8 0.02
59 11 0.03
60 164 0.43
61 7 0.02
62 3 0.01
63 116 0.30
ACGTcount: A:0.64, C:0.03, G:0.30, T:0.02
Consensus pattern (59 bp):
AAGAAGAAAAGCAGAAGAAGAGGAAAAGAAAGAAGAAAAAACAGAAGAAGAGGAAAAGA
Found at i:65040 original size:20 final size:21
Alignment explanation
Indices: 65001--65044 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
64991 TATTAGTAAC
65001 TTAATTTAAAAATAAAATATT
1 TTAATTTAAAAATAAAATATT
*
65022 TTAATTTAAAAAT-ATATATT
1 TTAATTTAAAAATAAAATATT
65042 TTA
1 TTA
65045 TTCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTTAAAAATAAAATATT
Found at i:65059 original size:31 final size:31
Alignment explanation
Indices: 65018--65117 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
65008 AAAAATAAAA
*
65018 TATTTTAATTTAAAAATATATATTTTATTCT
1 TATTTAAATTTAAAAATATATATTTTATTCT
** *
65049 TATTTAAATTTTTAAA-ATATATTTTATTAT
1 TATTTAAATTTAAAAATATATATTTTATTCT
* * *
65079 TATTTTAAGTTTTCAAAGTATATATTTTA-TCT
1 TA-TTTAA-ATTTAAAAATATATATTTTATTCT
65111 TAATTTA
1 T-ATTTA
65118 CTAAATATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
30 15 0.27
31 18 0.32
32 12 0.21
33 11 0.20
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (31 bp):
TATTTAAATTTAAAAATATATATTTTATTCT
Found at i:65069 original size:30 final size:31
Alignment explanation
Indices: 65035--65117 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 31
65025 ATTTAAAAAT
*
65035 ATATATTTTATTCTTATTTAAATTTTTAAA-
1 ATATATTTTATTCTTATTTAAATTTTCAAAG
* *
65065 ATATATTTTATTATTATTTTAAGTTTTCAAAG
1 ATATATTTTATTCTTA-TTTAAATTTTCAAAG
65097 TATATATTTTA-TCTTAATTTA
1 -ATATATTTTATTCTT-ATTTA
65118 CTAAATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 15 0.33
31 12 0.27
32 7 0.16
33 11 0.24
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (31 bp):
ATATATTTTATTCTTATTTAAATTTTCAAAG
Found at i:65125 original size:22 final size:22
Alignment explanation
Indices: 65100--65150 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
65090 TTCAAAGTAT
* *
65100 ATATTTTATCTTAATTTACTAA
1 ATATATTATCTTAAATTACTAA
* *
65122 ATATATTATTTTAAATTATTAA
1 ATATATTATCTTAAATTACTAA
65144 ATATATT
1 ATATATT
65151 TTATTCTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATATTATCTTAAATTACTAA
Found at i:76505 original size:60 final size:60
Alignment explanation
Indices: 76422--76582 Score: 234
Period size: 60 Copynumber: 2.7 Consensus size: 60
76412 AATAGTCGGT
*
76422 GACCATTTT-TCAACTTTTAATAGTCGAGGGACTTAATAAAGCTACACTATATAGTCGAAG
1 GACCATTTTGT-AACTTTTAATAGTCGAGAGACTTAATAAAGCTACACTATATAGTCGAAG
* * *
76482 GATCGTTTTGTAACTTTTAATAGTCAAGAGACTTAATAAAGCTACACTATATAGTCGAAG
1 GACCATTTTGTAACTTTTAATAGTCGAGAGACTTAATAAAGCTACACTATATAGTCGAAG
* * * *
76542 GACCATTTTGTTACTTTTAATAGTTGAGCGACATAATAAAG
1 GACCATTTTGTAACTTTTAATAGTCGAGAGACTTAATAAAG
76583 TAATACCTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
60 88 0.99
61 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCGAGAGACTTAATAAAGCTACACTATATAGTCGAAG
Found at i:79618 original size:52 final size:53
Alignment explanation
Indices: 79544--79664 Score: 140
Period size: 52 Copynumber: 2.3 Consensus size: 53
79534 TTAGAATTAG
* * * * * *
79544 ATTTATTATTTTATTA-AGAATTAAGATAGAGTTAAAACATTATCTTTAATTT
1 ATTTATTATTTTTTTAGAGAATTAAGATAAAATCAAAACAATATATTTAATTT
* *
79596 ATTTATTATTTTTTTAGA-AATTAGGATAAAATCAAAACAATATATTTAGTTT
1 ATTTATTATTTTTTTAGAGAATTAAGATAAAATCAAAACAATATATTTAATTT
79648 A-TTATTATTTTATTTAG
1 ATTTATTATTTT-TTTAG
79665 TAGTTACTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 10 0.17
52 48 0.81
53 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (53 bp):
ATTTATTATTTTTTTAGAGAATTAAGATAAAATCAAAACAATATATTTAATTT
Found at i:85762 original size:24 final size:24
Alignment explanation
Indices: 85730--85779 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
85720 ATAGCATTCA
85730 ATGAGTTAGTTGAATATGACATGT
1 ATGAGTTAGTTGAATATGACATGT
*
85754 ATGAGTTAGTTGAGTATGACATGT
1 ATGAGTTAGTTGAATATGACATGT
85778 AT
1 AT
85780 ACAGCCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (24 bp):
ATGAGTTAGTTGAATATGACATGT
Found at i:87325 original size:2 final size:2
Alignment explanation
Indices: 87318--87346 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87308 TTACTGCTAT
87318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87347 GGATAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89117 original size:6 final size:6
Alignment explanation
Indices: 89106--89283 Score: 171
Period size: 6 Copynumber: 30.0 Consensus size: 6
89096 AAACACACAC
89106 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
* * * *
89154 GTGTAT GTGTAT GTGTAT GTG--T GTGTGT GTGTGT GTGTGT GTGTAC
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
* * * * * * * * *
89200 GTGTAC GTGTAC GTGTAT GTGTAC GTGTAC GTGCAC GTGTAC ATGTAG
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
* * * * * *
89248 GTATAG GTGTAC GTGTAC GTGTAC GTGTAC GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
89284 ATTTATATAT
Statistics
Matches: 157, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
4 4 0.03
6 153 0.97
ACGTcount: A:0.16, C:0.07, G:0.35, T:0.42
Consensus pattern (6 bp):
GTGTAT
Found at i:95147 original size:22 final size:22
Alignment explanation
Indices: 95106--95186 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
95096 CTCGTATAAA
95106 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
95129 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
95151 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
95173 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
95187 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:95182 original size:13 final size:13
Alignment explanation
Indices: 95120--95182 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
95110 CCGAAGTGCC
95120 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
95133 CC---GAAGTGC-
1 CCGTAGAATTGCA
95142 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
95155 CC---GAAGTGC-
1 CCGTAGAATTGCA
95164 CCGTAGAATTGCA
1 CCGTAGAATTGCA
95177 CCGTAG
1 CCGTAG
95183 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:96133 original size:18 final size:18
Alignment explanation
Indices: 96112--96146 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
96102 TCCCATCTAG
96112 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
96130 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
96147 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:96756 original size:21 final size:21
Alignment explanation
Indices: 96732--96776 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
96722 TCTTGTTCGT
* *
96732 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
96753 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
96774 TTG
1 TTG
96777 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:99948 original size:22 final size:22
Alignment explanation
Indices: 99907--99987 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
99897 CTCGTATAAA
99907 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
99930 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
99952 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
99974 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
99988 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:99983 original size:13 final size:13
Alignment explanation
Indices: 99921--99983 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
99911 CCGAAGTGCC
99921 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
99934 CC---GAAGTGC-
1 CCGTAGAATTGCA
99943 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
99956 CC---GAAGTGC-
1 CCGTAGAATTGCA
99965 CCGTAGAATTGCA
1 CCGTAGAATTGCA
99978 CCGTAG
1 CCGTAG
99984 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:100938 original size:18 final size:18
Alignment explanation
Indices: 100917--100951 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
100907 TCCCATCTAG
100917 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
100935 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
100952 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:101530 original size:21 final size:21
Alignment explanation
Indices: 101506--101550 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
101496 TCTTGTTCGT
* *
101506 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
101527 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
101548 TTG
1 TTG
101551 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:117717 original size:17 final size:18
Alignment explanation
Indices: 117697--117732 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
117687 ATAATATAAG
117697 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
117714 TTTATATTATAAACTATA
1 TTTATATTATAAACTATA
117732 T
1 T
117733 AATTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:117719 original size:13 final size:13
Alignment explanation
Indices: 117716--117825 Score: 60
Period size: 13 Copynumber: 7.8 Consensus size: 13
117706 AAACTATATT
117716 TATA-TTATAAAC
1 TATATTTATAAAC
*
117728 TATATAATTATTATAAG
1 TATAT--TTA-TA-AAC
* *
117745 TTATATATATAAAT
1 T-ATATTTATAAAC
*
117759 TATGTTTATATGAAC
1 TATATTTATA--AAC
*
117774 TATATATATAAAC
1 TATATTTATAAAC
* *
117787 TATATATGTAAAC
1 TATATTTATAAAC
117800 TATATATGTATAAAC
1 TATAT-T-TATAAAC
117815 TATAATTTATA
1 TAT-ATTTATA
117826 TTAATATATA
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
12 4 0.05
13 27 0.36
14 7 0.09
15 25 0.33
16 6 0.08
17 3 0.04
18 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (13 bp):
TATATTTATAAAC
Found at i:117739 original size:18 final size:17
Alignment explanation
Indices: 117698--117743 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
117688 TAATATAAGT
*
117698 TTATATATAAACTATATT
1 TTAT-TATAAACTATATA
117716 TATATTATAAACTATATAA
1 T-TATTATAAACTATAT-A
117735 TTATTATAA
1 TTATTATAA
117744 GTTATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATTATAAACTATATA
Found at i:117832 original size:28 final size:30
Alignment explanation
Indices: 117716--117839 Score: 102
Period size: 28 Copynumber: 4.3 Consensus size: 30
117706 AAACTATATT
* *
117716 TATAT-TATAAACTATATAATTAT-TATAAGT
1 TATATATATAAACTATATATTTATAT-TAA-C
* *
117746 TATATATATAAA-T-TATGTTTATATGAAC
1 TATATATATAAACTATATATTTATATTAAC
* * *
117774 TATATATATAAACTATATATGTAAACT-A-
1 TATATATATAAACTATATATTTATATTAAC
*
117802 TATATGTATAAACTATA-ATTTATATTAA-
1 TATATATATAAACTATATATTTATATTAAC
117830 TATATATATA
1 TATATATATA
117840 TATACATAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.08
28 38 0.51
29 11 0.15
30 14 0.19
31 6 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (30 bp):
TATATATATAAACTATATATTTATATTAAC
Found at i:117943 original size:19 final size:19
Alignment explanation
Indices: 117921--117990 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
117911 TTTTATAGGA
*
117921 AAATTGATAATTTAGAGGG
1 AAATTGAAAATTTAGAGGG
117940 AAATTGAGAAATTTAGAGGG
1 AAATTGA-AAATTTAGAGGG
*
117960 -AATAT-AAAATTTTGGAGGG
1 AAAT-TGAAAA-TTTAGAGGG
*
117979 AAATTGATAATT
1 AAATTGAAAATT
117991 ATATTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.07
19 22 0.51
20 18 0.42
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (19 bp):
AAATTGAAAATTTAGAGGG
Found at i:118183 original size:2 final size:2
Alignment explanation
Indices: 118176--118310 Score: 72
Period size: 2 Copynumber: 69.0 Consensus size: 2
118166 TTTAATTTTC
* * * *
118176 TA TA TA TA TA TA TA TG TA TA TA AA CTA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
* * *
118219 TA TA AA T- TA TA T- TA -A TA TA GTA TA TA TA TG TA TG TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
118258 CTA -A TA TA -A GTA -A TC TA TA GA T- TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118298 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
118311 GAAATATTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
1 9 0.09
2 84 0.84
3 7 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:118222 original size:25 final size:25
Alignment explanation
Indices: 118175--118247 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
118165 TTTTAATTTT
*
118175 CTATATATATATATATGTATATAAA
1 CTATATAAATATATATGTATATAAA
*
118200 CTATATAAACTATATA-GTTTATAAA
1 CTATATAAA-TATATATGTATATAAA
* * *
118225 TTATATTAATATAGTATATATAT
1 CTATATAAATATA-TATGTATAT
118248 GTATGTATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 4 0.10
25 25 0.64
26 10 0.26
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (25 bp):
CTATATAAATATATATGTATATAAA
Found at i:118277 original size:61 final size:55
Alignment explanation
Indices: 118176--118310 Score: 148
Period size: 57 Copynumber: 2.4 Consensus size: 55
118166 TTTAATTTTC
* *
118176 TATATATATATATATGTATATAAACTATATAAACTATATAGTTTATAAAT-TATA
1 TATATATATATATATGTATATAAACTATATAAAATATATAGATTATAAATATATA
* * *
118230 TTAATATAGTATATATATGTATGTATAACTAATATAAGTAATCTATAGATTATATATATATA
1 -T-ATATA-TATATATATGTATATA-AACT-ATATAA--AATATATAGATTATAAATATATA
118292 TATATATATATATAT-TATA
1 TATATATATATATATGTATA
118311 GAAATATTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
55 1 0.01
56 5 0.07
57 15 0.22
58 7 0.10
59 15 0.22
60 5 0.07
61 15 0.22
62 4 0.06
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (55 bp):
TATATATATATATATGTATATAAACTATATAAAATATATAGATTATAAATATATA
Found at i:118562 original size:7 final size:7
Alignment explanation
Indices: 118550--118610 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
118540 TTTATAGAAA
118550 CCTAAAC
1 CCTAAAC
118557 CCTAAAC
1 CCTAAAC
118564 CCTAAAC
1 CCTAAAC
**
118571 TTTAAAC
1 CCTAAAC
** *
118578 CAAAAAT
1 CCTAAAC
* *
118585 ACTAAAT
1 CCTAAAC
118592 CCTAAAC
1 CCTAAAC
*
118599 CATAAAC
1 CCTAAAC
118606 CCTAA
1 CCTAA
118611 TATAAATGGA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:118610 original size:21 final size:20
Alignment explanation
Indices: 118547--118610 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
118537 AGTTTTATAG
*
118547 AAACCTAAACCCTAAACCCT
1 AAACCTAAACCATAAACCCT
* * **
118567 AAACTTTAAACCAAAAATACT
1 AAAC-CTAAACCATAAACCCT
118588 AAATCCTAAACCATAAACCCT
1 AAA-CCTAAACCATAAACCCT
118609 AA
1 AA
118611 TATAAATGGA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 4 0.12
21 28 0.85
22 1 0.03
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (20 bp):
AAACCTAAACCATAAACCCT
Found at i:118937 original size:30 final size:31
Alignment explanation
Indices: 118901--118966 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
118891 ATCATAATAA
118901 ATATTTTATT-ATAACATTTAAAAAGTAATC
1 ATATTTTATTAATAACATTTAAAAAGTAATC
* *
118931 ATATTTTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTATTAATAACATTTAAAAAGTAATC
118962 ATATT
1 ATATT
118967 AATTTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTTATTAATAACATTTAAAAAGTAATC
Found at i:119663 original size:9 final size:9
Alignment explanation
Indices: 119651--119705 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
119641 ATGTATAATA
119651 TATATAAAC
1 TATATAAAC
119660 TATAT--A-
1 TATATAAAC
*
119666 TATATATA-
1 TATATAAAC
119674 TATATAAAC
1 TATATAAAC
119683 TATATAAAC
1 TATATAAAC
*
119692 TATATAAAG
1 TATATAAAC
119701 TATAT
1 TATAT
119706 TACTTATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 5 0.12
7 1 0.02
8 8 0.20
9 27 0.66
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (9 bp):
TATATAAAC
Found at i:119795 original size:14 final size:14
Alignment explanation
Indices: 119724--119789 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
119714 TAGTTTATAG
119724 AAACCCTAAATCAT
1 AAACCCTAAATCAT
119738 AAACCCTAAATCAT
1 AAACCCTAAATCAT
** *
119752 AAACTTTAAACCAT
1 AAACCCTAAATCAT
*
119766 AAACACTAAAT-ACT
1 AAACCCTAAATCA-T
*
119780 AAACCATAAA
1 AAACCCTAAA
119790 CCCTAATGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
13 1 0.02
14 42 0.98
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:119998 original size:20 final size:19
Alignment explanation
Indices: 119969--120006 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
119959 GTGAATTAAC
*
119969 CTAACATGCAACTAAAATA
1 CTAACATGCAAATAAAATA
119988 CTAATCATGCAAATAAAAT
1 CTAA-CATGCAAATAAAAT
120007 TAATATGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (19 bp):
CTAACATGCAAATAAAATA
Found at i:120136 original size:13 final size:13
Alignment explanation
Indices: 120104--120130 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
120094 TAATTTACAT
120104 TTAAATAATTTTA
1 TTAAATAATTTTA
120117 TTAAATAATTTTA
1 TTAAATAATTTTA
120130 T
1 T
120131 ATAATATGTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:120225 original size:2 final size:2
Alignment explanation
Indices: 120154--120216 Score: 72
Period size: 2 Copynumber: 30.0 Consensus size: 2
120144 ATAAACCATG
* * *
120154 TA TA GTA TA TA TA AA CTA AA TA TA TG TA TA GTA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
120197 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
120217 AACTATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 47 0.90
3 5 0.10
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:120330 original size:21 final size:21
Alignment explanation
Indices: 120306--120353 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
120296 AAAGAAATCC
**
120306 TAAACCCTAAACTTTAAACCA
1 TAAACCCTAAACACTAAACCA
*
120327 TAAACACTAAACACTAAACCA
1 TAAACCCTAAACACTAAACCA
120348 TAAACC
1 TAAACC
120354 ATAATATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAACACTAAACCA
Found at i:120830 original size:17 final size:16
Alignment explanation
Indices: 120782--120851 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
120772 CGGATCATTT
*
120782 ACAGGTCATGTTAAAA
1 ACAGGTCAGGTTAAAA
120798 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
120814 ACATGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
120830 ACAGGT-AGGTTGAAA
1 ACAGGTCAGGTTAAAA
120845 ACAGGTC
1 ACAGGTC
120852 GGGTAATACC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.29
16 35 0.71
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:121332 original size:22 final size:22
Alignment explanation
Indices: 121284--121324 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
121274 AATACATATA
* *
121284 TTAATGAAGAAAATTTTGAACT
1 TTAAAGAAGAAAATTTCGAACT
121306 TTAAAGAAGAAAA-TTCGAA
1 TTAAAGAAGAAAATTTCGAA
121325 TTCTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (22 bp):
TTAAAGAAGAAAATTTCGAACT
Found at i:121914 original size:21 final size:21
Alignment explanation
Indices: 121863--121915 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
121853 ATTATTACTA
121863 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
121884 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
121905 TCGCAATGCGA
1 TCGCAATGCGA
121916 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:121952 original size:21 final size:21
Alignment explanation
Indices: 121905--122018 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
121895 TTTTCCCAAT
* *
121905 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTAGAAAA
* *
121925 TCACAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
* * **
121946 TCGCAATGTG-ATACT-GACTA
1 TCGCAATGCGAAT-TTAGAAAA
* * *
121966 TCGCAACGCG-ATAATAAAAAA
1 TCGCAATGCGAAT-TTAGAAAA
*
121987 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
122008 TCGCAATGCGA
1 TCGCAATGCGA
122019 TACTGACTAT
Statistics
Matches: 71, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
20 28 0.39
21 41 0.58
22 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGAAAA
Found at i:121988 original size:62 final size:62
Alignment explanation
Indices: 121922--122100 Score: 254
Period size: 62 Copynumber: 2.9 Consensus size: 62
121912 GCGAATAAGT
*
121922 AAATCACAATGCGAATTTGGAAAATCGCAATGTGATACTGACTATCGCAACGCGATAATAAA
1 AAATCACAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAAA
* *
121984 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
1 AAATCACAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAAA
* * *** *
122046 AAATCACAACGCG-ATACT-GACTTTCGCAATGCGATACTGACTTTCGCAACGCGAT
1 AAATCACAATGCGAAT-TTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGAT
122101 TTGACTTTCG
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
61 35 0.33
62 71 0.67
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (62 bp):
AAATCACAATGCGAATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAAA
Found at i:122031 original size:41 final size:42
Alignment explanation
Indices: 121986--122079 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 42
121976 ATAATAAAAA
* ** * *
121986 ATCGCAATGCGAAT-TTGGAAAATCGCAATGCGATACTGACT
1 ATCGCAATGCGAATAATACAAAATCACAACGCGATACTGACT
*
122027 ATCGCAACGCG-ATAATACAAAATCACAACGCGATACTGACT
1 ATCGCAATGCGAATAATACAAAATCACAACGCGATACTGACT
*
122068 TTCGCAATGCGA
1 ATCGCAATGCGA
122080 TACTGACTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
40 2 0.05
41 41 0.95
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
ATCGCAATGCGAATAATACAAAATCACAACGCGATACTGACT
Found at i:122032 original size:20 final size:20
Alignment explanation
Indices: 122007--122160 Score: 150
Period size: 20 Copynumber: 7.7 Consensus size: 20
121997 AATTTGGAAA
*
122007 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
122027 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
122048 ATCACAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
122068 TTCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
122088 TTCGCAACGCGAT-TTGACT
1 ATCGCAACGCGATACTGACT
* *
122107 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
122127 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
122147 ATCGCAACGAGATA
1 ATCGCAACGCGATA
122161 ATACAGAATA
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
19 20 0.17
20 79 0.69
21 14 0.12
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:122080 original size:41 final size:41
Alignment explanation
Indices: 122004--122081 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
121994 GCGAATTTGG
* *
122004 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCACAACGCGATACTGACTATCGCAACGCGATAATAC
* *
122045 AAAATCACAACGCGATACTGACTTTCGCAATGCGATA
1 AAAATCACAACGCGATACTGACTATCGCAACGCGATA
122082 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAATCACAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:122113 original size:39 final size:39
Alignment explanation
Indices: 122052--122160 Score: 146
Period size: 39 Copynumber: 2.7 Consensus size: 39
122042 TACAAAATCA
* *
122052 CAACGCGATACTGACTTTCGCAATGCGATACTGACTTTCG
1 CAACGCGAT-TTGACTTTCGCAACGCGATACTGACTTTCG
*
122092 CAACGCGATTTGACTTTCGCAACGCGATTCTGACTTTCG
1 CAACGCGATTTGACTTTCGCAACGCGATACTGACTTTCG
* * *
122131 CAACGAGATTCTGACTATCGCAACGAGATA
1 CAACGCGATT-TGACTTTCGCAACGCGATA
122161 ATACAGAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.59
40 25 0.41
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
CAACGCGATTTGACTTTCGCAACGCGATACTGACTTTCG
Found at i:122928 original size:24 final size:24
Alignment explanation
Indices: 122901--122954 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
122891 GTATTGGAAA
*
122901 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
122925 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
122949 TTTGAT
1 TTTGAT
122955 GATATTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:123146 original size:12 final size:12
Alignment explanation
Indices: 123129--123153 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123119 ATATAATCCT
123129 GAAGAAGAAAAA
1 GAAGAAGAAAAA
123141 GAAGAAGAAAAA
1 GAAGAAGAAAAA
123153 G
1 G
123154 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:125489 original size:19 final size:20
Alignment explanation
Indices: 125447--125490 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
125437 CAATCATCTT
*
125447 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
125467 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
125486 AATGA
1 AATGA
125491 AAATTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:125516 original size:33 final size:33
Alignment explanation
Indices: 125474--125587 Score: 167
Period size: 33 Copynumber: 3.5 Consensus size: 33
125464 GGAAATGACT
**
125474 ATCGCAATGCGAAATGAAAATTACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
125507 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
125540 ATCACAATGCGAAATGAAAATCGCAACGAGCA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAG-AGA
* *
125573 ATCGTAAAGCGAAAT
1 ATCGCAATGCGAAAT
125588 CAATTTCGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
33 73 0.99
34 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:125530 original size:19 final size:19
Alignment explanation
Indices: 125454--125565 Score: 73
Period size: 19 Copynumber: 6.4 Consensus size: 19
125444 CTTAATGTCT
* **
125454 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
125474 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
** *
125493 ATTACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
125507 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
125526 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
125540 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
125559 ATCGCAA
1 ATCGCAA
125566 CGAGCAAATC
Statistics
Matches: 69, Mismatches: 13, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
14 17 0.25
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.45
20 9 0.13
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:125603 original size:19 final size:19
Alignment explanation
Indices: 125581--125642 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
125571 AAATCGTAAA
*
125581 GCGAAATCAATTTCGTATT
1 GCGAAATCAATTTCGCATT
** *
125600 GCGATTTTAATTTCGCATT
1 GCGAAATCAATTTCGCATT
* * *
125619 GCGATAGTCATTTTTGCATT
1 GCGA-AATCAATTTCGCATT
125639 GCGA
1 GCGA
125643 TGAAAATCGG
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (19 bp):
GCGAAATCAATTTCGCATT
Found at i:125816 original size:14 final size:14
Alignment explanation
Indices: 125797--125833 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
125787 CATCAATTAA
125797 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
125811 ACAAATCATCTTTT
1 ACAAATCAACTTTT
125825 ACAAATCAA
1 ACAAATCAA
125834 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:127248 original size:21 final size:21
Alignment explanation
Indices: 127182--127248 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
127172 GTGAATCGGG
*
127182 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
127202 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
127224 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
127245 CTCT
1 CTCT
127249 CGAATAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:127267 original size:42 final size:41
Alignment explanation
Indices: 127182--127290 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 41
127172 GTGAATCGGG
* * *
127182 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCAACAATGACAGGGGC
* *
127224 CTCTTGAACGGTGGGAGGGGACTCTCGAATAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTC-AACAATGACAGGGGC
* * * *
127266 CTCTTCAACGATAGGAGTGGACTCT
1 CTCTTGAACGGTGGGAGGGGACTCT
127291 TGAGGGATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.89
43 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAACAATGACAGGGGC
Found at i:127854 original size:94 final size:94
Alignment explanation
Indices: 127693--127923 Score: 401
Period size: 94 Copynumber: 2.5 Consensus size: 94
127683 GAATAATTTC
* *
127693 AATTGGCAGCAAACAAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
* * *
127758 ACATTTTTAAAGATTACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
127787 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
127852 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
*
127881 AATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAA
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAA
127924 TACTAACTTC
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 17 0.13
94 114 0.87
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:127976 original size:78 final size:79
Alignment explanation
Indices: 127833--127985 Score: 254
Period size: 78 Copynumber: 1.9 Consensus size: 79
127823 AAGACAAAAC
*
127833 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
127898 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
*
127915 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
127979 ATTTACT
66 ATTTACT
127986 AAGCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
78 42 0.61
82 27 0.39
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:129790 original size:19 final size:19
Alignment explanation
Indices: 129678--129781 Score: 83
Period size: 20 Copynumber: 5.6 Consensus size: 19
129668 TCTTTTGGTT
** *
129678 GAAATGAAAATTACAACGA
1 GAAATGAAAATCGCAACGC
129697 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
129717 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
* *
129737 AAAATGAAAATCGCAA--T
1 GAAATGAAAATCGCAACGC
*
129754 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
129770 GAAATGAAAATC
1 GAAATGAAAATC
129782 ACAATGCGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
14 10 0.15
15 1 0.02
16 1 0.02
18 1 0.02
19 21 0.32
20 29 0.45
21 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:129834 original size:33 final size:33
Alignment explanation
Indices: 129797--129877 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
129787 GCGATTTTGG
*
129797 TTTCGCATTGCGATTATCTCATTGCAATTTTCA
1 TTTCGCGTTGCGATTATCTCATTGCAATTTTCA
* *
129830 TTTCGCGTTGCGATTATCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTATCTCATTGCAATTTTCA
129863 TTTCGCGTTGCGATT
1 TTTCGCGTTGCGATT
129878 TTCATTCTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCATTGCAATTTTCA
Found at i:129873 original size:19 final size:19
Alignment explanation
Indices: 129818--129883 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
129808 GATTATCTCA
*
129818 TTGCAATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
129837 TTGCGA--TT-A--TCTCG
1 TTGCGATTTTCATTTCGCG
129851 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
129870 TTGCGATTTTCATT
1 TTGCGATTTTCATT
129884 CTCGAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
19 23 0.59
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:130434 original size:20 final size:20
Alignment explanation
Indices: 130409--130520 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
130399 GCTATGTAAA
130409 TCGCATTGCGATAGT-CAGAT
1 TCGCATTGCGAT-GTACAGAT
* *
130429 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATGTACAGAT
* *
130449 TCGCATTGCGATTTTCCTA-AT
1 TCGCATTGCGA-TGTAC-AGAT
* ** *
130470 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTACAGAT
* *
130490 TCGCGTTGCGATTTAC-GTAT
1 TCGCATTGCGATGTACAG-AT
130510 TCGCATTGCGA
1 TCGCATTGCGA
130521 ATTATGAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.01
20 58 0.75
21 17 0.22
22 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTACAGAT
Found at i:130479 original size:41 final size:40
Alignment explanation
Indices: 130427--130520 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 40
130417 CGATAGTCAG
* *
130427 ATTCGCATTGCGATTTACATATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACATAATCGCATTGCGATTTACCT
* * *
130467 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACATAATCGCATTGCGATTTACCT
130508 ATTCGCATTGCGA
1 ATTCGCATTGCGA
130521 ATTATGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 13 0.27
41 35 0.73
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACATAATCGCATTGCGATTTACCT
Found at i:130533 original size:41 final size:41
Alignment explanation
Indices: 130401--130658 Score: 129
Period size: 41 Copynumber: 6.3 Consensus size: 41
130391 CGAATGACGC
* * *
130401 TATGTAAATCGCATTGCGATAGT-CAG-ATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAAT
* * * * * *
130442 TA-CATATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* *
130483 TACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
** * * *
130523 TATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* * * *
130564 TAGGAAAATTGCGTTGCGATAGT-CAGTA-TCGCATTGCG-AT
1 TATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAAT
* * * * * *
130604 TTTCCAAATTCACATTGCGATTTACTTATTCGCATTACGAAT
1 TAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
**
130646 TGGGAAAATCGCA
1 TATGAAAATCGCA
130659 ACGCGAAATT
Statistics
Matches: 162, Mismatches: 40, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
39 2 0.01
40 41 0.25
41 111 0.69
42 5 0.03
43 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
Found at i:130541 original size:21 final size:21
Alignment explanation
Indices: 130517--130572 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
130507 TATTCGCATT
*
130517 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
130538 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
130558 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
130573 TGCGTTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:130639 original size:20 final size:21
Alignment explanation
Indices: 130592--130639 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
130582 ATAGTCAGTA
*
130592 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
130613 TCACATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
130633 TCGCATT
1 TCGCATT
130640 ACGAATTGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:130685 original size:21 final size:22
Alignment explanation
Indices: 130633--130685 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
130623 ATTTACTTAT
*
130633 TCGCATTACG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
130654 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
130675 TCGCATTGCGA
1 TCGCATTGCGA
130686 TAGTAATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:154674 original size:3 final size:3
Alignment explanation
Indices: 154666--154695 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
154656 AGATAAACTT
*
154666 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
154696 ATAGAAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:155039 original size:43 final size:41
Alignment explanation
Indices: 154965--155234 Score: 122
Period size: 43 Copynumber: 6.3 Consensus size: 41
154955 TTTTCAACAA
* * *
154965 AAAAACGCCGCAATAG-GTTACAACATATAGCGGCGATTGTTC
1 AAAAACGCCGCAATAGTGTT--GATATTTAGCGGCGATTGTTC
* * *
155007 AACAAACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTAGAATT-
1 AA-AAACGCCGCAATA-GTGTTGATATTTAGCGGCGATT-G--TTC
* *
155052 -AAAACGCCGCAATATGTGTTGATATTTAACGGC-ATT-TGGC
1 AAAAACGCCGCAATA-GTGTTGATATTTAGCGGCGATTGT-TC
* * *
155092 AGACAAACGCCGCAATAGTCGTTGATGTTTAGCGGCGTTTTCTTC
1 A-A-AAACGCCGCAATAGT-GTTGATATTTAGCGGCG-ATTGTTC
* * * *
155137 AAAAACGCCGCAGTAGATGTTTATTTTTACCGGCG-TT-TTCC
1 AAAAACGCCGCAATAG-TGTTGATATTTAGCGGCGATTGTT-C
* * * * * *
155178 TACAAACGCCGCAGAATATGTCTTGAGATTTCGCGGCGTTTTTATC
1 -AAAAACGCCGC--AATA-GTGTTGATATTTAGCGGCGATTGT-TC
155224 AAAAACGCCGC
1 AAAAACGCCGC
155235 TAAATGTATG
Statistics
Matches: 175, Mismatches: 29, Indels: 45
0.70 0.12 0.18
Matches are distributed among these distances:
38 1 0.01
40 2 0.01
41 3 0.02
42 17 0.10
43 107 0.61
44 20 0.11
45 19 0.11
46 5 0.03
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
AAAAACGCCGCAATAGTGTTGATATTTAGCGGCGATTGTTC
Found at i:155142 original size:86 final size:86
Alignment explanation
Indices: 155008--155234 Score: 207
Period size: 86 Copynumber: 2.6 Consensus size: 86
154998 CGATTGTTCA
* * * ** *
155008 ACAAACGCCGCAAA-AGGTATTGATATTTAGCGGCGTTTAGAAT-TAAAACGCCGCAATATG-TG
1 ACAAACGCCGCAAATATGTCTTGAGATTTAGCGGCGTTT-TTATCAAAAACGCCGCAATA-GATG
155070 TTGATATTTAACGGCATTTGGCAG
64 TTGATATTTAACGGCATTT-GCAG
*
155094 ACAAACGCCGC-AATA-GTCGTTGATG-TTTAGCGGCGTTTTCT-TCAAAAACGCCGCAGTAGAT
1 ACAAACGCCGCAAATATGTC-TTGA-GATTTAGCGGCGTTTT-TATCAAAAACGCCGCAATAGAT
* * * * * **
155155 GTTTATTTTTACCGGCGTTTTCCT
63 GTTGATATTTAACGGCATTTGCAG
*
155179 ACAAACGCCGCAGAATATGTCTTGAGATTTCGCGGCGTTTTTATCAAAAACGCCGC
1 ACAAACGCCGCA-AATATGTCTTGAGATTTAGCGGCGTTTTTATCAAAAACGCCGC
155235 TAAATGTATG
Statistics
Matches: 116, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
85 18 0.16
86 61 0.53
87 34 0.29
88 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (86 bp):
ACAAACGCCGCAAATATGTCTTGAGATTTAGCGGCGTTTTTATCAAAAACGCCGCAATAGATGTT
GATATTTAACGGCATTTGCAG
Found at i:155615 original size:21 final size:21
Alignment explanation
Indices: 155591--155659 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
155581 GTTCTGCTGC
155591 TGCTTCTCTCTCTGCTTCCGT
1 TGCTTCTCTCTCTGCTTCCGT
* ** * *
155612 TGCTGCTCTAGCTACTTCCGC
1 TGCTTCTCTCTCTGCTTCCGT
* * *
155633 TGCTACTCTCTCTGTTTCCCT
1 TGCTTCTCTCTCTGCTTCCGT
155654 TGCTTC
1 TGCTTC
155660 ATTTTCCGCT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.04, C:0.38, G:0.14, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTTCCGT
Found at i:159206 original size:35 final size:35
Alignment explanation
Indices: 159160--159230 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
159150 TTCTTACAGA
159160 CATTCTTCTCAATATGCATTACATCAAGATTATGT
1 CATTCTTCTCAATATGCATTACATCAAGATTATGT
159195 CATTCTTCTCAATATGCATTACATCAAGATTATGT
1 CATTCTTCTCAATATGCATTACATCAAGATTATGT
159230 C
1 C
159231 TCAAAATCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (35 bp):
CATTCTTCTCAATATGCATTACATCAAGATTATGT
Found at i:160181 original size:16 final size:16
Alignment explanation
Indices: 160160--160200 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
160150 TATCGCAGAA
160160 TCTTGATCGGTTTCTT
1 TCTTGATCGGTTTCTT
160176 TCTTGATCGGTTTCTT
1 TCTTGATCGGTTTCTT
160192 TCTTGATCG
1 TCTTGATCG
160201 TGCTTGAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.54
Consensus pattern (16 bp):
TCTTGATCGGTTTCTT
Found at i:162895 original size:42 final size:41
Alignment explanation
Indices: 162828--162917 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
162818 TTTATGTCAC
*
162828 AAACGCCACTAAAGTACAACTTTTTAGGGGCGTTTT-TTAAA
1 AAACGCCACTAAAGTACAACTTTTTA-CGGCGTTTTCTTAAA
* *
162869 AAACGCCACTAAA-TTCAAAGTATTTTACGGCGTTTTCTTAAA
1 AAACGCCACTAAAGTAC-AACT-TTTTACGGCGTTTTCTTAAA
*
162911 ACACGCC
1 AAACGCC
162918 GTTATAAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.05
41 24 0.57
42 16 0.38
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAACTTTTTACGGCGTTTTCTTAAA
Found at i:163317 original size:41 final size:42
Alignment explanation
Indices: 163250--163370 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 42
163240 CGTTTATACA
163250 AAAAAACGCCACTATTGATT-ACACTATTGTGGCGTTTGT-T
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGTCT
* *
163290 AAAAAACGCCACTATTGATTAAAACTATTGTGGCGTTTATCT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGTCT
**
163332 -AAAAACGCCACTATTGATTAACACTATTACGGCGTTTGT
1 AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGT
163371 GGTATAAACA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 20 0.27
41 52 0.71
42 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (42 bp):
AAAAAACGCCACTATTGATTAACACTATTGTGGCGTTTGTCT
Found at i:163993 original size:229 final size:229
Alignment explanation
Indices: 163592--164049 Score: 907
Period size: 229 Copynumber: 2.0 Consensus size: 229
163582 AATTCTGTTA
163592 AAAAGTACCCTGTACAGAGATTCCCATACCCCACATTGATGAGATCTTTATCACATATTATATAT
1 AAAAGTACCCTGTACAGAGATTCCCATACCCCACATTGATGAGATCTTTATCACATATTATATAT
*
163657 CATACCCTGTACAAAATTGTATTTTATATTTCATGTAAATGGATTACCTAATTTGGTTGGCCCTA
66 CATACCCTGTACAAAATTGTATTTTATATTTCAAGTAAATGGATTACCTAATTTGGTTGGCCCTA
163722 ATAAATTAGAGAGGTCAGGAGAAGCCATGAAAACATTACATCACCATGATGACTTATTTTGTAAC
131 ATAAATTAGAGAGGTCAGGAGAAGCCATGAAAACATTACATCACCATGATGACTTATTTTGTAAC
163787 CATGTTTATTTGATCAGTATCAATTTAAGAGTTT
196 CATGTTTATTTGATCAGTATCAATTTAAGAGTTT
163821 AAAAGTACCCTGTACAGAGATTCCCATACCCCACATTGATGAGATCTTTATCACATATTATATAT
1 AAAAGTACCCTGTACAGAGATTCCCATACCCCACATTGATGAGATCTTTATCACATATTATATAT
163886 CATACCCTGTACAAAATTGTATTTTATATTTCAAGTAAATGGATTACCTAATTTGGTTGGCCCTA
66 CATACCCTGTACAAAATTGTATTTTATATTTCAAGTAAATGGATTACCTAATTTGGTTGGCCCTA
163951 ATAAATTAGAGAGGTCAGGAGAAGCCATGAAAACATTACATCACCATGATGACTTATTTTGTAAC
131 ATAAATTAGAGAGGTCAGGAGAAGCCATGAAAACATTACATCACCATGATGACTTATTTTGTAAC
164016 CATGTTTATTTGATCAGTATCAATTTAAGAGTTT
196 CATGTTTATTTGATCAGTATCAATTTAAGAGTTT
164050 CTTTTTGATA
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 228 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (229 bp):
AAAAGTACCCTGTACAGAGATTCCCATACCCCACATTGATGAGATCTTTATCACATATTATATAT
CATACCCTGTACAAAATTGTATTTTATATTTCAAGTAAATGGATTACCTAATTTGGTTGGCCCTA
ATAAATTAGAGAGGTCAGGAGAAGCCATGAAAACATTACATCACCATGATGACTTATTTTGTAAC
CATGTTTATTTGATCAGTATCAATTTAAGAGTTT
Found at i:165829 original size:22 final size:22
Alignment explanation
Indices: 165791--165835 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
165781 TCCAAACTGC
*
165791 TTTTAATATTATATATTTGAAA
1 TTTTAATATTATATATTTCAAA
* *
165813 TTTTAATATTTTTTATTTCAAA
1 TTTTAATATTATATATTTCAAA
165835 T
1 T
165836 AAATTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATATATTTCAAA
Found at i:171275 original size:17 final size:17
Alignment explanation
Indices: 171253--171294 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
171243 AATAAATTGT
*
171253 TTTTTTTAAT-TATATTA
1 TTTTTTTAATAAATA-TA
171270 TTTTTTT-ATAAATATA
1 TTTTTTTAATAAATATA
171286 TTTTTTTAA
1 TTTTTTTAA
171295 AATAAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTAATAAATATA
Found at i:171276 original size:19 final size:18
Alignment explanation
Indices: 171242--171292 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
171232 AAAGTACTGC
*
171242 AAATAAATTGTTTTTTT-T
1 AAATATATT-TTTTTTTAT
*
171260 AATTATATTATTTTTTTAT
1 AAATATATT-TTTTTTTAT
171279 AAATATATTTTTTT
1 AAATATATTTTTTT
171293 AAAATAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
AAATATATTTTTTTTTAT
Found at i:171287 original size:16 final size:15
Alignment explanation
Indices: 171253--171298 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
171243 AATAAATTGT
*
171253 TTTTTTTAATTATATTA
1 TTTTTTTAA-AATA-TA
171270 TTTTTTTATAAATATA
1 TTTTTTTA-AAATATA
171286 TTTTTTTAAAATA
1 TTTTTTTAAAATA
171299 AAGATCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 5 0.19
16 10 0.37
17 11 0.41
18 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTTTAAAATATA
Found at i:173257 original size:30 final size:30
Alignment explanation
Indices: 173218--173276 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
173208 TAAATTATGC
173218 TAAGCTTTACCCTCTCTCTAATAGCTTTGT
1 TAAGCTTTACCCTCTCTCTAATAGCTTTGT
* *
173248 TAAGTTTTACCCTCTTTCTAATAGCTTTG
1 TAAGCTTTACCCTCTCTCTAATAGCTTTG
173277 CTAAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (30 bp):
TAAGCTTTACCCTCTCTCTAATAGCTTTGT
Found at i:174263 original size:21 final size:20
Alignment explanation
Indices: 174237--174276 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
174227 ACGTGAAGAA
* *
174237 AAAATATATATTAATGATAAT
1 AAAATACATA-TAATAATAAT
174258 AAAATACATATAATAATAA
1 AAAATACATATAATAATAA
174277 CAACAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATACATATAATAATAAT
Found at i:175553 original size:37 final size:35
Alignment explanation
Indices: 175499--175705 Score: 143
Period size: 36 Copynumber: 5.7 Consensus size: 35
175489 TTTAAAAAGC
*
175499 GTTTTCAAAACTATATATTATATAGTTTTCCCAAAAT
1 GTTTT-AAAAATATATATTATATAGTTTT-CCAAAAT
*
175536 GTTTTAAAAATAT-TA-TATA-AGTTTTCAAAAAAAAT
1 GTTTTAAAAATATATATTATATAGTTTTC---CAAAAT
* * ** *
175571 ATTTTTAAAACTATATATCATATATTTTTTTCAAAAAT
1 -GTTTTAAAAATATATAT--TATATAGTTTTCCAAAAT
* * * * *
175609 ATTTTTAAAACTATATATTATATAATTTTTCAAAGGT
1 -GTTTTAAAAATATATATTATATAGTTTTCCAAA-AT
*
175646 GTTTTAAAAATTATATATTATATAAGTTTT-CAAAAA
1 GTTTTAAAAA-TATATATTATAT-AGTTTTCCAAAAT
*
175682 GTTTTAAAAACTATATAATATATA
1 GTTTTAAAAA-TATATATTATATA
175706 AATGTTTTCA
Statistics
Matches: 140, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
32 1 0.01
33 6 0.04
34 4 0.03
35 8 0.06
36 59 0.42
37 24 0.17
38 29 0.21
40 4 0.03
41 5 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (35 bp):
GTTTTAAAAATATATATTATATAGTTTTCCAAAAT
Found at i:175612 original size:38 final size:37
Alignment explanation
Indices: 175500--175776 Score: 198
Period size: 37 Copynumber: 7.6 Consensus size: 37
175490 TTAAAAAGCG
* * * * *
175500 TTTTCAAAACTATATATTATATAGTTTTCCCAAAATG
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
*
175537 TTTT--AAA--A-ATATTATATAAGTTTTCAAAAAAAATA
1 TTTTAAAAACTATATATTATATAATTTTTC---AAAAATA
* * *
175572 TTTTTAAAACTATATATCATATATTTTTTTCAAAAATA
1 TTTTAAAAACTATATATTATATA-ATTTTTCAAAAATA
* ** *
175610 TTTTTAAAACTATATATTATATAATTTTTCAAAGGTG
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
* * *
175647 TTTTAAAAATTATATATTATATAAGTTTTCAAAAA-G
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
* *
175683 TTTTAAAAACTATATAATATATAAATGTTTTCAAAACTA
1 TTTTAAAAACTATATATTATAT-AAT-TTTTCAAAAATA
* * * *
175722 TATTATATA-TATATA-TATAT-A-TATT-AAAAATA
1 TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
*
175754 TTTTCAAAAACCATATTATTATA
1 TTTT-AAAAACTATA-TATTATA
175777 CATATAAACA
Statistics
Matches: 192, Mismatches: 32, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
32 23 0.12
33 7 0.04
34 3 0.02
35 15 0.08
36 25 0.13
37 54 0.28
38 44 0.23
39 7 0.04
40 9 0.05
41 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATAATTTTTCAAAAATA
Found at i:175742 original size:44 final size:44
Alignment explanation
Indices: 175693--175782 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
175683 TTTTAAAAAC
* * * *
175693 TATATA-ATA-TATAAATGTTTTC-AAAACTATATTATATATATA
1 TATATATATATTAAAAATATTTTCAAAAACCATATTAT-TATACA
175735 TATATATATATTAAAAATATTTTCAAAAACCATATTATTATACA
1 TATATATATATTAAAAATATTTTCAAAAACCATATTATTATACA
175779 TATA
1 TATA
175783 AACAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 6 0.15
43 3 0.07
44 20 0.49
45 12 0.29
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (44 bp):
TATATATATATTAAAAATATTTTCAAAAACCATATTATTATACA
Found at i:177773 original size:37 final size:37
Alignment explanation
Indices: 177730--177817 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
177720 ACTTTATTTT
*
177730 GGTCGGGTTGGGTCGGATTTTTTAAGTGTGATATTCA
1 GGTCGGGTTGGGTCGGATTTTTTAACTGTGATATTCA
*
177767 GGTCGGGTCGGGTCGGATTTTTTAACTGTGATATTCA
1 GGTCGGGTTGGGTCGGATTTTTTAACTGTGATATTCA
*
177804 GGTCGAGTTCGGGT
1 GGTCGGGTT-GGGT
177818 TAGGGTGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 42 0.91
38 4 0.09
ACGTcount: A:0.15, C:0.11, G:0.36, T:0.38
Consensus pattern (37 bp):
GGTCGGGTTGGGTCGGATTTTTTAACTGTGATATTCA
Found at i:178687 original size:17 final size:18
Alignment explanation
Indices: 178662--178707 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
178652 TATAGAATTG
*
178662 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
178679 GATTTCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
178697 GATTCCAATTC
1 GATTCCAATTC
178708 TCTCATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:179051 original size:30 final size:30
Alignment explanation
Indices: 179010--179102 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
179000 CTAAACTAAA
* *
179010 AATATTGTATCTAAAGTTTAGGGTCAAATT
1 AATATTTTATCTAAAATTTAGGGTCAAATT
* * * *
179040 AATATTTTATCTAAATTTTAGGATTAAACT
1 AATATTTTATCTAAAATTTAGGGTCAAATT
* *
179070 AGTATTTTATCTAAAATTTAAGGGTCAAGTT
1 AATATTTTATCTAAAATTT-AGGGTCAAATT
179101 AA
1 AA
179103 AATCAAACCA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 42 0.84
31 8 0.16
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (30 bp):
AATATTTTATCTAAAATTTAGGGTCAAATT
Found at i:184233 original size:3 final size:3
Alignment explanation
Indices: 184225--184259 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
184215 TACATCAACA
184225 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
184260 AGTTAAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:184773 original size:18 final size:20
Alignment explanation
Indices: 184734--184774 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
184724 CCCTACTTGA
*
184734 TTAAATATTTAATATATTTT
1 TTAAATATTAAATATATTTT
184754 TTAAAT-TTAAATAT-TTTT
1 TTAAATATTAAATATATTTT
184772 TTA
1 TTA
184775 CATGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 7 0.35
20 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAATATTAAATATATTTT
Found at i:194792 original size:31 final size:31
Alignment explanation
Indices: 194757--194818 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
194747 ATCCTTAAAT
*
194757 TCCTTAAATTTGATCAGTTTTA-TCAAATTAA
1 TCCTTAAACTTGATCA-TTTTAGTCAAATTAA
* *
194788 TCCTTTAACTTGATCATTTTAGTTAAATTAA
1 TCCTTAAACTTGATCATTTTAGTCAAATTAA
194819 CCTGTGAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (31 bp):
TCCTTAAACTTGATCATTTTAGTCAAATTAA
Found at i:194829 original size:31 final size:31
Alignment explanation
Indices: 194757--194829 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
194747 ATCCTTAAAT
* *
194757 TCCTTAAATTTGATCAGTTTTATCAAATTAA
1 TCCTTGAACTTGATCAGTTTTATCAAATTAA
* *
194788 TCCTTTAACTTGATCA-TTTTAGTTAAATTAA
1 TCCTTGAACTTGATCAGTTTTA-TCAAATTAA
194819 -CCTGTGAACTT
1 TCCT-TGAACTT
194830 TTATTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 8 0.22
31 28 0.78
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (31 bp):
TCCTTGAACTTGATCAGTTTTATCAAATTAA
Done.