Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168437.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_65, 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: 135677
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Warning! 1000 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5415 original size:60 final size:58
Alignment explanation
Indices: 5235--5446 Score: 313
Period size: 60 Copynumber: 3.7 Consensus size: 58
5225 GCTTTTGTTA
* **
5235 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTCAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
* * *
5293 CAAGGAAAATTGAAACTTTAAACTTTTCC-C-CAAATATTTTTTTG-AAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
*
5348 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTG-AAAACTTATTTT
*
5408 CAAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATAT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
5447 ATATTTTTTT
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
55 37 0.27
56 12 0.09
57 6 0.04
58 34 0.25
59 1 0.01
60 47 0.34
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTT
Found at i:5491 original size:15 final size:14
Alignment explanation
Indices: 5466--5498 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
5456 TAATTTCATT
5466 TAAAGAAAATAAAA
1 TAAAGAAAATAAAA
5480 TAAAGAAAAATAAAA
1 TAAAG-AAAATAAAA
5495 TAAA
1 TAAA
5499 AATAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
TAAAGAAAATAAAA
Found at i:6410 original size:17 final size:18
Alignment explanation
Indices: 6390--6470 Score: 76
Period size: 17 Copynumber: 4.3 Consensus size: 18
6380 ATTAAAAGAA
6390 AATAATTAGATAAATAA-
1 AATAATTAGATAAATAAT
*
6407 AATATTAATAGATAAATAAT
1 AATA--ATTAGATAAATAAT
*
6427 AATAA-TAGGTAAATAAT
1 AATAATTAGATAAATAAT
6444 AATATATAAATAGATAAATAAT
1 AATA-AT---TAGATAAATAAT
6466 AATAA
1 AATAA
6471 ATACATACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
17 19 0.36
18 2 0.04
19 12 0.23
20 4 0.08
21 1 0.02
22 15 0.28
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AATAATTAGATAAATAAT
Found at i:6425 original size:4 final size:4
Alignment explanation
Indices: 6389--6619 Score: 81
Period size: 4 Copynumber: 57.8 Consensus size: 4
6379 AATTAAAAGA
* * * * *
6389 AAAT AATT AGAT AAAT AAA- ATAT TAAT AGAT AAAT -AAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
** * * *
6433 AGGT AAAT -AAT -AAT ATAT AAAT AGAT AAAT -AAT -AAT AAAT ACAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
6477 ACAT ATACT -AAC AGAT AAAT AACAA AAAT AAAT AAAT AAAT ATAGAT
1 AAAT A-AAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-A-AT
* * * * *
6524 ATAT TAAT AAAT AGTAAT -AAT AAAT AAAT ACAT AAGAT ACAAA AAAA
1 AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT
*
6571 AATAT AAAT AAAT AAAT AAA- AATAT AAAAT ACAA- AAAT AAAA AAAT
1 AA-AT AAAT AAAT AAAT AAAT AA-AT -AAAT A-AAT AAAT AAAT AAAT
6617 AAA
1 AAA
6620 ATGGGCCTAC
Statistics
Matches: 169, Mismatches: 38, Indels: 40
0.68 0.15 0.16
Matches are distributed among these distances:
3 31 0.18
4 112 0.66
5 17 0.10
6 9 0.05
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:6429 original size:14 final size:13
Alignment explanation
Indices: 6406--6550 Score: 62
Period size: 14 Copynumber: 10.5 Consensus size: 13
6396 TAGATAAATA
*
6406 AAATATTAATAGAT
1 AAATAATAATA-AT
6420 AAATAATAATAAT
1 AAATAATAATAAT
**
6433 AGGTAAATAATAAT
1 AAAT-AATAATAAT
*
6447 ATATAAATAGATAA-
1 AAAT-AATA-ATAAT
6461 ATAATAATAAATACAT
1 A-AATAAT-AATA-AT
* *
6477 ACATATACTAACAGAT
1 A-A-ATAATAATA-AT
* *
6493 AAATAACAAAAAT
1 AAATAATAATAAT
6506 AAATAAATAA-ATAT
1 AAAT-AATAATA-AT
* *
6520 AGAT-ATATTAAT
1 AAATAATAATAAT
*
6532 AAATAGTAATAAT
1 AAATAATAATAAT
6545 AAATAA
1 AAATAA
6551 ATACATAAGA
Statistics
Matches: 100, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
12 8 0.08
13 23 0.23
14 48 0.48
15 9 0.09
16 8 0.08
17 4 0.04
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:6456 original size:39 final size:37
Alignment explanation
Indices: 6390--6470 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 37
6380 ATTAAAAGAA
6390 AATAATTAGATAAATAAAATATTAATAGATAAATAAT
1 AATAATTAGATAAATAAAATATTAATAGATAAATAAT
*
6427 AATAA-TAGGTAAATAATAATATATAAATAGATAAATAAT
1 AATAATTAGATAAATAA-AATAT-T-AATAGATAAATAAT
6466 AATAA
1 AATAA
6471 ATACATACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 10 0.25
37 10 0.25
38 1 0.03
39 19 0.47
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (37 bp):
AATAATTAGATAAATAAAATATTAATAGATAAATAAT
Found at i:6494 original size:73 final size:75
Alignment explanation
Indices: 6390--6557 Score: 173
Period size: 73 Copynumber: 2.3 Consensus size: 75
6380 ATTAAAAGAA
* * * * * * **
6390 AATAATTAGATAAATA-AAATATTAATAGATAAATAATAATAATAGGTAAAT-A-ATA-ATATAT
1 AATAA-TAAATAAATACATATACTAACAGATAAATAACAAAAATAAATAAATAATATAGATATAT
*
6451 AAATAGATAAAT
65 AAATAAAT-AAT
*
6463 AATAATAAATACATACATATACTAACAGATAAATAACAAAAATAAATAAATAAATATAGATATAT
1 AATAATAAATAAATACATATACTAACAGATAAATAACAAAAATAAATAAAT-AATATAGATATAT
* *
6528 TAATAAATAGT
65 AAATAAATAAT
6539 AATAATAAATAAATACATA
1 AATAATAAATAAATACATA
6558 AGATACAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
72 8 0.10
73 33 0.43
75 1 0.01
76 23 0.30
77 12 0.16
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (75 bp):
AATAATAAATAAATACATATACTAACAGATAAATAACAAAAATAAATAAATAATATAGATATATA
AATAAATAAT
Found at i:6585 original size:27 final size:27
Alignment explanation
Indices: 6491--6620 Score: 72
Period size: 29 Copynumber: 4.7 Consensus size: 27
6481 ATACTAACAG
*
6491 ATAAATAACAAAAATAAATAA-AT-AAAT
1 ATAAATAA-ATAAATAAA-AATATAAAAT
* * * *
6518 ATAGATATATTAATAAATAGTAATAATAA-
1 ATAAATAAATAAATAAA-AAT-ATAA-AAT
*
6547 ATAAATACATAAGATACAAAA-A-AAAAT
1 ATAAATAAATAA-ATA-AAAATATAAAAT
6574 ATAAATAAATAAATAAAAATATAAAAT
1 ATAAATAAATAAATAAAAATATAAAAT
* *
6601 ACAAAAATAAAAAAATAAAA
1 --ATAAATAAATAAATAAAA
6621 TGGGCCTACC
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
25 4 0.05
26 15 0.19
27 24 0.30
28 3 0.04
29 26 0.32
30 6 0.08
31 2 0.03
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (27 bp):
ATAAATAAATAAATAAAAATATAAAAT
Found at i:6585 original size:39 final size:39
Alignment explanation
Indices: 6502--6619 Score: 120
Period size: 39 Copynumber: 3.1 Consensus size: 39
6492 TAAATAACAA
* **
6502 AAATAAATAAATAAATATAGATATATTAATAAATAGT-AAT
1 AAATAAATAAATAAATA-AGATACAAAAATAAATA-TAAAT
* *
6542 -AATAAATAAATACATAAGATACAAAAAAAAATATAAAT
1 AAATAAATAAATAAATAAGATACAAAAATAAATATAAAT
*
6580 AAATAAATAAA-AATATAAAATACAAAAATAAA-A-AAAT
1 AAATAAATAAATAA-ATAAGATACAAAAATAAATATAAAT
6617 AAA
1 AAA
6620 ATGGGCCTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
37 8 0.12
38 18 0.27
39 41 0.61
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (39 bp):
AAATAAATAAATAAATAAGATACAAAAATAAATATAAAT
Found at i:6602 original size:48 final size:47
Alignment explanation
Indices: 6506--6621 Score: 110
Period size: 48 Copynumber: 2.4 Consensus size: 47
6496 TAACAAAAAT
* * *
6506 AAATAAATAAATATAGATATATTAATAAATAGTAATAATAAATAAATACATA
1 AAATAAA-AAA-ATA-AAATATAAATAAATAG-AATAAAAAATAAATACA-A
* *
6558 AGATACAAAAA-AAAATATAAATAAATA-AATAAAAATATAAAATACAA
1 AAATAAAAAAATAAAATATAAATAAATAGAATAAAAA-AT-AAATACAA
6605 AAATAAAAAAATAAAAT
1 AAATAAAAAAATAAAAT
6622 GGGCCTACCC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
46 7 0.13
47 12 0.22
48 25 0.46
49 1 0.02
50 1 0.02
51 3 0.06
52 5 0.09
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (47 bp):
AAATAAAAAAATAAAATATAAATAAATAGAATAAAAAATAAATACAA
Found at i:6620 original size:21 final size:21
Alignment explanation
Indices: 6491--6621 Score: 81
Period size: 21 Copynumber: 5.9 Consensus size: 21
6481 ATACTAACAG
6491 ATAAATAACAAAAAT-AAATAA
1 ATAAATAA-AAAAATAAAATAA
* * * *
6512 ATAAATATAGATATATTAATAA
1 ATAAATAAAAAAATA-AAATAA
*
6534 ATAGTAATAATAAATAA-ATACATAA
1 ATA--AATAA-AAA-AATA-AAATAA
6559 GATACAA-AAAAAAATATAAATAA
1 -ATA-AATAAAAAAATA-AAATAA
*
6582 ATAAATAAAAATATAAAATACA
1 ATAAATAAAAAAATAAAATA-A
6604 A-AAATAAAAAAATAAAAT
1 ATAAATAAAAAAATAAAAT
6622 GGGCCTACCC
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
20 4 0.05
21 30 0.34
22 23 0.26
23 10 0.11
24 6 0.07
25 10 0.11
26 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (21 bp):
ATAAATAAAAAAATAAAATAA
Found at i:6960 original size:88 final size:89
Alignment explanation
Indices: 6797--7104 Score: 310
Period size: 88 Copynumber: 3.5 Consensus size: 89
6787 AAATTCTGAT
* * * * * **
6797 CAAAGC-TCTTCTAAGCAGAGGCTTAATGACTTTGAAAAACATATACAAAGCTCCTCTAAGTAGA
1 CAAAGCTTC-TCTAATCAGAGGCTTAAAGACTTTGGAAAATAAATACAAAGCTCCTCTAAACAGA
*
6861 GGCTCAATGACTTTGAAAAACATAAG
65 GGCTCAATGACTTTGAAAAA-ATAAA
*
6887 CAAAGCTTCTCTAATCAGAGGCTTAAAAACTTTGGAAAATAAATA-AAA-CTCCTCTAAACAGAG
1 CAAAGCTTCTCTAATCAGAGGCTTAAAGACTTTGGAAAATAAATACAAAGCTCCTCTAAACAGAG
6950 GCTCAATGACTTTG--AAAATAAA
66 GCTCAATGACTTTGAAAAAATAAA
* * * * * *
6972 TAAAGCTCCTCTAATAAGAGGCTCAACGACTTT-GAAAATAAATAAACAAAGCTCCTCTAATCAG
1 CAAAGCTTCTCTAATCAGAGGCTTAAAGACTTTGGAAAATAAAT--ACAAAGCTCCTCTAAACAG
*
7036 AGGCTCAACGACTTTG--AAAATAAA
64 AGGCTCAATGACTTTGAAAAAATAAA
* * * * *
7060 TAAAGCTCCTCTAAAT-AGAGGCTCAACGACTTTTGGAAAGTAAAT
1 CAAAGCTTCTCT-AATCAGAGGCTTAAAGAC-TTTGGAAAATAAAT
7105 TGCTCCTCTA
Statistics
Matches: 192, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
84 10 0.05
85 31 0.16
86 4 0.02
87 3 0.02
88 88 0.46
89 9 0.05
90 45 0.23
91 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (89 bp):
CAAAGCTTCTCTAATCAGAGGCTTAAAGACTTTGGAAAATAAATACAAAGCTCCTCTAAACAGAG
GCTCAATGACTTTGAAAAAATAAA
Found at i:6981 original size:42 final size:42
Alignment explanation
Indices: 6798--7163 Score: 316
Period size: 42 Copynumber: 8.5 Consensus size: 42
6788 AATTCTGATC
* * * *
6798 AAAGCTCTTCTAAGCAGAGGCTTAATGACTTTGAAAA-ACATAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATA-A-AT
** * **
6841 ACAAAGCTCCTCTAAGTAGAGGCTCAATGACTTTGAAAAACATAAGC
1 --AAAGCTCCTCTAAACAGAGGCTCAACGACTTTG--AAA-ATAAAT
* * * **
6888 AAAGCTTCTCTAATCAGAGGCTTAAAAACTTTGGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTT-GAAAATAAAT
* *
6931 AAAACTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
6973 AAAGCTCCTCTAATA-AGAGGCTCAACGACTTTGAAAATAAAT
1 AAAGCTCCTCTAA-ACAGAGGCTCAACGACTTTGAAAATAAAT
*
7015 AAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT
1 ----AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
* *
7061 AAAGCTCCTCTAAATAGAGGCTCAACGACTTTTGGAAAGTAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGAC-TTT-GAAAATAAAT
* * *
7105 --TGCTCCTCTAATA-AAAGGCATC-ACAACTTTGAAAATAAAT
1 AAAGCTCCTCTAA-ACAGAGGC-TCAACGACTTTGAAAATAAAT
*
7145 --GGCTCCTCTAAACAGAGGC
1 AAAGCTCCTCTAAACAGAGGC
7164 ATCACAATTT
Statistics
Matches: 274, Mismatches: 31, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.00
40 24 0.09
41 3 0.01
42 94 0.34
43 37 0.14
44 12 0.04
45 56 0.20
46 41 0.15
47 3 0.01
48 2 0.01
49 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (42 bp):
AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
Found at i:7055 original size:130 final size:131
Alignment explanation
Indices: 6806--7144 Score: 413
Period size: 130 Copynumber: 2.6 Consensus size: 131
6796 TCAAAGCTCT
* * *
6806 TCTAAGCAGAGGCTTAATGACTTTGAAAA-ACATATACAAAGCTCCTCTAAGT-AGAGGCTCAAT
1 TCTAAACAGAGGCTCAATGACTTTGAAAATA-A-AT--AAAGCTCCTCTAA-TAAGAGGCTCAAC
* * * *
6869 GACTTTGAAAA-ACATAAGCAAAGCTTCTCTAATCAGAGGCTTAAAAACTTTGGAAAATAAATAA
61 GACTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTCAAAAACTTTGGAAAATAAATAA
6933 AACTCC
126 AACTCC
6939 TCTAAACAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAACGACTT
1 TCTAAACAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAACGACTT
** *
7004 TGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAATAAATAAAGCTC
66 TGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTCAAAAACTTTGGAAAATAAATAAAACTC
7068 C
131 C
* * * * * *
7069 TCTAAATAGAGGCTCAACGACTTTTGGAAAGTAAAT--TGCTCCTCTAATAAAAGGCATC-ACAA
1 TCTAAACAGAGGCTCAATGAC-TTT-GAAAATAAATAAAGCTCCTCTAATAAGAGGC-TCAACGA
7131 CTTTGAAAATAAAT
63 CTTTGAAAATAAAT
7145 GGCTCCTCTA
Statistics
Matches: 184, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
129 1 0.01
130 104 0.57
131 39 0.21
132 11 0.06
133 28 0.15
134 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (131 bp):
TCTAAACAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAACGACTT
TGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTCAAAAACTTTGGAAAATAAATAAAACTC
C
Found at i:8510 original size:47 final size:48
Alignment explanation
Indices: 8441--8712 Score: 159
Period size: 47 Copynumber: 5.1 Consensus size: 48
8431 TTTTGGAAAC
**
8441 TTTGATTTTCGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-AT
1 TTTGATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAACAT
* *
8488 TTTGATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTT
1 TTTGATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-C-AT
* * *
8538 TTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTT
1 TTTG-------ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAACA--T
* * *
8595 TTTGGAAATTTTGATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTCT
1 TTT-G--A---T--TTTT-AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA--C-AT
* *
8655 TTTGAAAATTTATTCTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 TTTG---A--T-TT-TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAACAT
8710 TTT
1 TTT
8713 TTTTGAAATT
Statistics
Matches: 181, Mismatches: 20, Indels: 40
0.75 0.08 0.17
Matches are distributed among these distances:
47 42 0.23
50 5 0.03
53 1 0.01
55 4 0.02
56 1 0.01
57 42 0.23
58 40 0.22
59 39 0.22
60 7 0.04
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.43
Consensus pattern (48 bp):
TTTGATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAACAT
Found at i:8520 original size:106 final size:105
Alignment explanation
Indices: 8394--8595 Score: 300
Period size: 104 Copynumber: 1.9 Consensus size: 105
8384 TCCTGTGCAG
* * * *
8394 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCGAGGAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACATTTTTT-GAAAATTT-ATTTTCAAGAAAA
8458 ATTGATACTTTCAACTTTTCCCCAAAAA-ATTTTGATTTTTAA
63 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTGATTTTTAA
* *
8500 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTGAAAATTTATTTTCAAGAAAAATT
*
8565 GATACTTTCAACTTTTCCCTAAAAATATTTT
66 GATACTTTCAACTTTTCCCCAAAAATATTTT
8596 TTGGAAATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 37 0.43
105 18 0.21
106 32 0.37
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.42
Consensus pattern (105 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTGAAAATTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTGATTTTTAA
Found at i:8639 original size:59 final size:58
Alignment explanation
Indices: 8484--8908 Score: 497
Period size: 59 Copynumber: 7.2 Consensus size: 58
8474 TTTCCCCAAA
* **
8484 AAATTTTGATTTTTAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTG
1 AAATTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTG
* * *
8542 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTGG
1 AAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTT-G
* ** *
8600 AAATTTTGATTTTCAAGAAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTCTTTTG
1 AAATTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAA-TATTTTTTG
*
8659 AAAATTTATTCTT-AAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTG
1 AAATTTTATT-TTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAATA--TTTTTTG
*
8718 AAATTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTTTG
1 AAA-TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAA--TATTTTTTG
* * *
8778 AAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTG
1 AAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTG
* *
8835 AAAATTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTT-CCTCAAAAACCCTTTTTTTTG
1 -AAATTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAA---TATTTTTTG
*
8897 GAATTTTATTTT
1 AAATTTTATTTT
8909 TAAAGGGAAA
Statistics
Matches: 320, Mismatches: 26, Indels: 40
0.83 0.07 0.10
Matches are distributed among these distances:
57 50 0.16
58 61 0.19
59 134 0.42
60 60 0.19
61 6 0.02
62 9 0.03
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (58 bp):
AAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTG
Found at i:8765 original size:118 final size:117
Alignment explanation
Indices: 8484--8911 Score: 698
Period size: 118 Copynumber: 3.6 Consensus size: 117
8474 TTTCCCCAAA
*
8484 AAATTTTGATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTGAAAATT
1 AAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATT
*
8548 TATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGG
66 TATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTG
* *
8600 AAATTTTGATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTCTTTTGAAAATT
1 AAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATT
* *
8665 TATTCTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG
66 TATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTG
* *
8718 AAATTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAAT
1 AAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACC-CTTTTTTGAAAAT
8783 TTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTG
65 TTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTG
* *
8835 AAAATTTTGATTTTCAAGGAAAATTGATACCTTCAACTTTTCCTCAAAAACCCTTTTTTTTGGAA
1 -AAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCC--TTTTTTGAAA
*
8900 TTTTATTTTTAA
63 ATTTATTTTTAA
8912 AGGGAAAAAA
Statistics
Matches: 289, Mismatches: 17, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
116 47 0.16
117 63 0.22
118 105 0.36
119 74 0.26
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (117 bp):
AAATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATT
TATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTG
Found at i:8927 original size:5 final size:5
Alignment explanation
Indices: 8919--8997 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
8909 TAAAGGGAAA
* * *
8919 AAAAT AAAAC AAAAT AAAAGT GAAAA- GAAA- AAAAT AAAAT -AAAT AAAAG
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
8968 AAAGT ACAAA- AAAAT AAAAT AAAGAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAA-AT AAAA
8998 AGAATATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 13 0.22
5 34 0.58
6 8 0.14
7 4 0.07
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:8943 original size:25 final size:25
Alignment explanation
Indices: 8910--8961 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8900 TTTTATTTTT
8910 AAAGGGAAAA-AAATAAAACAAAATA
1 AAAGGGAAAAGAAA-AAAACAAAATA
* *
8935 AAAGTGAAAAGAAAAAAATAAAATA
1 AAAGGGAAAAGAAAAAAACAAAATA
8960 AA
1 AA
8962 TAAAAGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.10
Consensus pattern (25 bp):
AAAGGGAAAAGAAAAAAACAAAATA
Found at i:8962 original size:29 final size:28
Alignment explanation
Indices: 8910--8990 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
8900 TTTTATTTTT
* *
8910 AAAGGGAAAAAAATAAAACAAAATAAAAGTG
1 AAAGAGAAAAAAATAAAA-TAAATAAAA--G
8941 AAA-AGAAAAAAATAAAATAAATAAAAG
1 AAAGAGAAAAAAATAAAATAAATAAAAG
*
8968 AAAGTACAAAAAAATAAAATAAA
1 AAAG-AGAAAAAAATAAAATAAA
8991 GATAAAAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.09
29 25 0.56
30 13 0.29
31 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (28 bp):
AAAGAGAAAAAAATAAAATAAATAAAAG
Found at i:8998 original size:20 final size:20
Alignment explanation
Indices: 8952--9003 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
8942 AAAGAAAAAA
*
8952 ATAAAATAAATAAAAGAAAG
1 ATAAAAAAAATAAAAGAAAG
*
8972 -TACAAAAAAATAAAATAAAG
1 ATA-AAAAAAATAAAAGAAAG
*
8992 ATAAAAAGAATA
1 ATAAAAAAAATA
9004 TTAAATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (20 bp):
ATAAAAAAAATAAAAGAAAG
Found at i:9028 original size:4 final size:4
Alignment explanation
Indices: 9021--9075 Score: 67
Period size: 4 Copynumber: 13.8 Consensus size: 4
9011 AACCTAATCT
* * *
9021 AATA AATA AAAA AACA AATAA AATA AA-A AATA AATA AACA AATA AATA
1 AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA
9069 AATA AAT
1 AATA AAT
9076 TCAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
3 3 0.07
4 37 0.84
5 4 0.09
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:9455 original size:20 final size:19
Alignment explanation
Indices: 9427--9470 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9417 GAATGTTTGC
*
9427 CGGATTCTGGAAAATTTCAT
1 CGGAATCTGG-AAATTTCAT
**
9447 CGGAATCTGGATTTTTCAT
1 CGGAATCTGGAAATTTCAT
9466 CGGAA
1 CGGAA
9471 GTTCACTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (19 bp):
CGGAATCTGGAAATTTCAT
Found at i:10020 original size:8 final size:8
Alignment explanation
Indices: 10007--10032 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9997 TTAACAGGAT
10007 AAAAAATA
1 AAAAAATA
10015 AAAAAATA
1 AAAAAATA
10023 AAAAAATA
1 AAAAAATA
10031 AA
1 AA
10033 GATATATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:10096 original size:44 final size:44
Alignment explanation
Indices: 10021--10104 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
10011 AATAAAAAAA
*
10021 TAAAAAAATAAAGATATATACATATTAAT-AAATAAGTAAATAGC
1 TAAAAAAATAAAAATATATACATATTAATAAAATAA-TAAATAGC
*
10065 TAAAATAAA-AAAAATATATATATA-TATATAAAATAATAAA
1 TAAAA-AAATAAAAATATATACATATTA-ATAAAATAATAAA
10105 AATAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
43 2 0.06
44 24 0.69
45 9 0.26
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (44 bp):
TAAAAAAATAAAAATATATACATATTAATAAAATAATAAATAGC
Found at i:10107 original size:37 final size:36
Alignment explanation
Indices: 10066--10172 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
10056 GTAAATAGCT
* * * *
10066 AAAATAAAAAAAATATATATATATATATAAAATAATA
1 AAAATAAAAAAAATATAAAAATAGA-ATAAAATAAAA
10103 AAAATAAAAATAAA-ATAAAAATAGAATAAAATAAAA
1 AAAATAAAAA-AAATATAAAAATAGAATAAAATAAAA
*
10139 ATAAGATAAAATAAAATA-AAAAATA-AAAAAAATA
1 A-AA-ATAAAA-AAAATATAAAAATAGAATAAAATA
10173 GCATAGACTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
36 11 0.18
37 28 0.47
38 19 0.32
39 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (36 bp):
AAAATAAAAAAAATATAAAAATAGAATAAAATAAAA
Found at i:10111 original size:5 final size:5
Alignment explanation
Indices: 10065--10172 Score: 78
Period size: 5 Copynumber: 20.4 Consensus size: 5
10055 AGTAAATAGC
* *
10065 TAAAA TAAAA -AAAA TATATATA TATATA TAAAA TAATA -AAAA TAAAAA
1 TAAAA TAAAA TAAAA TA-A-A-A TA-AAA TAAAA TAAAA TAAAA T-AAAA
* *
10113 TAAAA TAAAAA TAGAA TAAAA TAAAAA TAAGA TAAAA TAAAA TAAAAAA
1 TAAAA T-AAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA T--AAAA
10162 TAAAA -AAAA TA
1 TAAAA TAAAA TA
10173 GCATAGACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
4 11 0.13
5 43 0.51
6 19 0.23
7 6 0.07
8 5 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:10119 original size:11 final size:11
Alignment explanation
Indices: 10103--10167 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
10093 TAAAATAATA
10103 AAAATAAAAAT
1 AAAATAAAAAT
10114 AAAATAAAAAT
1 AAAATAAAAAT
*
10125 AGAAT-AAAAT
1 AAAATAAAAAT
*
10135 AAAA-ATAAGAT
1 AAAATA-AAAAT
*
10146 AAAATAAAATAA
1 AAAATAAAA-AT
10158 AAAATAAAAA
1 AAAATAAAAA
10168 AAATAGCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
10 8 0.18
11 26 0.58
12 11 0.24
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:10130 original size:16 final size:15
Alignment explanation
Indices: 10099--10172 Score: 84
Period size: 16 Copynumber: 4.9 Consensus size: 15
10089 TATATAAAAT
10099 AATAAAAATAAAAATAA
1 AATAAAAAT--AAATAA
10116 AATAAAAATAGAATAA
1 AATAAAAATA-AATAA
10132 AATAAAAATAAGATAA
1 AATAAAAATAA-ATAA
10148 AAT-AAAAT-AA-AA
1 AATAAAAATAAATAA
10160 AATAAAAA-AAATA
1 AATAAAAATAAATA
10173 GCATAGACTT
Statistics
Matches: 52, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.10
13 7 0.13
14 2 0.04
15 7 0.13
16 22 0.42
17 9 0.17
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AATAAAAATAAATAA
Found at i:10518 original size:10 final size:9
Alignment explanation
Indices: 10505--10611 Score: 92
Period size: 8 Copynumber: 12.8 Consensus size: 9
10495 TTCATTCATT
10505 TTTTTTGTCA
1 TTTTTT-TCA
* *
10515 -TTTTTCCT
1 TTTTTTTCA
10523 TTTTTTTCA
1 TTTTTTTCA
10532 -TTTTTTCA
1 TTTTTTTCA
10540 TTTTTTTTCA
1 -TTTTTTTCA
10550 TTTTTTTTCA
1 -TTTTTTTCA
10560 TTTTTTTC-
1 TTTTTTTCA
10568 -TTTTTTC-
1 TTTTTTTCA
10575 -TTTTTTCA
1 TTTTTTTCA
10583 -TTTTTTCA
1 TTTTTTTCA
10591 ---TTTTCA
1 TTTTTTTCA
10597 TTTTTTTC-
1 TTTTTTTCA
10605 TTTTTTT
1 TTTTTTT
10612 TTCAAGCATA
Statistics
Matches: 86, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.07
7 14 0.16
8 24 0.28
9 24 0.28
10 18 0.21
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:10527 original size:18 final size:17
Alignment explanation
Indices: 10499--10615 Score: 84
Period size: 18 Copynumber: 6.8 Consensus size: 17
10489 TCCTTTTTCA
10499 TTCATTTTTTTTGTCATTT
1 TTCA-TTTTTTT-TCATTT
*
10518 TTCCTTTTTTTTCATTTT
1 TTCATTTTTTTTCA-TTT
10536 TTCATTTTTTTTCATTTTTT
1 TTCATTTTTTTTCA---TTT
10556 TTCA-TTTTTTTC-TTT
1 TTCATTTTTTTTCATTT
*
10571 TT--TCTTTTTTCATTTT
1 TTCATTTTTTTTCA-TTT
**
10587 TTCATTTTCATT--TTT
1 TTCATTTTTTTTCATTT
*
10602 TTCTTTTTTTTTCA
1 TTCATTTTTTTTCA
10616 AGCATAGTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
14 7 0.09
15 17 0.22
16 5 0.06
17 3 0.04
18 28 0.35
19 11 0.14
20 8 0.10
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.78
Consensus pattern (17 bp):
TTCATTTTTTTTCATTT
Found at i:10544 original size:37 final size:36
Alignment explanation
Indices: 10499--10615 Score: 108
Period size: 37 Copynumber: 3.4 Consensus size: 36
10489 TCCTTTTTCA
*
10499 TTCATTTTTTTTGTCA-TTTTTCCTTTTTTTTCATTTT
1 TTCATTTTTTTT-TCATTTTTTCCATTTTTTTC-TTTT
*
10536 TTCA-TTTTTTTTCATTTTTTTTCATTTTTTTCTTTT
1 TTCATTTTTTTTTCA-TTTTTTCCATTTTTTTCTTTT
**
10572 TTC----TTTTTTCATTTTTT-CATTTTCAT-TTTT
1 TTCATTTTTTTTTCATTTTTTCCATTTTTTTCTTTT
10602 TTC-TTTTTTTTTCA
1 TTCATTTTTTTTTCA
10616 AGCATAGTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
30 7 0.10
31 7 0.10
32 6 0.08
33 16 0.23
35 3 0.04
36 14 0.20
37 18 0.25
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.78
Consensus pattern (36 bp):
TTCATTTTTTTTTCATTTTTTCCATTTTTTTCTTTT
Found at i:10551 original size:51 final size:50
Alignment explanation
Indices: 10492--10594 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 50
10482 TGAGTCCTCC
*
10492 TTTTTCA-TTCATTT-TTTTTGTCATTTTTCCTTTTTTTTCATTTTTTCATTT
1 TTTTTCATTTCATTTATTTTTGTC-TTTTT--TCTTTTTTCATTTTTTCATTT
** *
10543 TTTTTCATTTTTTTTCATTTTTTTCTTTTTTCTTTTTTCATTTTTTCATTT
1 TTTTTCATTTCATTT-ATTTTTGTCTTTTTTCTTTTTTCATTTTTTCATTT
10594 T
1 T
10595 CATTTTTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
51 28 0.62
52 5 0.11
53 5 0.11
54 7 0.16
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.78
Consensus pattern (50 bp):
TTTTTCATTTCATTTATTTTTGTCTTTTTTCTTTTTTCATTTTTTCATTT
Found at i:10612 original size:10 final size:10
Alignment explanation
Indices: 10515--10614 Score: 62
Period size: 10 Copynumber: 9.6 Consensus size: 10
10505 TTTTTTGTCA
*
10515 TTTTTCCTTT
1 TTTTTCTTTT
*
10525 TTTTTC--AT
1 TTTTTCTTTT
*
10533 TTTTTCATTT
1 TTTTTCTTTT
*
10543 TTTTTCATTT
1 TTTTTCTTTT
10553 TTTTTCATTTT
1 TTTTTC-TTTT
*
10564 TTTCTTTTTTCT
1 TTT-TTCTTT-T
10576 TTTTTCATTTT
1 TTTTTC-TTTT
*
10587 TTCATTT-TCATT
1 TT--TTTCT-TTT
10599 TTTTTCTTTT
1 TTTTTCTTTT
10609 TTTTTC
1 TTTTTC
10615 AAGCATAGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
8 7 0.10
10 34 0.47
11 16 0.22
12 13 0.18
13 3 0.04
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:17987 original size:12 final size:11
Alignment explanation
Indices: 17964--17997 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17954 AAGAAAATCC
*
17964 AAGAAAATAAA
1 AAGAAAAAAAA
*
17975 AAGGAAAAAAA
1 AAGAAAAAAAA
17986 AAGAAAAAAAA
1 AAGAAAAAAAA
17997 A
1 A
17998 CATGATTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:17988 original size:11 final size:10
Alignment explanation
Indices: 17964--17997 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
17954 AAGAAAATCC
17964 AAGAAAATAAA
1 AAGAAAA-AAA
17975 AAGGAAAAAAA
1 AA-GAAAAAAA
17986 AAGAAAAAAA
1 AAGAAAAAAA
17996 AA
1 AA
17998 CATGATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 7 0.32
12 5 0.23
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:18129 original size:56 final size:57
Alignment explanation
Indices: 18058--18169 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
18048 TGTTACAAGG
* *
18058 AAAATTGATACTTTCAACTTTTCC-CCAAAATATTTTTTTGAAACTTATTTTTAAGT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAGT
* *
18114 AAAATTTATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAG
18170 AAACTTATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 22 0.43
57 29 0.57
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.47
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAGT
Found at i:18167 original size:14 final size:15
Alignment explanation
Indices: 18145--18187 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
18135 TCCTCAAAAA
*
18145 TATTTTTTAGAAACT
1 TATTTTTAAGAAACT
18160 TATTTTTAAGAAACT
1 TATTTTTAAGAAACT
18175 TATTTTTAAGAAA
1 TATTTTTAAGAAA
18188 AATTGATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (15 bp):
TATTTTTAAGAAACT
Found at i:18205 original size:72 final size:74
Alignment explanation
Indices: 18088--18240 Score: 229
Period size: 72 Copynumber: 2.1 Consensus size: 74
18078 TTCCCCAAAA
** * * *
18088 TATTTTTTTGAAACTTATTTTTAAGTAAAATTTATATTTTCAACTTTTCCTCAAAAATA-TTTTT
1 TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT
*
18152 T-AGAAACT
66 TGAAAAACT
18160 TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT
1 TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAC-TTTT
18225 TTGAAAAACT
65 TTGAAAAACT
18235 TATTTT
1 TATTTT
18241 CAAGGAAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 54 0.75
74 6 0.08
75 12 0.17
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (74 bp):
TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT
TGAAAAACT
Found at i:18238 original size:60 final size:60
Alignment explanation
Indices: 18157--18347 Score: 294
Period size: 60 Copynumber: 3.1 Consensus size: 60
18147 TTTTTTAGAA
*
18157 ACTTATTTTT-AAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 ACTT-TTTTTGAA-AAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
*
18218 ACTTTTTTTGAAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 ACTTTTTTTGAAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
* * *
18278 ATTTTTTTTGAAAAACTTATTTTCATGAAAAATTGATACTTTCAACTTTTTCTCAAAAAT
1 ACTTTTTTTGAAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
*
18338 ATATTTTTTT
1 A-CTTTTTTT
18348 AATTTTATTT
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
60 108 0.89
61 13 0.11
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.46
Consensus pattern (60 bp):
ACTTTTTTTGAAAAACTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
Found at i:18370 original size:5 final size:5
Alignment explanation
Indices: 18362--18423 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
18352 TTATTTAAAG
*
18362 AAAAT AAAAT TAAA- AAAAT AAAAT AAAAATT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA-T -AAAAT -AAAAT AAA-AT
18410 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
18424 AGTATTAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 4 0.08
5 28 0.58
6 11 0.23
7 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:18381 original size:14 final size:14
Alignment explanation
Indices: 18356--18390 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
18346 TTAATTTTAT
18356 TTAAAGAAAATAAAA
1 TTAAA-AAAATAAAA
18371 TTAAAAAAATAAAA
1 TTAAAAAAATAAAA
18385 -TAAAAA
1 TTAAAAA
18391 TTGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
TTAAAAAAATAAAA
Found at i:18384 original size:6 final size:6
Alignment explanation
Indices: 18362--18424 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
18352 TTATTTAAAG
* * * *
18362 AAAATA AAATTA AAAAAA TAAAATA AAAATTG AAAATA AAAAT- -AAAGA
1 AAAATA AAAATA AAAATA -AAAATA AAAA-TA AAAATA AAAATA AAAATA
18410 AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAA
18425 GTATTAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
4 3 0.07
5 5 0.11
6 26 0.59
7 10 0.23
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:18388 original size:13 final size:13
Alignment explanation
Indices: 18357--18403 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
18347 TAATTTTATT
18357 TAAAGAAAATAAAA
1 TAAA-AAAATAAAA
18371 TTAAAAAAATAAAA
1 -TAAAAAAATAAAA
*
18385 T-AAAAATTGAAAA
1 TAAAAAAAT-AAAA
18398 TAAAAA
1 TAAAAA
18404 TAAAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 13 0.45
15 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:18418 original size:34 final size:32
Alignment explanation
Indices: 18361--18424 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
18351 TTTATTTAAA
*
18361 GAAAATAAAATTAAAAAAATAAAATAAAAATT
1 GAAAATAAAATAAAAAAAATAAAATAAAAATT
18393 GAAAATAAAAATAAAGAAAAATAAAATAAAAA
1 GAAAAT-AAAATAAA-AAAAATAAAATAAAAA
18425 GTATTAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 6 0.21
33 7 0.24
34 16 0.55
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (32 bp):
GAAAATAAAATAAAAAAAATAAAATAAAAATT
Found at i:18461 original size:3 final size:3
Alignment explanation
Indices: 18453--18493 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
18443 CTAATCAATA
* * *
18453 AAT AAT AAT AAC AAC AAC AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18494 ATAAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:19059 original size:33 final size:33
Alignment explanation
Indices: 19014--19090 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
19004 TATTAAATAC
* *
19014 AAAATACGAAATACACAAAAAAATATACCAA-AA
1 AAAATACAAAATACACAAAAAAATATA-AAACAA
* *
19047 ATAATACAAAATACATAAAAAAATATAAAACAA
1 AAAATACAAAATACACAAAAAAATATAAAACAA
19080 AAAATACAAAA
1 AAAATACAAAA
19091 AAAAGAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.73, C:0.12, G:0.01, T:0.14
Consensus pattern (33 bp):
AAAATACAAAATACACAAAAAAATATAAAACAA
Found at i:19074 original size:24 final size:23
Alignment explanation
Indices: 19043--19094 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
19033 AAAATATACC
*
19043 AAAAATAATAC-AAAATACATAAA
1 AAAAATAAAACAAAAATACA-AAA
19066 AAAATATAAAACAAAAAATACAAAA
1 AAAA-ATAAAAC-AAAAATACAAAA
19091 AAAA
1 AAAA
19095 GAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 4 0.16
24 6 0.24
25 7 0.28
26 8 0.32
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (23 bp):
AAAAATAAAACAAAAATACAAAA
Found at i:19081 original size:14 final size:14
Alignment explanation
Indices: 19064--19112 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
19054 AAAATACATA
*
19064 AAAAAATATAAAAC
1 AAAAAATAAAAAAC
19078 AAAAAATACAAAAA-
1 AAAAAATA-AAAAAC
*
19092 AAAGAATAAAAAAC
1 AAAAAATAAAAAAC
19106 AGAAAAA
1 A-AAAAA
19113 ATCAAGGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.82, C:0.06, G:0.04, T:0.08
Consensus pattern (14 bp):
AAAAAATAAAAAAC
Found at i:19092 original size:26 final size:29
Alignment explanation
Indices: 19054--19112 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
19044 AAAATAATAC
* *
19054 AAAATAC-ATAAAAA-AATATAAAACA-A
1 AAAATACAAAAAAAAGAATAAAAAACAGA
19080 AAAATACAAAAAAAAGAATAAAAAACAGA
1 AAAATACAAAAAAAAGAATAAAAAACAGA
19109 AAAA
1 AAAA
19113 ATCAAGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 6 0.21
28 10 0.36
29 5 0.18
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (29 bp):
AAAATACAAAAAAAAGAATAAAAAACAGA
Found at i:21094 original size:13 final size:13
Alignment explanation
Indices: 21078--21119 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
21068 TTCATCAATT
21078 TAAATTTTTAATA
1 TAAATTTTTAATA
21091 TAAATTTTT-ATA
1 TAAATTTTTAATA
21103 TAATATTTTTAAT-
1 TAA-ATTTTTAATA
21116 TAAA
1 TAAA
21120 AAATCACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.26
13 18 0.67
14 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAAATTTTTAATA
Found at i:22932 original size:5 final size:6
Alignment explanation
Indices: 22913--22942 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
22903 AGTCCATTTG
22913 TTTATT TTTATT TTTATTT TTTATT TTTAT
1 TTTATT TTTATT TTTA-TT TTTATT TTTAT
22943 CTATTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:22935 original size:13 final size:13
Alignment explanation
Indices: 22913--22942 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22903 AGTCCATTTG
22913 TTTA-TTTTTATT
1 TTTATTTTTTATT
22925 TTTATTTTTTATT
1 TTTATTTTTTATT
22938 TTTAT
1 TTTAT
22943 CTATTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:23057 original size:24 final size:24
Alignment explanation
Indices: 23004--23057 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
22994 TATCTATTAA
**
23004 TATATATATGTTTTTATTATTTAT
1 TATATATATGTTTTTATTATCAAT
23028 TAATATATAT-TTTTTATTATCAAT
1 T-ATATATATGTTTTTATTATCAAT
23052 GTATAT
1 -TATAT
23058 TTATCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TATATATATGTTTTTATTATCAAT
Found at i:29382 original size:13 final size:14
Alignment explanation
Indices: 29355--29398 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
29345 TATTGAAAAT
29355 AATTGAAAAACTAA
1 AATTGAAAAACTAA
*
29369 AATT-AAAAATTAA
1 AATTGAAAAACTAA
* *
29382 AATTGATAAACTGA
1 AATTGAAAAACTAA
29396 AAT
1 AAT
29399 ATTTTCTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (14 bp):
AATTGAAAAACTAA
Found at i:30377 original size:3 final size:3
Alignment explanation
Indices: 30363--30402 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
30353 TCTTCACTTG
*
30363 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30403 CATTGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:30414 original size:3 final size:3
Alignment explanation
Indices: 30408--30441 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30398 AATAACATTG
30408 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30442 ATGATAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31540 original size:18 final size:19
Alignment explanation
Indices: 31519--31554 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31509 TTAGTTTTTA
31519 ATTATTTATCA-AAAAATT
1 ATTATTTATCATAAAAATT
*
31537 ATTATTTTTCATAAAAAT
1 ATTATTTATCATAAAAAT
31555 AATTTACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTTATCATAAAAATT
Found at i:31587 original size:19 final size:20
Alignment explanation
Indices: 31551--31593 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
31541 TTTTTCATAA
31551 AAATAATTTACTGATTTT-T
1 AAATAATTTACTGATTTTGT
*
31570 AAATAATTTA-TTATTTTTGT
1 AAATAATTTACTGA-TTTTGT
31590 AAAT
1 AAAT
31594 GTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.67
20 5 0.24
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTGATTTTGT
Found at i:35076 original size:24 final size:24
Alignment explanation
Indices: 35022--35068 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35012 AATTAAATAA
* *
35022 AAAATAATATTTTATGATTTCATG
1 AAAATAATATTCTACGATTTCATG
35046 AAAATAATATTCTACGATTTCAT
1 AAAATAATATTCTACGATTTCAT
35069 TTAGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (24 bp):
AAAATAATATTCTACGATTTCATG
Found at i:36190 original size:11 final size:11
Alignment explanation
Indices: 36174--36198 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36164 TTTGACATAA
36174 AATAATTTAAT
1 AATAATTTAAT
36185 AATAATTTAAT
1 AATAATTTAAT
36196 AAT
1 AAT
36199 TTTTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:36642 original size:19 final size:19
Alignment explanation
Indices: 36620--36656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36610 AATTGTATTC
*
36620 TTTTTAATATTAAACTATA
1 TTTTTAATACTAAACTATA
*
36639 TTTTTCATACTAAACTAT
1 TTTTTAATACTAAACTAT
36657 TATATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTTAATACTAAACTATA
Found at i:36814 original size:22 final size:22
Alignment explanation
Indices: 36780--36838 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
36770 ATTAAATGAA
*
36780 TTAAATAATAAAAATTAATTATT
1 TTAAATAAT-AAAATTAATAATT
36803 TTAAA-AATAAAA-TAATAATT
1 TTAAATAATAAAATTAATAATT
36823 TTAAATAATTAAAATT
1 TTAAATAA-TAAAATT
36839 TGTTTAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 12 0.38
21 6 0.19
22 8 0.25
23 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAATAATAAAATTAATAATT
Found at i:38366 original size:25 final size:26
Alignment explanation
Indices: 38334--38389 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
38324 TACAATCAAA
* *
38334 ATGATTTTTC-TTAGATGCTTTATTT
1 ATGATTTTACTTTAGATGCTTTAATT
38359 ATGATTTTACTTTAGATGCTTTAATT
1 ATGATTTTACTTTAGATGCTTTAATT
38385 -TGATT
1 ATGATT
38390 GATGCAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (26 bp):
ATGATTTTACTTTAGATGCTTTAATT
Found at i:38426 original size:24 final size:23
Alignment explanation
Indices: 38399--38455 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
38389 TGATGCAACA
38399 AGATTTTTT-TTAATTTATCAATTT
1 AGATTTTTTGTTAA-TT-TCAATTT
38423 AGATTTTTAATGTTAATTTCAATTT
1 AGATTTTT--TGTTAATTTCAATTT
38448 A-ATTTTTT
1 AGATTTTTT
38456 AATAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 1 0.03
24 14 0.47
25 8 0.27
26 3 0.10
27 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (23 bp):
AGATTTTTTGTTAATTTCAATTT
Found at i:38719 original size:25 final size:26
Alignment explanation
Indices: 38667--38721 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
38657 TCTTTTTTTA
*
38667 TTTTTAATTAATAAATTATGAAATAAT
1 TTTTTAATTAAT-AATAATGAAATAAT
38694 TTTTTAATTTAAT-ATAATGAAA-AAT
1 TTTTTAA-TTAATAATAATGAAATAAT
38719 TTT
1 TTT
38722 ATTATATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 6 0.23
26 8 0.31
27 7 0.27
28 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTTAATTAATAATAATGAAATAAT
Found at i:38786 original size:17 final size:17
Alignment explanation
Indices: 38756--38807 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
38746 ATAAAATTAT
38756 AATTA-TATTATATAAA
1 AATTATTATTATATAAA
* *
38772 AATTATTATTTTATAAG
1 AATTATTATTATATAAA
**
38789 TTTTATTATTATATAAA
1 AATTATTATTATATAAA
38806 AA
1 AA
38808 ACTAATTAAC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTATTATTATATAAA
Found at i:39689 original size:21 final size:18
Alignment explanation
Indices: 39652--39686 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39642 GACGACTGAG
39652 TTTTTAAAAATTTATTAA
1 TTTTTAAAAATTTATTAA
* *
39670 TTTTTATAAATATATTA
1 TTTTTAAAAATTTATTA
39687 TTATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATTTATTAA
Found at i:41012 original size:21 final size:21
Alignment explanation
Indices: 40970--41029 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
40960 AATATGAATT
*
40970 AATATTAAATTAGTAATATTA
1 AATATTAAATTAATAATATTA
* * *
40991 AATATTAATTTAATAGTCTTA
1 AATATTAAATTAATAATATTA
*
41012 ATTATT--ATTAATAATATT
1 AATATTAAATTAATAATATT
41030 GAAAGTGATT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 9 0.29
21 22 0.71
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
AATATTAAATTAATAATATTA
Found at i:41740 original size:80 final size:80
Alignment explanation
Indices: 41606--41760 Score: 256
Period size: 80 Copynumber: 1.9 Consensus size: 80
41596 TGTTGACAAT
* * * *
41606 TATTGCATATCCTTTGGCCAATAATTTAATTAGCACCGTGAACACGTTAGAAATGAGAGGTCAAA
1 TATTGCATATCCTTTGACCAATAATTTAATTAGCACCATGAACACGTTAAAAATGAGAGGCCAAA
41671 AGAAATGGATATAAC
66 AGAAATGGATATAAC
* *
41686 TATTGCATATCCTTTGACCAATAATTTAATTAGCACCATGAATATGTTAAAAATGAGAGGCCAAA
1 TATTGCATATCCTTTGACCAATAATTTAATTAGCACCATGAACACGTTAAAAATGAGAGGCCAAA
41751 AGAAATGGAT
66 AGAAATGGAT
41761 GACTCCAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (80 bp):
TATTGCATATCCTTTGACCAATAATTTAATTAGCACCATGAACACGTTAAAAATGAGAGGCCAAA
AGAAATGGATATAAC
Found at i:41973 original size:484 final size:481
Alignment explanation
Indices: 41313--42239 Score: 1380
Period size: 479 Copynumber: 1.9 Consensus size: 481
41303 ATGAAATTCT
* ** * * *
41313 TCGGGTGTGTGCAATTCTTGGGGTCTTGAAATCATTTAAATTCGTTTTGGGTTAAGTATTTTTAG
1 TCGGGTGTATGCAATTCTTAAGGTCTTGAAATCATTTAAATTC-TATTGAGTTAAGTACTTTTAG
* *
41378 TTAAACTATTGTAATCTTTAAATTGATTGATCTTGTTTTTTGAAGTAGACTTGATCTGTTTCTTT
65 TTAAACTATTGTAATC------TT-ATTGATCTTGTTTTTTCAAGTAGACTTGATCAGTTTCTTT
*
41443 TTGGATGAATAAATTGATTCATTTATTAAAAAAATCTTTTAATTTATCAATTTAAAATTTTAATT
123 TTGGATGAATAAATTGATTCATTTATCAAAAAAATCTTTTAATTTATCAATTTAAAATTTTAATT
* * * *
41508 TTATTTAATTATTTTTAATAAAAAATTTGATAAACTTTACTTATATAATTTTATTTAATTCAATT
188 TAATTTAATTATTTTTAATAAAAAATTTAAT-AA----ACTTATATAATTTCATTAAATTC-ATT
* ** *
41573 -ATGTCTTTCCTATTGCAATGTAATGTTGACAATTATTGCATATCCTTTGGCCAATAATTTAATT
247 CAAGTCTTTCCTATTGCAACATAATGTTGACAAGTATTGCATATCCTTTGGCCAATAATTTAATT
* * *
41637 AGCACCGTGAACACGTTAGAAATGAGAGGTCAAAAGAAATGGATATAACTATTGCATATCCTTT-
312 AGCACCATGAACACGTTAGAAATGAGAGGTCAAAAGAAATGGATACAACTATTACATATCCTTTA
* *
41701 GACCAATAATTTAATTAGCACCATGAATATGTTAAAAATGAGAGGCCAAAAGAAATGGATGACTC
377 G-CCAATAATTTAATTAGCACCATGAATACGTTAAAAATGAGAGGCCAAAAAAAATGGATGACTC
41766 CAAATTGGAAACTAACTTTCGGTTCGTACTTCTTCTAAAGA
441 CAAATTGGAAACTAACTTTCGGTTCGTACTTCTTCTAAAGA
*
41807 TCGGGCTGTATGCAATTCTTAAGGTCTTGAAATCATTTAAATT-TATTGTAGTTAAGTACTTTTG
1 TCGGG-TGTATGCAATTCTTAAGGTCTTGAAATCATTTAAATTCTATTG-AGTTAAGTACTTTTA
41871 GTTAAACTATTGTAATC-T-TTGATCTTGTTTTTTCAAGTAGACTTGATCAG-TTCTTTTTGGAT
64 GTTAAACTATTGTAATCTTATTGATCTTGTTTTTTCAAGTAGACTTGATCAGTTTCTTTTTGGAT
41933 GAATAAATTGATTCATTTATCAAAAAAATCTTTTAATTTATCAATTTAAAATTTTAATTTAATTT
129 GAATAAATTGATTCATTTATCAAAAAAATCTTTTAATTTATCAATTTAAAATTTTAATTTAATTT
**
41998 AATTATTTTTAATAAAAAATTTAATAAACTTATATAATTTCATTAAATTCATTCAAGTCTTTTTT
194 AATTATTTTTAATAAAAAATTTAATAAACTTATATAATTTCATTAAATTCATTCAAGTCTTTCCT
* * * *
42063 ATTGCACCATAATGTTGACAAGTATTTCATATTCTTTGGCCAATAATTTAATTAGCACCATGAAT
259 ATTGCAACATAATGTTGACAAGTATTGCATATCCTTTGGCCAATAATTTAATTAGCACCATGAAC
42128 ACGTTAGAAATGAGAGGTCAAAAGAAATGGATACAACTATTACATATCCTTTAGCCAATAATTTA
324 ACGTTAGAAATGAGAGGTCAAAAGAAATGGATACAACTATTACATATCCTTTAGCCAATAATTTA
* *
42193 ATTAGCACTATGAATACGTTAGAAATGAGAGGCCAAAAAAAATGGAT
389 ATTAGCACCATGAATACGTTAAAAATGAGAGGCCAAAAAAAATGGAT
42240 AAAACTCTAC
Statistics
Matches: 398, Mismatches: 31, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
478 3 0.01
479 190 0.48
480 1 0.00
483 2 0.01
484 99 0.25
485 30 0.08
487 1 0.00
493 4 0.01
494 34 0.09
495 34 0.09
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (481 bp):
TCGGGTGTATGCAATTCTTAAGGTCTTGAAATCATTTAAATTCTATTGAGTTAAGTACTTTTAGT
TAAACTATTGTAATCTTATTGATCTTGTTTTTTCAAGTAGACTTGATCAGTTTCTTTTTGGATGA
ATAAATTGATTCATTTATCAAAAAAATCTTTTAATTTATCAATTTAAAATTTTAATTTAATTTAA
TTATTTTTAATAAAAAATTTAATAAACTTATATAATTTCATTAAATTCATTCAAGTCTTTCCTAT
TGCAACATAATGTTGACAAGTATTGCATATCCTTTGGCCAATAATTTAATTAGCACCATGAACAC
GTTAGAAATGAGAGGTCAAAAGAAATGGATACAACTATTACATATCCTTTAGCCAATAATTTAAT
TAGCACCATGAATACGTTAAAAATGAGAGGCCAAAAAAAATGGATGACTCCAAATTGGAAACTAA
CTTTCGGTTCGTACTTCTTCTAAAGA
Found at i:42223 original size:80 final size:80
Alignment explanation
Indices: 42080--42245 Score: 260
Period size: 80 Copynumber: 2.1 Consensus size: 80
42070 CATAATGTTG
* * * *
42080 ACAAGTATTTCATATTCTTTGGCCAATAATTTAATTAGCACCATGAATACGTTAGAAATGAGAGG
1 ACAACTATTACATATCCTTTAGCCAATAATTTAATTAGCACCATGAATACGTTAGAAATGAGAGG
* *
42145 TCAAAAGAAATGGAT
66 CCAAAAAAAATGGAT
*
42160 ACAACTATTACATATCCTTTAGCCAATAATTTAATTAGCACTATGAATACGTTAGAAATGAGAGG
1 ACAACTATTACATATCCTTTAGCCAATAATTTAATTAGCACCATGAATACGTTAGAAATGAGAGG
42225 CCAAAAAAAATGGAT
66 CCAAAAAAAATGGAT
*
42240 AAAACT
1 ACAACT
42246 CTACATTGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (80 bp):
ACAACTATTACATATCCTTTAGCCAATAATTTAATTAGCACCATGAATACGTTAGAAATGAGAGG
CCAAAAAAAATGGAT
Found at i:43049 original size:52 final size:52
Alignment explanation
Indices: 42962--43115 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 52
42952 TGGACAAGAA
* *
42962 GACTTGCAAAAGAAGAATTCCAAGAGAA-AAA-GGATTCTTAATAGGT-AAGTTT
1 GACTTGCAAGAGAAGAATTCTAA-A-AAGAAAGGGATTCTTAATA-GTCAAGTTT
*
43014 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTTTTAATAGTCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGTCAAGTTT
* * * * *
43066 GACTTGCAGGAGAAGAATTCTAAGAGGAGAGAGATTCTTAAT-GTGCAAGT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGT-CAAGT
43116 ATATATGGTT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.02
51 8 0.09
52 79 0.89
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGGATTCTTAATAGTCAAGTTT
Found at i:45120 original size:16 final size:17
Alignment explanation
Indices: 45101--45150 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
45091 AATAAAAATT
45101 TTATTATAT-AATAAAC
1 TTATTATATAAATAAAC
* *
45117 TTA-TAAATAAATAAAG
1 TTATTATATAAATAAAC
45133 TTATTATTATATAATAAA
1 TTATTA-TATA-AATAAA
45151 TTAAAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.15
16 12 0.44
17 2 0.07
18 3 0.11
19 6 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TTATTATATAAATAAAC
Found at i:45131 original size:35 final size:35
Alignment explanation
Indices: 45086--45158 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
45076 TTTTTTGTTT
*
45086 AATATAATAAAAATT-TTATTATATAATAAACTTATA
1 AATATAAT-AAAATTATTATTATATAATAAA-TTAAA
*
45122 AATA-AATAAAGTTATTATTATATAATAAATTAAA
1 AATATAATAAAATTATTATTATATAATAAATTAAA
45156 AAT
1 AAT
45159 GATTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 12 0.35
35 18 0.53
36 4 0.12
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (35 bp):
AATATAATAAAATTATTATTATATAATAAATTAAA
Found at i:45148 original size:19 final size:19
Alignment explanation
Indices: 45087--45150 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
45077 TTTTTGTTTA
45087 ATATAATAAAAATT-TTATT
1 ATATAAT-AAAATTATTATT
* *
45106 ATATAATAAACTTA-TA-A
1 ATATAATAAAATTATTATT
*
45123 ATA-AATAAAGTTATTATT
1 ATATAATAAAATTATTATT
45141 ATATAATAAA
1 ATATAATAAA
45151 TTAAAAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 9 0.24
17 5 0.14
18 10 0.27
19 13 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
ATATAATAAAATTATTATT
Found at i:45377 original size:19 final size:20
Alignment explanation
Indices: 45355--45397 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
45345 TTTGACATAA
*
45355 AAATAATTTACTGATTTT-T
1 AAATAATTTACTAATTTTAT
* *
45374 AAATTATTTATTAATTTTAT
1 AAATAATTTACTAATTTTAT
45394 AAAT
1 AAAT
45398 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTAATTTTAT
Found at i:46835 original size:144 final size:144
Alignment explanation
Indices: 46630--47525 Score: 1151
Period size: 144 Copynumber: 6.2 Consensus size: 144
46620 TGGTTTTATC
* *** * * *
46630 CCCT-CTTCCATAGGAAACTTGACCTACTTATCTGTTCTCCACCTCTATCGAAATATGTTTTTTG
1 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTCTATCAAAATATGTTTTCTG
* * *
46694 GGTCGATACCTCAAGAAATAGGGATGCTTAAATCTCTCACTGACTTTGTGTTGGGCCAAAATAAT
66 GGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGTTGAGTCAAAATAAT
46759 TTCTCTGGTTCAAT
131 TTCTCTGGTTCAAT
* * * * *
46773 CCCTGCTTCTATAGGAAACTTGACCAGCTTATCCATTCTCTACCT-TCATCAAAATATGTTTTTT
1 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTCT-ATCAAAATATGTTTTCT
** * * * * * *
46837 GGGGGGATACCTAAAGAGATTGGGATGCTTAAATCTCTCACTAAATTT-TCGTTGAATCAGAATA
65 GGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGT-GTTGAGTCAAAATA
*
46901 ATTTTTCTGGTTCAAT
129 ATTTCTCTGGTTCAAT
* * *
46917 CCCTCCTTCCATAGGAAACTTGACCAACTTATCTC-TTCTCTACCTCTACCAAAATATGTTTTCT
1 CCCTACTTCCATAGGAAACTTGACCAACTTATC-CACTCTCTACCTCTATCAAAATATGTTTTCT
* * * *
46981 GGATCGATACCTCAAGAGATAGGCATGCTTAAATCTCTCATTGACTTTGCGTTGAGTCAAAATAA
65 GGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGTTGAGTCAAAATAA
* *
47046 TTTCTTTGGCTCAAT
130 TTTCTCTGGTTCAAT
* *
47061 CCCTGCTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTTTATCAAAATATGTTTTCTG
1 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTCTATCAAAATATGTTTTCTG
* * *
47126 GGTCTATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAT-TTGAGTGAAAGTAA
66 GGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTG-TGTTGAGTCAAAATAA
*
47190 TTTCTCTGGTCCAAT
130 TTTCTCTGGTTCAAT
* * *
47205 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTTTATCTCTATCAAAATATGTTTTATG
1 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTCTATCAAAATATGTTTTCTG
* *
47270 GGAT-GATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTTTTGAGTGAAAATAA
66 GG-TCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGTTGAGTCAAAATAA
*
47334 TTTCTCTGGTCCAAT
130 TTTCTCTGGTTCAAT
* *
47349 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTTTATCTCTATCAAAATATGTTTTCTG
1 CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTCTATCAAAATATGTTTTCTG
* ** **
47414 GGAT-GATACCTCAAGAGATAGGGATGCTTAAATTTCTCACTTCCTTTGACTTGAGTCAAAAT-A
66 GG-TCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGTTGAGTCAAAATAA
47477 TATTCTCTGGTTCAAT
130 T-TTCTCTGGTTCAAT
* * * * *
47493 CCCTCCTTCAATCGGAAACATGACAAAGCTTAT
1 CCCTACTTCCATAGGAAACTTGACCAA-CTTAT
47526 GGCGTTAAAA
Statistics
Matches: 668, Mismatches: 73, Indels: 22
0.88 0.10 0.03
Matches are distributed among these distances:
143 10 0.01
144 650 0.97
145 8 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (144 bp):
CCCTACTTCCATAGGAAACTTGACCAACTTATCCACTCTCTACCTCTATCAAAATATGTTTTCTG
GGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGTTGAGTCAAAATAAT
TTCTCTGGTTCAAT
Found at i:53102 original size:19 final size:19
Alignment explanation
Indices: 53078--53116 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53068 AACGGTGAAA
53078 AGCACATCCCCAGTGTTCT
1 AGCACATCCCCAGTGTTCT
53097 AGCACATCCCCAGTGTTCT
1 AGCACATCCCCAGTGTTCT
53116 A
1 A
53117 ACTCTGCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (19 bp):
AGCACATCCCCAGTGTTCT
Found at i:54435 original size:60 final size:55
Alignment explanation
Indices: 54275--54470 Score: 267
Period size: 60 Copynumber: 3.5 Consensus size: 55
54265 TTTGTTACAA
*
54275 GAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTAG-AAACTTA-TTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTGAAAACTTATTTTTAAG
*
54328 GAAAATT--TACTTTCAACTTTTCCCCAAATATTTTTTG-AAACTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTGAAAACTTATTTTTAAG
*
54380 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAAACTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCC-C-AAAATA--TTTTTTG-AAAACTTATTTTTAAG
*
54440 GAAAATTGATACTTTCAATTTTTCCTCAAAA
1 GAAAATTGATACTTTCAACTTTTCC-CAAAA
54471 ATATATATTT
Statistics
Matches: 129, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
51 35 0.27
52 14 0.11
53 7 0.05
54 16 0.12
55 1 0.01
56 5 0.04
58 7 0.05
59 4 0.03
60 40 0.31
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (55 bp):
GAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTGAAAACTTATTTTTAAG
Found at i:54507 original size:5 final size:5
Alignment explanation
Indices: 54499--54566 Score: 68
Period size: 5 Copynumber: 12.8 Consensus size: 5
54489 TTATTTAAAG
54499 AAAAT AAAAT -AAAT AAAAT AAAAT AAAAATT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA-T -AAAAT -AAAAT AAA-AT
54547 AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAA
54567 AGTATTAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
4 5 0.09
5 29 0.53
6 16 0.29
7 5 0.09
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:54540 original size:6 final size:6
Alignment explanation
Indices: 54499--54567 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
54489 TTATTTAAAG
* * *
54499 AAAAT- AAAATA AATAAAA TAAAATA AAAATTG AAAATA AAAAT- -AAAGA
1 AAAATA AAAATA AA-AATA -AAAATA AAAA-TA AAAATA AAAATA AAAATA
54547 AAAAT- AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
54568 GTATTAAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
4 3 0.06
5 10 0.20
6 25 0.49
7 11 0.22
8 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:54556 original size:34 final size:32
Alignment explanation
Indices: 54498--54562 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 32
54488 TTTATTTAAA
*
54498 GAAAATAAAATAAATAAAATAAAATAAAAATT
1 GAAAATAAAATAAAAAAAATAAAATAAAAATT
54530 GAAAATAAAAATAAAGAAAAATAAAATAAAAAT
1 GAAAAT-AAAATAAA-AAAAATAAAATAAAAAT
54563 AAAAAGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 6 0.20
33 8 0.27
34 16 0.53
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (32 bp):
GAAAATAAAATAAAAAAAATAAAATAAAAATT
Found at i:54622 original size:20 final size:20
Alignment explanation
Indices: 54587--54626 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
54577 AATTCTAATC
54587 TAATCAATAAATAATAATAA
1 TAATCAATAAATAATAATAA
54607 TAAT-AATAAATAAATAATAA
1 TAATCAATAAAT-AATAATAA
54627 AAAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATCAATAAATAATAATAA
Found at i:55463 original size:17 final size:18
Alignment explanation
Indices: 55443--55608 Score: 115
Period size: 17 Copynumber: 9.7 Consensus size: 18
55433 ATTAAAAGAA
*
55443 AATAATTAGATAAATAA-
1 AATAAATAGATAAATAAT
55460 AATATTAATAGATAAATAAT
1 AATA--AATAGATAAATAAT
*
55480 AAT-AATAGGTAAATAAT
1 AATAAATAGATAAATAAT
55497 ATATAAATAGATAAATAAT
1 A-ATAAATAGATAAATAAT
* *
55516 AATAAATACATACAT-AT
1 AATAAATAGATAAATAAT
* * *
55533 ACT-AACAGATAAATAAC
1 AATAAATAGATAAATAAT
*
55550 AA-AAATAAATAAAT-A-
1 AATAAATAGATAAATAAT
*
55565 AAT--ATAGAT--ATATT
1 AATAAATAGATAAATAAT
55579 AATAAATAG-T-AATAAT
1 AATAAATAGATAAATAAT
*
55595 AAATAAATACATAA
1 -AATAAATAGATAA
55609 GATACAAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
12 2 0.02
14 8 0.07
15 3 0.03
16 17 0.15
17 41 0.35
18 15 0.13
19 27 0.23
20 3 0.03
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.29
Consensus pattern (18 bp):
AATAAATAGATAAATAAT
Found at i:55473 original size:19 final size:19
Alignment explanation
Indices: 55412--55519 Score: 85
Period size: 19 Copynumber: 5.5 Consensus size: 19
55402 AAATCAAATC
*
55412 AAATAAAAATGTTAATAGAT
1 AAAT-AAAATATTAATAGAT
* * *
55432 AATTAAAAGAAAATAATTAGAT
1 AAAT-AAA-ATATTAA-TAGAT
55454 AAATAAAATATTAATAGAT
1 AAATAAAATATTAATAGAT
* *
55473 AAAT--AATAATAATAGGT
1 AAATAAAATATTAATAGAT
* *
55490 AAATAATATATAAATAGAT
1 AAATAAAATATTAATAGAT
55509 AAATAATAATA
1 AAATAA-AATA
55520 AATACATACA
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
17 15 0.22
19 24 0.35
20 15 0.22
21 7 0.10
22 8 0.12
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAATAAAATATTAATAGAT
Found at i:55478 original size:4 final size:4
Alignment explanation
Indices: 55442--55667 Score: 82
Period size: 4 Copynumber: 56.8 Consensus size: 4
55432 AATTAAAAGA
* * * * *
55442 AAAT AATT AGAT AAAT AAA- ATAT TAAT AGAT AAAT -AAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
** * * * *
55486 AGGT AAAT -AAT ATAT AAAT AGAT AAAT -AAT -AAT AAAT ACAT ACAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
55531 ATACT -AAC AGAT AAAT AACAA AAAT AAAT AAAT AAAT ATAGAT ATAT
1 A-AAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-A-AT AAAT
* *
55578 TAAT AAAT AGTAAT -AAT AAAT AAAT ACAT AAGAT ACAA- AAA- AATAT
1 AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT AA-AT
*
55624 AAAT AAAT AAAT AAA- AATAT AAAAT ACAA- AAAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AA-AT -AAAT A-AAT AAAT AAAT AAAT AAA
55668 ATGGGCCTAC
Statistics
Matches: 165, Mismatches: 36, Indels: 42
0.68 0.15 0.17
Matches are distributed among these distances:
3 32 0.19
4 109 0.66
5 15 0.09
6 9 0.05
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:55482 original size:14 final size:13
Alignment explanation
Indices: 55459--55600 Score: 60
Period size: 14 Copynumber: 10.5 Consensus size: 13
55449 TAGATAAATA
*
55459 AAATATTAATAGAT
1 AAATAATAATA-AT
55473 AAATAATAATAAT
1 AAATAATAATAAT
**
55486 AGGTAAATAATATAT
1 AAAT-AATAATA-AT
55501 AAATAGAT-A-AAT
1 AAATA-ATAATAAT
55513 -AATAATAAATACAT
1 AAATAAT-AATA-AT
* *
55527 ACATATACTAACAGAT
1 A-A-ATAATAATA-AT
* *
55543 AAATAACAAAAAT
1 AAATAATAATAAT
55556 AAATAAATAA-ATAT
1 AAAT-AATAATA-AT
* *
55570 AGAT-ATATTAAT
1 AAATAATAATAAT
*
55582 AAATAGTAATAAT
1 AAATAATAATAAT
55595 AAATAA
1 AAATAA
55601 ATACATAAGA
Statistics
Matches: 96, Mismatches: 18, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
10 2 0.02
11 4 0.04
12 11 0.11
13 25 0.26
14 36 0.38
15 7 0.07
16 7 0.07
17 4 0.04
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:55494 original size:36 final size:37
Alignment explanation
Indices: 55443--55520 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
55433 ATTAAAAGAA
*
55443 AATAATTAGATAAATAAAATATTAATAGATAAATAAT
1 AATAATTAGATAAATAAAATATAAATAGATAAATAAT
* *
55480 AATAA-TAGGTAAATAATATATAAATAGATAAATAAT
1 AATAATTAGATAAATAAAATATAAATAGATAAATAAT
55516 AATAA
1 AATAA
55521 ATACATACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (37 bp):
AATAATTAGATAAATAAAATATAAATAGATAAATAAT
Found at i:55625 original size:25 final size:23
Alignment explanation
Indices: 55597--55663 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
55587 GTAATAATAA
55597 ATAAATACATAAGATACAAAAAAAT
1 ATAAATACATAA-ATA-AAAAAAAT
* *
55622 ATAAATAAATAAAT-AAAAATAT
1 ATAAATACATAAATAAAAAAAAT
*
55644 A-AAATACAAAAATAAAAAAA
1 ATAAATACATAAATAAAAAAA
55664 TAAAATGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.28
22 13 0.36
24 2 0.06
25 11 0.31
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (23 bp):
ATAAATACATAAATAAAAAAAAT
Found at i:55647 original size:29 final size:30
Alignment explanation
Indices: 55593--55668 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
55583 AATAGTAATA
* * *
55593 ATAAATAAATACAT-AAGATACAAAAAAAT
1 ATAAATAAATAAATAAAAATACAAAAAAAC
* *
55622 ATAAATAAATAAATAAAAATA-TAAAATAC
1 ATAAATAAATAAATAAAAATACAAAAAAAC
* *
55651 AAAAATAAAAAAATAAAA
1 ATAAATAAATAAATAAAA
55669 TGGGCCTACC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 34 0.87
30 5 0.13
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (30 bp):
ATAAATAAATAAATAAAAATACAAAAAAAC
Found at i:55649 original size:46 final size:43
Alignment explanation
Indices: 55574--55663 Score: 101
Period size: 46 Copynumber: 2.0 Consensus size: 43
55564 AAATATAGAT
* * *
55574 ATATTAATAAATAGTAATAATAAATAAATACATAAGATACAAAAAA
1 ATATAAATAAATAG-AATAAAAAATAAATACA-AAAATA-AAAAAA
55620 ATATAAATAAATA-AATAAAAATATAAAATACAAAAATAAAAAAA
1 ATATAAATAAATAGAATAAAAA-AT-AAATACAAAAATAAAAAAA
55664 TAAAATGGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
44 13 0.33
45 7 0.18
46 19 0.49
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.23
Consensus pattern (43 bp):
ATATAAATAAATAGAATAAAAAATAAATACAAAAATAAAAAAA
Found at i:55665 original size:37 final size:37
Alignment explanation
Indices: 55592--55667 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
55582 AAATAGTAAT
* * *
55592 AATAAATAAATACATAAGATACAAAAAAATATAAATA
1 AATAAATAAAAACATAAAATACAAAAAAATAAAAATA
*
55629 AATAAATAAAAATATAAAATACAAAAATAA-AAAAATA
1 AATAAATAAAAACATAAAATACAAAAA-AATAAAAATA
55666 AA
1 AA
55668 ATGGGCCTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (37 bp):
AATAAATAAAAACATAAAATACAAAAAAATAAAAATA
Found at i:55668 original size:21 final size:21
Alignment explanation
Indices: 55541--55669 Score: 86
Period size: 21 Copynumber: 5.9 Consensus size: 21
55531 ATACTAACAG
55541 ATAAATAACAAAAAT-AAATAA
1 ATAAATAA-AAAAATAAAATAA
* * * *
55562 ATAAATATAGATATATTAATAA
1 ATAAATAAAAAAATA-AAATAA
* *
55584 ATAGTAAT-AATAAAT-AAATAC
1 ATA--AATAAAAAAATAAAATAA
55605 ATAAGATACAAAAAAATATAAATAA
1 ATAA-AT--AAAAAAATA-AAATAA
*
55630 ATAAATAAAAATATAAAATACA
1 ATAAATAAAAAAATAAAATA-A
55652 A-AAATAAAAAAATAAAAT
1 ATAAATAAAAAAATAAAAT
55670 GGGCCTACCC
Statistics
Matches: 84, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
19 1 0.01
20 6 0.07
21 35 0.42
22 18 0.21
23 10 0.12
24 5 0.06
25 9 0.11
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (21 bp):
ATAAATAAAAAAATAAAATAA
Found at i:55827 original size:9 final size:9
Alignment explanation
Indices: 55813--55838 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55803 TCGACCCTTT
55813 TTTTTTTCA
1 TTTTTTTCA
55822 TTTTTTTCA
1 TTTTTTTCA
55831 TTTTTTTC
1 TTTTTTTC
55839 GTTAAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:55917 original size:45 final size:45
Alignment explanation
Indices: 55853--56106 Score: 288
Period size: 45 Copynumber: 5.7 Consensus size: 45
55843 AAATTCTGAT
* * *
55853 CAAAGCTCTTCTAAGCAGAGGCTTAATGACTTTGAAAAACATATA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAACATATA
*
55898 CAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATA-A
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAACATATA
* ** * *
55942 GCAAAGCTTCTCTAATCAGAGGCTCAAAAACTTTGAAAAATAAATA
1 -CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAACATATA
*
55988 -AAA-CTCCTCTAAACAGAGGCTCAATGACTTTGAAAATA-A-AT-
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAA-ACATATA
* * * *
56029 -AAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAATAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAA-ACATATA
* *
56074 CAAAGCTTCTCTAATCAGAGGCTCAACGACTTT
1 CAAAGCTCCTCTAATCAGAGGCTCAATGACTTT
56107 TAGAAAGTAA
Statistics
Matches: 183, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
41 3 0.02
42 34 0.19
43 31 0.17
44 6 0.03
45 78 0.43
46 31 0.17
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (45 bp):
CAAAGCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAACATATA
Found at i:56017 original size:88 final size:86
Alignment explanation
Indices: 55853--56175 Score: 310
Period size: 88 Copynumber: 3.8 Consensus size: 86
55843 AAATTCTGAT
* * * ** *
55853 CAAAGCTCTTCTAAGCAGAGGCTTAATGACTTTGAAAA-ACATATACAAAGCTCCTCTAAGCAGA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATA-A-ATACAAAGCTCCTCTAAACAGA
55917 GGCTCAATGACTTTGAAAAACATAA
64 GGCTCAATGACTTTG-AAAA-ATAA
* *
55942 GCAAAGCTTCTCTAATCAGAGGCTCAAAAACTTTGAAAAATAAATA-AAA-CTCCTCTAAACAGA
1 -CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAATAAATACAAAGCTCCTCTAAACAGA
56005 GGCTCAATGACTTTG-AAAATAAA
64 GGCTCAATGACTTTGAAAAAT-AA
* * * * *
56028 TAAAGCTCCTCTAATAAGAGGCTCAACGACTTTGAAAATAAATAAACAAAGCTTCTCTAATCAGA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAAT--ACAAAGCTCCTCTAAACAGA
* * *
56093 GGCTCAACGACTTTTAGAAAGTAA
64 GGCTCAATGACTTTGA-AAAATAA
*
56117 -ATAGCTCCTCTAAT-AGAGGCATC-ACAACTTTGAAAATAAAT-----GCTCCTCTAAACAGAG
1 CAAAGCTCCTCTAATCAGAGGC-TCAACAACTTTGAAAATAAATACAAAGCTCCTCTAAACAGAG
56174 GC
65 GC
56176 ATCACAACTT
Statistics
Matches: 202, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
80 16 0.08
84 9 0.04
85 31 0.15
86 6 0.03
87 26 0.13
88 68 0.34
89 5 0.02
90 35 0.17
91 5 0.02
92 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (86 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAATACAAAGCTCCTCTAAACAGAGG
CTCAATGACTTTGAAAAATAA
Found at i:56037 original size:42 final size:42
Alignment explanation
Indices: 55854--56175 Score: 268
Period size: 45 Copynumber: 7.5 Consensus size: 42
55844 AATTCTGATC
* * *
55854 AAAGCTCTTCTAAGCAGAGGCTTAATGACTTTGAAAA-ACATAT
1 AAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAATA-A-AT
* **
55897 ACAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAAAAACATAAGC
1 --AAAGCTCCTCTAAACAGAGGCTCAATGACTTTG--AAA-ATAAAT
* * **
55944 AAAGCTTCTCTAATCAGAGGCTCAAAAACTTTGAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAATGACTTTG-AAAATAAAT
*
55987 AAAACTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAAT
*
56029 AAAGCTCCTCTAATA-AGAGGCTCAACGACTTTGAAAATAAAT
1 AAAGCTCCTCTAA-ACAGAGGCTCAATGACTTTGAAAATAAAT
* * * *
56071 AAACAAAGCTTCTCTAATCAGAGGCTCAACGACTTTTAGAAAGTAAAT
1 ----AAAGCTCCTCTAAACAGAGGCTCAATGAC-TTT-GAAAATAAAT
*
56119 --AGCTCCTCT-AATAGAGGCATCACA--ACTTTGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGC-TCA-ATGACTTTGAAAATAAAT
56158 ---GCTCCTCTAAACAGAGGC
1 AAAGCTCCTCTAAACAGAGGC
56176 ATCACAACTT
Statistics
Matches: 237, Mismatches: 25, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
38 8 0.03
39 17 0.07
40 3 0.01
41 9 0.04
42 58 0.24
43 34 0.14
44 4 0.02
45 60 0.25
46 26 0.11
47 6 0.03
48 11 0.05
49 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.24
Consensus pattern (42 bp):
AAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAATAAAT
Found at i:56147 original size:41 final size:40
Alignment explanation
Indices: 56016--56185 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 40
56006 GCTCAATGAC
*
56016 TTTGAAAATAAATAAAGCTCCTCTAATAAGAGGC-TCAACGAC-
1 TTTGAAAATAAAT--AGCTCCTCTAAT-AGAGGCATC-ACAACT
* *
56058 TTTGAAAATAAATAAACAAAGCTTCTCTAATCAGAGGC-TCAACGACT
1 TTTGAAAATAAAT------AGCTCCTCTAAT-AGAGGCATC-ACAACT
*
56105 TTTAGAAAGTAAATAGCTCCTCTAATAGAGGCATCACAAC-
1 TTT-GAAAATAAATAGCTCCTCTAATAGAGGCATCACAACT
*
56145 TTTGAAAATAAAT-GCTCCTCTAAACAGAGGCATCACAACT
1 TTTGAAAATAAATAGCTCCTCT-AATAGAGGCATCACAACT
56185 T
1 T
56186 CAAAAAATAG
Statistics
Matches: 112, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
38 8 0.07
39 25 0.22
40 4 0.04
41 10 0.09
42 26 0.23
46 27 0.24
47 3 0.03
48 9 0.08
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (40 bp):
TTTGAAAATAAATAGCTCCTCTAATAGAGGCATCACAACT
Found at i:56174 original size:39 final size:41
Alignment explanation
Indices: 55946--56194 Score: 144
Period size: 42 Copynumber: 5.9 Consensus size: 41
55936 ACATAAGCAA
* * *
55946 AGCTTCTCTAATCAGAGGC-TCAAAAACTTT-GAAAAATAAAT
1 AGCTCCTCTAAACAGAGGCATC-ACAACTTTAG-AAAATAAAT
*
55987 AAAACTCCTCTAAACAGAGGC-TCA-ATGACTTT-GAAAATAAAT
1 --AGCTCCTCTAAACAGAGGCATCACA--ACTTTAGAAAATAAAT
*
56029 AAAGCTCCTCTAATA-AGAGGC-TCAACGACTTT-GAAAATAAAT
1 --AGCTCCTCTAA-ACAGAGGCATC-ACAACTTTAGAAAATAAAT
* * * *
56071 AAACAAAGCTTCTCTAATCAGAGGC-TCAACGACTTTTAGAAAGTAAAT
1 ------AGCTCCTCTAAACAGAGGCATC-ACAAC-TTTAGAAAATAAAT
*
56119 AGCTCCTCT-AATAGAGGCATCACAACTTT-GAAAATAAAT
1 AGCTCCTCTAAACAGAGGCATCACAACTTTAGAAAATAAAT
* *
56158 -GCTCCTCTAAACAGAGGCATCACAACTTCAAAAAATA
1 AGCTCCTCTAAACAGAGGCATCACAACTTTAGAAAATA
56195 GATTGCCCCT
Statistics
Matches: 175, Mismatches: 16, Indels: 33
0.78 0.07 0.15
Matches are distributed among these distances:
38 8 0.05
39 27 0.15
40 9 0.05
41 12 0.07
42 55 0.31
43 26 0.15
46 26 0.15
47 3 0.02
48 9 0.05
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (41 bp):
AGCTCCTCTAAACAGAGGCATCACAACTTTAGAAAATAAAT
Found at i:57468 original size:59 final size:59
Alignment explanation
Indices: 57405--57792 Score: 518
Period size: 59 Copynumber: 6.6 Consensus size: 59
57395 TCTTGTGCAG
* *
57405 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAA
*
57464 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAA
* ** *
57523 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTT-GAAAATTT-ATTCTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTTTGATT-TTCAA
* * *
57581 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
* * * *
57641 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAATTTTGATTTTCAA
* *
57700 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTGGAAATTTTGATTTTCAA
*
57760 GGAAAATTGATACCTTT-AACTTTTCCTCAAAAA
1 GGAAAATTGATA-CTTTCAACTTTTCCCCAAAAA
57793 CCCCTTTTTT
Statistics
Matches: 288, Mismatches: 29, Indels: 23
0.85 0.09 0.07
Matches are distributed among these distances:
57 1 0.00
58 43 0.15
59 153 0.53
60 86 0.30
61 4 0.01
62 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAA
Found at i:57563 original size:118 final size:116
Alignment explanation
Indices: 57405--57817 Score: 605
Period size: 118 Copynumber: 3.5 Consensus size: 116
57395 TCTTGTGCAG
* *** * *
57405 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTTTCGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTGGAAAATTT-ATTTT-AAGGAAAA
57470 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAA
64 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAA
*
57523 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTCTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTGGAAAATTTATT-TTAAGGAAAAT
* *
57588 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTTTATTTTCAA
65 TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
* * *
57641 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACC-CTTTTTGGAAAATTTA-TTTTAAGGAAAA
57706 TTGATACTTTCAACTTTTCCCTAAAAATATATTTTTGGAAATTTTGATTTTCAA
64 TTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTGGAAATTTTGATTTTCAA
*
57760 GGAAAATTGATACCTTT-AACTTTTCCTCAAAAACCCCTTTTTTGG-AATTTTATTTTAA
1 GGAAAATTGATA-CTTTCAACTTTTCCTCAAAAA-CCC-TTTTTGGAAAATTTATTTTAA
57818 AAGGAAAAAA
Statistics
Matches: 271, Mismatches: 16, Indels: 16
0.89 0.05 0.05
Matches are distributed among these distances:
117 39 0.14
118 110 0.41
119 108 0.40
120 14 0.05
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTGGAAAATTTATTTTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAA
Found at i:57722 original size:119 final size:119
Alignment explanation
Indices: 57405--57825 Score: 636
Period size: 119 Copynumber: 3.5 Consensus size: 119
57395 TCTTGTGCAG
* * * **
57405 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAACTTTGATTTTCGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTT-GAAAATTT-ATTTTTAAGGAA
57468 AATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
64 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
*
57523 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACC-CTTTTTTGAAAATTTATTCTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTAAGGAAAA
* *
57587 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTTTATTTTCAA
66 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
* *
57641 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTAAGGAAAA
*
57706 TTGATACTTTCAACTTTTCCCTAAAAATATATTTTTGGAAATTTTGATTTTCAA
66 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
* * * *
57760 GGAAAATTGATACCTTT-AACTTTTCCTCAAAAACCCCTTTTTTGGAATTTTATTTTAAAAGGAA
1 GGAAAATTGATA-CTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTT-TAAGGAA
57824 AA
64 AA
57826 AAATAAAACA
Statistics
Matches: 277, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
117 40 0.14
118 96 0.35
119 130 0.47
120 11 0.04
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTCTTTTTTGAAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAA
Found at i:57855 original size:30 final size:31
Alignment explanation
Indices: 57816--57873 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
57806 ATTTTATTTT
57816 AAAAGGAAAAAAATAAAACAAAATAAAAGTG
1 AAAAGGAAAAAAATAAAACAAAATAAAAGTG
*
57847 AAAA-GAAAAAAATAAAATAAAATAAAA
1 AAAAGGAAAAAAATAAAACAAAATAAAA
57874 TAAATAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.10
Consensus pattern (31 bp):
AAAAGGAAAAAAATAAAACAAAATAAAAGTG
Found at i:57874 original size:35 final size:37
Alignment explanation
Indices: 57825--57913 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
57815 TAAAAGGAAA
* *
57825 AAAATAAAACAAAAT-A-AAAGTGAAA-AGAAAAAAAT
1 AAAATAAAATAAAATAATAAAG-GAAAGACAAAAAAAT
57860 AAAATAAAATAAAATAAATAAAGGAAAGTACAAAAAAAT
1 AAAATAAAATAAAAT-AATAAAGGAAAG-ACAAAAAAAT
57899 AAAATAAAGATAAAA
1 AAAATAAA-ATAAAA
57914 AGAATATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
35 14 0.30
37 5 0.11
38 4 0.09
39 17 0.37
40 6 0.13
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.13
Consensus pattern (37 bp):
AAAATAAAATAAAATAATAAAGGAAAGACAAAAAAAT
Found at i:57911 original size:6 final size:5
Alignment explanation
Indices: 57825--57961 Score: 70
Period size: 5 Copynumber: 26.6 Consensus size: 5
57815 TAAAAGGAAA
* *
57825 AAAAT AAAAC AAAAT AAAAGT GAAAA- GAAA- AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
** *
57875 -AAAT AAAGG AAAGT ACAAA- AAAAT AAAAT AAAGAT AAAA- AGAATAT
1 AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAA-AT AAAAT A-AA-AT
* * *
57921 TAAAT AAACCT AATCTAAT -AAAT AAAAA AAAAT AAAAT AAA
1 AAAAT AAA-AT AA---AAT AAAAT AAAAT AAAAT AAAAT AAA
57962 CAAATAAATA
Statistics
Matches: 103, Mismatches: 14, Indels: 30
0.70 0.10 0.20
Matches are distributed among these distances:
4 17 0.17
5 65 0.63
6 14 0.14
7 5 0.05
8 1 0.01
9 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:57970 original size:4 final size:4
Alignment explanation
Indices: 57937--57990 Score: 67
Period size: 4 Copynumber: 13.8 Consensus size: 4
57927 AACCTAATCT
* *
57937 AATA AATA AA-A AA-A AATAA AATA AACA AATA AATA AACA AATA AATA
1 AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA
57984 AATA AAT
1 AATA AAT
57991 TCAAAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 6 0.14
4 34 0.77
5 4 0.09
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:58995 original size:6 final size:6
Alignment explanation
Indices: 58984--59104 Score: 78
Period size: 6 Copynumber: 20.7 Consensus size: 6
58974 GTAAATAGCT
* * *
58984 AAAATA AAAATA AAAGA-A AAAA-A TATATA ACATAATA ATAATA AAAAT-
1 AAAATA AAAATA AAA-ATA AAAATA AAAATA A-A-AATA AAAATA AAAATA
** *
59032 AAAATA AAAAT- AGGATA AAAATA AAAAT- AAGAT- AAAAT- AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
59075 AAAATAA AAAATAA AAAATG AAAATA AAAA
1 AAAAT-A AAAAT-A AAAATA AAAATA AAAA
59105 AAATAGCATA
Statistics
Matches: 93, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
5 30 0.32
6 45 0.48
7 14 0.15
8 4 0.04
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:58998 original size:5 final size:5
Alignment explanation
Indices: 58983--59109 Score: 84
Period size: 5 Copynumber: 24.4 Consensus size: 5
58973 AGTAAATAGC
* *
58983 TAAAA TAAAAA TAAAA GAAAA -AAATA TATAACA TAATAA TAATA -AAAA
1 TAAAA T-AAAA TAAAA TAAAA TAAA-A TA-AA-A TAA-AA TAAAA TAAAA
** *
59031 TAAAA TAAAAA TAGGA TAAAAA TAAAAA TAAGA TAAAA TAAAA TAAAA
1 TAAAA T-AAAA TAAAA T-AAAA T-AAAA TAAAA TAAAA TAAAA TAAAA
59079 TAAAA -AATAA -AAAA TGAAAA TAAAA -AAAA TA
1 TAAAA TAA-AA TAAAA T-AAAA TAAAA TAAAA TA
59110 GCATAGACTT
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
4 14 0.14
5 50 0.50
6 30 0.30
7 6 0.06
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:59004 original size:17 final size:16
Alignment explanation
Indices: 58984--59109 Score: 78
Period size: 17 Copynumber: 7.8 Consensus size: 16
58974 GTAAATAGCT
*
58984 AAAATAAAAATAAAAG
1 AAAATAAAAATAAAAA
* * *
59000 AAAA-AAATATATAAC
1 AAAATAAAAATAAAAA
* *
59015 ATAATAATAATAAAAA
1 AAAATAAAAATAAAAA
* *
59031 TAAAATAAAAATAGGATA
1 -AAAATAAAAATA-AAAA
* *
59049 AAAATAAAAATAAGAT
1 AAAATAAAAATAAAAA
59065 AAAAT-AAAATAAAATAA
1 AAAATAAAAAT-AAA-AA
*
59082 AAAATAAAAAATGAAAA
1 AAAAT-AAAAATAAAAA
*
59099 TAAA-AAAAATA
1 AAAATAAAAATA
59110 GCATAGACTT
Statistics
Matches: 82, Mismatches: 21, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
15 22 0.27
16 18 0.22
17 33 0.40
18 4 0.05
19 5 0.06
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAA
Found at i:59052 original size:48 final size:48
Alignment explanation
Indices: 58983--59104 Score: 119
Period size: 48 Copynumber: 2.6 Consensus size: 48
58973 AGTAAATAGC
* *
58983 TAAAATAAAAATAAAAGAAAAA-AATATATAACATAATAATAATA-AAAA
1 TAAAATAAAAATAAAAGAAAAATAA-AAATAACATAA-AATAAAATAAAA
** * *
59031 TAAAATAAAAATAGGATAAAAATAAAAATAAGATAAAATAAAATAAAA
1 TAAAATAAAAATAAAAGAAAAATAAAAATAACATAAAATAAAATAAAA
*
59079 TAAAA-AATAAA-AAATG-AAAATAAAAA
1 TAAAATAA-AAATAAAAGAAAAATAAAAA
59105 AAATAGCATA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
46 10 0.16
47 9 0.15
48 40 0.66
49 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (48 bp):
TAAAATAAAAATAAAAGAAAAATAAAAATAACATAAAATAAAATAAAA
Found at i:59061 original size:37 final size:37
Alignment explanation
Indices: 58986--59109 Score: 115
Period size: 37 Copynumber: 3.3 Consensus size: 37
58976 AAATAGCTAA
* * * *
58986 AATAAAAATAAAAGAAAAAAATATATAACATAATAAT
1 AATAAAAATAAAATAAAAAAAGATATAAAATAAAAAT
*
59023 AATAAAAATAAAATAAAAATAGGATA-AAAATAAAAAT
1 AATAAAAATAAAATAAAAA-AAGATATAAAATAAAAAT
* * * *
59060 AAGATAAAATAAAATAAAATAAAAAATAAAAAATGAAAAT
1 AATA-AAAATAAAAT-AAA-AAAAGATATAAAATAAAAAT
*
59100 AAAAAAAATA
1 AATAAAAATA
59110 GCATAGACTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
37 30 0.42
38 14 0.19
39 13 0.18
40 15 0.21
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.19
Consensus pattern (37 bp):
AATAAAAATAAAATAAAAAAAGATATAAAATAAAAAT
Found at i:59470 original size:23 final size:22
Alignment explanation
Indices: 59443--59502 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 22
59433 TCATTCATTT
59443 TTTTTTCATTTTTCCTTTTTTTCA
1 TTTTTTC-TTTTTCC-TTTTTTCA
*
59467 TTTTTTTCTTTTTTCTTTTTTCA
1 -TTTTTTCTTTTTCCTTTTTTCA
59490 TTTTTTTCTTTTT
1 -TTTTTTCTTTTT
59503 TTCATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 21 0.62
24 6 0.18
25 7 0.21
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTTCCTTTTTTCA
Found at i:59473 original size:40 final size:40
Alignment explanation
Indices: 59429--59523 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
59419 TAAGTCCTCC
59429 TTTTTCATTCATTT-TTTTTTCA-TTTTTCCTTTTTTTCATT
1 TTTTTC-TT-ATTTCTTTTTTCATTTTTTCCTTTTTTTCATT
* *
59469 TTTTTCTTTTTTCTTTTTTCATTTTTTTCTTTTTTTCATT
1 TTTTTCTTATTTCTTTTTTCATTTTTTCCTTTTTTTCATT
59509 TTTTTCTT-TTT-TTTT
1 TTTTTCTTATTTCTTTT
59524 CAAGCATAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
38 7 0.14
39 13 0.25
40 31 0.61
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (40 bp):
TTTTTCTTATTTCTTTTTTCATTTTTTCCTTTTTTTCATT
Found at i:59521 original size:17 final size:17
Alignment explanation
Indices: 59436--59521 Score: 108
Period size: 17 Copynumber: 5.1 Consensus size: 17
59426 TCCTTTTTCA
59436 TTCATTTTTTT-TTCATTT
1 TTCATTTTTTTCTT--TTT
*
59454 TTCCTTTTTTTCATTTTT
1 TTCATTTTTTTC-TTTTT
59472 TTC--TTTTTTC-TTTT
1 TTCATTTTTTTCTTTTT
59486 TTCATTTTTTTCTTTTT
1 TTCATTTTTTTCTTTTT
59503 TTCATTTTTTTCTTTTT
1 TTCATTTTTTTCTTTTT
59520 TT
1 TT
59522 TTCAAGCATA
Statistics
Matches: 62, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
14 7 0.11
16 14 0.23
17 23 0.37
18 16 0.26
20 2 0.03
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCATTTTTTTCTTTTT
Found at i:59522 original size:9 final size:8
Alignment explanation
Indices: 59442--59521 Score: 101
Period size: 8 Copynumber: 9.9 Consensus size: 8
59432 TTCATTCATT
59442 TTTTTTTC
1 TTTTTTTC
* *
59450 ATTTTTCC
1 TTTTTTTC
59458 TTTTTTTC
1 TTTTTTTC
59466 ATTTTTTTC
1 -TTTTTTTC
59475 -TTTTTTC
1 TTTTTTTC
59482 -TTTTTTC
1 TTTTTTTC
59489 ATTTTTTTC
1 -TTTTTTTC
59498 TTTTTTTC
1 TTTTTTTC
59506 ATTTTTTTC
1 -TTTTTTTC
59515 TTTTTTT
1 TTTTTTT
59522 TTCAAGCATA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
7 14 0.22
8 27 0.42
9 23 0.36
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:67019 original size:56 final size:57
Alignment explanation
Indices: 66947--67061 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
66937 TGTTACAAGG
*
66947 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTGAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAGA
* *
67003 AAAATTTATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAGA
67060 AA
1 AA
67062 CTTATTTTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 24 0.44
57 31 0.56
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.46
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTTTAAGA
Found at i:67056 original size:14 final size:15
Alignment explanation
Indices: 67034--67076 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
67024 TCCTCAAAAA
*
67034 TATTTTTTAGAAACT
1 TATTTTTAAGAAACT
67049 TATTTTTAAGAAACT
1 TATTTTTAAGAAACT
67064 TATTTTTAAGAAA
1 TATTTTTAAGAAA
67077 AATTGATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (15 bp):
TATTTTTAAGAAACT
Found at i:67094 original size:72 final size:74
Alignment explanation
Indices: 66977--67129 Score: 238
Period size: 72 Copynumber: 2.1 Consensus size: 74
66967 TTCCTCAAAA
** * *
66977 TATTTTTTTGAAACTTATTTTTAAGAAAAATTTATATTTTCAACTTTTCCTCAAAAATA-TTTTT
1 TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT
*
67041 T-AGAAACT
66 TGAAAAACT
67049 TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT
1 TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAC-TTTT
67114 TTGAAAAACT
65 TTGAAAAACT
67124 TATTTT
1 TATTTT
67130 CATGAAAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 55 0.75
74 6 0.08
75 12 0.16
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (74 bp):
TATTTTTAAGAAACTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTT
TGAAAAACT
Done.