Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1241
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: 178731
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:3525 original size:2 final size:2
Alignment explanation
Indices: 3505--3549 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
3495 ATAATTGTTT
* * *
3505 TA TA T- TA TA TA CA TG TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3546 TA TA
1 TA TA
3550 CATGTGTAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7929 original size:21 final size:22
Alignment explanation
Indices: 7894--7934 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7884 TTGAATAACT
*
7894 ATTTAAATATTAAAAAAATTAA
1 ATTTAAATATGAAAAAAATTAA
*
7916 ATTT-AATATGAAAATAATT
1 ATTTAAATATGAAAAAAATT
7935 TTTAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTAAATATGAAAAAAATTAA
Found at i:9740 original size:13 final size:13
Alignment explanation
Indices: 9722--9747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9712 TACACAAAGT
9722 ATGTATCGATACA
1 ATGTATCGATACA
9735 ATGTATCGATACA
1 ATGTATCGATACA
9748 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9745 original size:32 final size:33
Alignment explanation
Indices: 9704--9767 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
9694 TAGCCAAACT
**
9704 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
9736 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
9768 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:15954 original size:13 final size:13
Alignment explanation
Indices: 15936--15974 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
15926 ACATTTTTAT
15936 TTGTATCGATACA
1 TTGTATCGATACA
15949 TTGTATCGATACA
1 TTGTATCGATACA
*
15962 CTGTATCGATACA
1 TTGTATCGATACA
15975 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:18568 original size:13 final size:13
Alignment explanation
Indices: 18550--18575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18540 TACACAAAGT
18550 ATGTATCGATACA
1 ATGTATCGATACA
18563 ATGTATCGATACA
1 ATGTATCGATACA
18576 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18573 original size:32 final size:33
Alignment explanation
Indices: 18532--18595 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
18522 TAGCCAAACT
**
18532 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
18564 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
18596 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:22578 original size:56 final size:56
Alignment explanation
Indices: 22502--22614 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
22492 ATTTGCTTCC
22502 AAGTGATGCTTTGGAATGGGTTTTCCATGACCATCTTGGTTTTCTTTATAAAACCT
1 AAGTGATGCTTTGGAATGGGTTTTCCATGACCATCTTGGTTTTCTTTATAAAACCT
22558 AAGTGATGCTTTGGAATGGGTTTTCCATGACCATCTTGGTTTTCTTTATAAAACCT
1 AAGTGATGCTTTGGAATGGGTTTTCCATGACCATCTTGGTTTTCTTTATAAAACCT
22614 A
1 A
22615 TTTATTTCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (56 bp):
AAGTGATGCTTTGGAATGGGTTTTCCATGACCATCTTGGTTTTCTTTATAAAACCT
Found at i:26418 original size:22 final size:22
Alignment explanation
Indices: 26390--26444 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
26380 TGGACATGTT
26390 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
26412 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
26434 AAAAATGCATG
1 AAAAATGCATG
26445 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:27383 original size:20 final size:20
Alignment explanation
Indices: 27354--27520 Score: 113
Period size: 20 Copynumber: 8.8 Consensus size: 20
27344 TAAAAGACAT
27354 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAG
* *
27374 AATATATCGATACATT-CAT
1 AATGTATCGATACATTGCAG
* * *
27393 ACATGTATCGATATATTGAAA
1 A-ATGTATCGATACATTGCAG
27414 AATGTATCGATACA-T-CAG
1 AATGTATCGATACATTGCAG
* * *
27432 --GGTA---A-A-AATGACAT
1 AATGTATCGATACATTG-CAG
27446 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAG
* *
27466 AATATATCGATACATT-CAT
1 AATGTATCGATACATTGCAG
* * *
27485 ACATGTATCGATATATTGAAA
1 A-ATGTATCGATACATTGCAG
27506 AATGTATCGATACAT
1 AATGTATCGATACAT
27521 CAGGGTAAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
11 1 0.01
12 2 0.02
13 1 0.01
14 2 0.02
16 6 0.05
18 1 0.01
19 8 0.07
20 84 0.75
21 7 0.06
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGCAG
Found at i:27428 original size:32 final size:31
Alignment explanation
Indices: 27391--27520 Score: 74
Period size: 32 Copynumber: 4.2 Consensus size: 31
27381 CGATACATTC
27391 ATACATGTATCGATATATTGAAAAATGTATCG
1 ATACAT-TATCGATATATTGAAAAATGTATCG
* * * * * *
27423 ATACATCA-GGGTAAAAATGACATAATGTATCG
1 ATACATTATCGAT-ATATTGA-AAAATGTATCG
* * * *
27455 ATACATT-GCAGAATATATCGATACA--T-TC-
1 ATACATTATC-G-ATATATTGAAAAATGTATCG
27483 ATACATGTATCGATATATTGAAAAATGTATCG
1 ATACAT-TATCGATATATTGAAAAATGTATCG
27515 ATACAT
1 ATACAT
27521 CAGGGTAAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 22
0.62 0.17 0.20
Matches are distributed among these distances:
28 16 0.24
29 4 0.06
30 5 0.07
31 8 0.12
32 29 0.43
33 5 0.07
34 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (31 bp):
ATACATTATCGATATATTGAAAAATGTATCG
Found at i:27467 original size:92 final size:92
Alignment explanation
Indices: 27323--27533 Score: 390
Period size: 92 Copynumber: 2.3 Consensus size: 92
27313 TACATTATTC
*
27323 AATGTATCGATACATCTA-GGTTAAAA-GACATAATGTATCGATACATTGCAGAATATATCGATA
1 AATGTATCGATACATC-AGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATA
27386 CATTCATACATGTATCGATATATTGAAA
65 CATTCATACATGTATCGATATATTGAAA
27414 AATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATAC
1 AATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATAC
27479 ATTCATACATGTATCGATATATTGAAA
66 ATTCATACATGTATCGATATATTGAAA
27506 AATGTATCGATACATCAGGGTAAAAATG
1 AATGTATCGATACATCAGGGTAAAAATG
27534 TGACTTTTCC
Statistics
Matches: 117, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
90 1 0.01
91 23 0.20
92 93 0.79
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (92 bp):
AATGTATCGATACATCAGGGTAAAAATGACATAATGTATCGATACATTGCAGAATATATCGATAC
ATTCATACATGTATCGATATATTGAAA
Found at i:31405 original size:23 final size:22
Alignment explanation
Indices: 31362--31405 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
31352 GTCTAGCCAT
31362 ATTTTGTAAACATTTAATGAAAG
1 ATTTTGTAAACATTT-ATGAAAG
31385 ATTTTGCTAAACCATTT-TGAA
1 ATTTTG-TAAA-CATTTATGAA
31406 TACGAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.53
24 4 0.21
25 5 0.26
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
ATTTTGTAAACATTTATGAAAG
Found at i:33583 original size:16 final size:16
Alignment explanation
Indices: 33564--33598 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33554 TAAAATTTTC
33564 TTTGTAAAAAATGTGA
1 TTTGTAAAAAATGTGA
* *
33580 TTTGTACAATATGTGA
1 TTTGTAAAAAATGTGA
33596 TTT
1 TTT
33599 TTACTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (16 bp):
TTTGTAAAAAATGTGA
Found at i:33855 original size:39 final size:38
Alignment explanation
Indices: 33787--33882 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
33777 CTGTACCACC
* * *
33787 AGTTTAGAATAGT-ATTTTTTGTTTCAAATCGTG-TCACT
1 AGTTAAGAATAGTGA-TTTTTATTTCAAATCATGCT-ACT
*
33825 AGTTAATAATAGTGATTTTTATTTCAAAATCATGCTACT
1 AGTTAAGAATAGTGATTTTTATTTC-AAATCATGCTACT
*
33864 AGTTGAGAATAGTGATTTT
1 AGTTAAGAATAGTGATTTT
33883 CATTCTGACC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 20 0.41
39 28 0.57
40 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (38 bp):
AGTTAAGAATAGTGATTTTTATTTCAAATCATGCTACT
Found at i:38022 original size:19 final size:19
Alignment explanation
Indices: 37994--38032 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
37984 TTACATAGAC
37994 AGATTCGAATTTATTATGA
1 AGATTCGAATTTATTATGA
*
38013 AGATTTGAATTTATTATGA
1 AGATTCGAATTTATTATGA
38032 A
1 A
38033 AAAGCCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (19 bp):
AGATTCGAATTTATTATGA
Found at i:39049 original size:2 final size:2
Alignment explanation
Indices: 39042--39117 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
39032 AAAATCATGA
39042 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
39084 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
39118 GCATCAACCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:41846 original size:9 final size:9
Alignment explanation
Indices: 41832--41910 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
41822 ATATACATGT
41832 TAACACACC
1 TAACACACC
*
41841 TAACACACT
1 TAACACACC
41850 TAACATTCTCACC
1 TAACA----CACC
41863 TAACACACC
1 TAACACACC
41872 TAACATTCTCACC
1 TAACA----CACC
41885 TAACACATCACC
1 T-A-ACA-CACC
41897 TAACACACC
1 TAACACACC
41906 TAACA
1 TAACA
41911 TTCTCACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
9 31 0.53
10 3 0.05
11 1 0.02
12 6 0.10
13 13 0.22
14 1 0.02
15 3 0.05
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (9 bp):
TAACACACC
Found at i:41865 original size:22 final size:22
Alignment explanation
Indices: 41837--42033 Score: 105
Period size: 22 Copynumber: 8.8 Consensus size: 22
41827 CATGTTAACA
*
41837 CACCTAACACACTTAACATTCT
1 CACCTAACACACCTAACATTCT
41859 CACCTAACACACCTAACATTCT
1 CACCTAACACACCTAACATTCT
41881 CACCTAACACATCACCTAACA----
1 CACCT-A-ACA-CACCTAACATTCT
*
41902 CACCTAACATTCTCACCAAACA--CAT
1 CACCTAACA----CACCTAACATTC-T
41927 CACCTAACACACCTAACATTCT
1 CACCTAACACACCTAACATTCT
*
41949 CACCAAATACATCACCTAACA----
1 CACC-TA-ACA-CACCTAACATTCT
*
41970 CACCTAACATTCTCACC-AA-ATACAT
1 CACCTAACA----CACCTAACATTC-T
41995 CACCTAACACACCTAACATTCT
1 CACCTAACACACCTAACATTCT
* *
42017 CACCAAATACA-CTAACA
1 CACCTAACACACCTAACA
42034 AAGAAATTAA
Statistics
Matches: 143, Mismatches: 8, Indels: 49
0.71 0.04 0.25
Matches are distributed among these distances:
19 6 0.04
20 3 0.02
21 29 0.20
22 57 0.40
23 6 0.04
24 6 0.04
25 36 0.25
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (22 bp):
CACCTAACACACCTAACATTCT
Found at i:41897 original size:12 final size:12
Alignment explanation
Indices: 41880--42005 Score: 69
Period size: 12 Copynumber: 11.0 Consensus size: 12
41870 CCTAACATTC
41880 TCACCTAACACA
1 TCACCTAACACA
41892 TCACCT-A-ACA
1 TCACCTAACACA
41902 -CACCTAACATTC-
1 TCACCTAACA--CA
*
41914 TCACCAAACACA
1 TCACCTAACACA
41926 TCACCT-A-ACA
1 TCACCTAACACA
41936 -CACCTAACATTC-
1 TCACCTAACA--CA
* *
41948 TCACCAAATACA
1 TCACCTAACACA
41960 TCACCT-A-ACA
1 TCACCTAACACA
41970 -CACCTAACATTC-
1 TCACCTAACA--CA
* *
41982 TCACCAAATACA
1 TCACCTAACACA
41994 TCACCTAACACA
1 TCACCTAACACA
42006 CCTAACATTC
Statistics
Matches: 87, Mismatches: 9, Indels: 36
0.66 0.07 0.27
Matches are distributed among these distances:
9 15 0.17
10 12 0.14
11 9 0.10
12 26 0.30
13 25 0.29
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (12 bp):
TCACCTAACACA
Found at i:41999 original size:25 final size:25
Alignment explanation
Indices: 41902--42003 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 25
41892 TCACCTAACA
*
41902 CACCTAACATTCTCACCAAACACAT
1 CACCTAACATTCTCACCAAATACAT
*
41927 CACCTAACA----CACCTAACATTC-T
1 CACCTAACATTCTCACC-AA-ATACAT
* *
41949 CACC-AA-ATACATCACC-TA-ACA-
1 CACCTAACATTC-TCACCAAATACAT
41970 CACCTAACATTCTCACCAAATACAT
1 CACCTAACATTCTCACCAAATACAT
41995 CACCTAACA
1 CACCTAACA
42004 CACCTAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 26
0.64 0.07 0.29
Matches are distributed among these distances:
20 1 0.02
21 11 0.19
22 15 0.26
23 6 0.10
24 3 0.05
25 22 0.38
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (25 bp):
CACCTAACATTCTCACCAAATACAT
Found at i:42024 original size:34 final size:34
Alignment explanation
Indices: 41858--42027 Score: 313
Period size: 34 Copynumber: 5.0 Consensus size: 34
41848 CTTAACATTC
* *
41858 TCACCTAACACACCTAACATTCTCACCTAACACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
*
41892 TCACCTAACACACCTAACATTCTCACCAAACACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
41926 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
41960 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
41994 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
42028 CTAACAAAGA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 134 1.00
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (34 bp):
TCACCTAACACACCTAACATTCTCACCAAATACA
Found at i:46738 original size:34 final size:34
Alignment explanation
Indices: 46699--46907 Score: 194
Period size: 34 Copynumber: 5.9 Consensus size: 34
46689 ATATACATGT
46699 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
46733 TAACACACCTAACATTCTCACC-TA-ACA-CACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
* * *
46764 TAACATTCTCACCTAACA--CATCACCTAACACACCTAACATTC
1 TAACA----CACCTAACATTC-TCACC-AA-ATA-C-ATCA-CC
* *
46806 TCACCTAACACACCTAACATTCTCACCAAACACATCACC
1 T-AAC--A--CACCTAACATTCTCACCAAATACATCACC
46845 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
46879 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
46908 CTTAACAAAG
Statistics
Matches: 148, Mismatches: 9, Indels: 36
0.77 0.05 0.19
Matches are distributed among these distances:
31 9 0.06
32 3 0.02
33 2 0.01
34 84 0.57
35 9 0.06
36 1 0.01
37 1 0.01
38 3 0.02
39 3 0.02
40 4 0.03
41 3 0.02
42 5 0.03
43 14 0.09
44 5 0.03
45 2 0.01
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:46756 original size:22 final size:22
Alignment explanation
Indices: 46728--46783 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
46718 ACCAAATACA
46728 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
46750 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
46772 TCACCTAACACA
1 TCACCTAACACA
46784 TCACCTAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:46785 original size:56 final size:56
Alignment explanation
Indices: 46699--46866 Score: 318
Period size: 56 Copynumber: 3.0 Consensus size: 56
46689 ATATACATGT
*
46699 TAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
*
46755 TAACACACCTAACATTCTCACCTAACACATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
46811 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
46867 AAATACATCA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 109 1.00
ACGTcount: A:0.39, C:0.40, G:0.00, T:0.21
Consensus pattern (56 bp):
TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
Found at i:46812 original size:22 final size:22
Alignment explanation
Indices: 46784--46914 Score: 103
Period size: 22 Copynumber: 5.9 Consensus size: 22
46774 ACCTAACACA
46784 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
46806 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
46828 TCACCAAACACATCACCTAACA---
1 TCACC-TA-ACA-CACCTAACATTC
*
46850 -CACCTAACATTCTCACC-AA-ATAC
1 TCACCTAACA----CACCTAACATTC
46873 ATCACCTAACACACCTAACATTC
1 -TCACCTAACACACCTAACATTC
* * *
46896 TCACCAAATACACTTAACA
1 TCACCTAACACACCTAACA
46915 AAGAAATTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.03
20 2 0.02
21 10 0.11
22 50 0.56
23 4 0.04
24 3 0.03
25 18 0.20
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:46852 original size:90 final size:90
Alignment explanation
Indices: 46699--46914 Score: 298
Period size: 90 Copynumber: 2.4 Consensus size: 90
46689 ATATACATGT
*
46699 TAACACACCTAACATTCTCACCAAATACATCACCTAACA----CACCTAACATTC-TCACCTAAC
1 TAACACACCTAACATTCTCACC-AA-ACA-CACCTAACATTCTCACCAAACA--CATCACCTAAC
*
46759 ACACCTAACATTCTCACCTAACACATCACC
61 ACACCTAACATTCTCACCAAACACATCACC
*
46789 TAACACACCTAACATTCTCACCTAACACACCTAACATTCTCACCAAACACATCACCTAACACACC
1 TAACACACCTAACATTCTCACCAAACACACCTAACATTCTCACCAAACACATCACCTAACACACC
*
46854 TAACATTCTCACCAAATACATCACC
66 TAACATTCTCACCAAACACATCACC
* *
46879 TAACACACCTAACATTCTCACCAAATACACTTAACA
1 TAACACACCTAACATTCTCACCAAACACACCTAACA
46915 AAGAAATTAA
Statistics
Matches: 114, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
87 9 0.08
88 3 0.03
89 2 0.02
90 92 0.81
91 8 0.07
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (90 bp):
TAACACACCTAACATTCTCACCAAACACACCTAACATTCTCACCAAACACATCACCTAACACACC
TAACATTCTCACCAAACACATCACC
Found at i:52592 original size:21 final size:21
Alignment explanation
Indices: 52568--52627 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
52558 AATCCGGCAC
*
52568 CTACAATACCCCAAATAAAAA
1 CTACAATACCCCAAACAAAAA
* ** *
52589 CTACAACACCTTAAACAAAAC
1 CTACAATACCCCAAACAAAAA
*
52610 CTACAGTACCCCAAACAA
1 CTACAATACCCCAAACAA
52628 CACTTGCAAC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (21 bp):
CTACAATACCCCAAACAAAAA
Found at i:52638 original size:42 final size:41
Alignment explanation
Indices: 52566--52694 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 41
52556 CCAATCCGGC
* * *
52566 ACCTACAATACCCCAAATAAAAACTACAACACCTT-AAACAAA
1 ACCTACAGTACCCCAAA-CAACACTACAACA-CTTCAAACAAA
* *
52608 ACCTACAGTACCCCAAACAACACTTGCAACACTTCAAACAGA
1 ACCTACAGTACCCCAAACAACAC-TACAACACTTCAAACAAA
* * * *
52650 ACCTAAAGTACCCCAAACAACACCTACAGCACTTTAAATAAA
1 ACCTACAGTACCCCAAACAACA-CTACAACACTTCAAACAAA
52692 ACC
1 ACC
52695 AATGCCTCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.10
42 65 0.89
43 1 0.01
ACGTcount: A:0.48, C:0.33, G:0.04, T:0.15
Consensus pattern (41 bp):
ACCTACAGTACCCCAAACAACACTACAACACTTCAAACAAA
Found at i:52674 original size:21 final size:21
Alignment explanation
Indices: 52601--52675 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
52591 ACAACACCTT
* *
52601 AAACAAAACCTACAGTACCCC
1 AAACAACACCTAAAGTACCCC
* * * **
52622 AAACAACACTTGCAA-CACTTC
1 AAACAACACCT-AAAGTACCCC
52643 AAACAGA-ACCTAAAGTACCCC
1 AAACA-ACACCTAAAGTACCCC
52664 AAACAACACCTA
1 AAACAACACCTA
52676 CAGCACTTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
20 3 0.08
21 33 0.87
22 2 0.05
ACGTcount: A:0.48, C:0.35, G:0.05, T:0.12
Consensus pattern (21 bp):
AAACAACACCTAAAGTACCCC
Found at i:56773 original size:30 final size:30
Alignment explanation
Indices: 56739--56825 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
56729 GGTTACAGGT
*
56739 GTAGAAACGAGTTCAAACACAGGTTCAAGA
1 GTAGAAACGAGTTCAGACACAGGTTCAAGA
* * * *
56769 GTAGAAATGGGTTCAGACATAGGTTCAAGT
1 GTAGAAACGAGTTCAGACACAGGTTCAAGA
*
56799 GTAGAAAC-AGGTTTAGACACAGGTTCA
1 GTAGAAACGA-GTTCAGACACAGGTTCA
56826 GACACAAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (30 bp):
GTAGAAACGAGTTCAGACACAGGTTCAAGA
Found at i:57900 original size:33 final size:32
Alignment explanation
Indices: 57789--57931 Score: 177
Period size: 33 Copynumber: 4.5 Consensus size: 32
57779 GCATCTTTCT
*
57789 CCTTTTCAAAAG-CC-CACAAGTCGGTGGCAA
1 CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
57819 CCTTTTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTTTCT-AAAGCCCACACAAGTCGGTGGCAA
* * * *
57853 CCCTCTCTAAAGCCCACACAAGTTGGTGGTAA
1 CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
57885 CCATTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTTTCTAAAGCCCACACAAGTCGGTGGCAA
*
57918 CC-CTTCTAAA-CCCA
1 CCTTTTCTAAAGCCCA
57932 ATATTGCTGG
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
30 6 0.06
31 12 0.12
32 28 0.29
33 34 0.35
34 18 0.18
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.22
Consensus pattern (32 bp):
CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:57911 original size:65 final size:64
Alignment explanation
Indices: 57803--57931 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 64
57793 TTCAAAAGCC
*
57803 CACAAGTCGGTGGCAACCTTTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCC
1 CACAAGTCGGTGGCAACCATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCT-TCTAAA-CCC
57868 A
64 A
* *
57869 CACAAGTTGGTGGTAACCATTTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTAAACCCA
1 CACAAGTCGGTGGCAACCATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAACCCA
57932 ATATTGCTGG
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
63 4 0.07
64 6 0.10
65 28 0.47
66 22 0.37
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.21
Consensus pattern (64 bp):
CACAAGTCGGTGGCAACCATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAACCCA
Found at i:58033 original size:43 final size:43
Alignment explanation
Indices: 57970--58525 Score: 509
Period size: 43 Copynumber: 12.0 Consensus size: 43
57960 GCATCTTCTT
* *
57970 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* *
58013 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
*
58060 TTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* * *
58105 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCGTATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
58152 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* *
58197 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCACTTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
** * *
58244 ATCTTTAAGTCCAACGTAACTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
58289 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* * * *
58336 TTCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* *
58381 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C
*
58425 TTTGTTATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTTGTC
1 --------CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-------C
* *
58483 ATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
58526 GTCTTTGTCA
Statistics
Matches: 431, Mismatches: 43, Indels: 69
0.79 0.08 0.13
Matches are distributed among these distances:
43 190 0.44
44 1 0.00
45 4 0.01
47 4 0.01
49 150 0.35
52 81 0.19
58 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:58072 original size:92 final size:92
Alignment explanation
Indices: 57929--58582 Score: 923
Period size: 92 Copynumber: 6.9 Consensus size: 92
57919 CCTTCTAAAC
* *
57929 CCAATATTGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
*
57994 TGAATCAGCACATTGGCACCTTTAAGC
66 TGAATCAGCACATTGGCACCTTTAAGT
* *
58021 CCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATATAGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
*
58086 TGAATCAGCACATTGGCACCTTTAAGC
66 TGAATCAGCACATTGGCACCTTTAAGT
* *
58113 CCAATATTGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
58178 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* * * *
58205 CCAATATCGCTGGCCTTGAATCAGCGTATTGGCA-CTTTCATCTTTAAGTCCAACGTAACTGGCC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTCTTCTTTAAGTCCAATGTAGCTGGCC
58269 TTGAATCAGCACATTGGCACCTTTAAGT
65 TTGAATCAGCACATTGGCACCTTTAAGT
* * * *
58297 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGCCCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
58362 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* * * * *
58389 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTGTTATCTTTAAGTCCAATATTGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TT-CT-TCTTTAAGTCCAATGTAGCTGG
*
58454 CCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAGT
63 CCTTGAATCAGCACATTGGCA-------C--CTTTAAGT
* * * *
58493 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATC--T-TCTTCTTTAAGTCCAATGTAGCTGG
58558 CCTTGAATCAGCACATTGGCACCTT
63 CCTTGAATCAGCACATTGGCACCTT
58583 CATCTTTAAC
Statistics
Matches: 514, Mismatches: 32, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
91 1 0.00
92 382 0.74
93 3 0.01
94 1 0.00
95 42 0.08
97 1 0.00
102 1 0.00
104 80 0.16
105 2 0.00
106 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (92 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAGT
Found at i:58463 original size:52 final size:52
Alignment explanation
Indices: 58381--58582 Score: 323
Period size: 52 Copynumber: 3.9 Consensus size: 52
58371 ACATTGGCAC
* *
58381 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTGTTAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
58433 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* **
58485 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
58537 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
58583 CATCTTTAAC
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 138 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:59405 original size:13 final size:13
Alignment explanation
Indices: 59387--59411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59377 CATAAAGTGT
59387 TGTATCGATACAA
1 TGTATCGATACAA
59400 TGTATCGATACA
1 TGTATCGATACA
59412 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:59496 original size:13 final size:13
Alignment explanation
Indices: 59478--59502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59468 ATTACTCAAA
59478 TGTATCGATACAT
1 TGTATCGATACAT
59491 TGTATCGATACA
1 TGTATCGATACA
59503 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59567 original size:52 final size:52
Alignment explanation
Indices: 59511--59639 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
59501 CACTGATCTT
*
59511 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
* *
59563 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
* *
59615 TGTATCGATGCATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
59640 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
Found at i:64014 original size:111 final size:111
Alignment explanation
Indices: 63833--64055 Score: 437
Period size: 111 Copynumber: 2.0 Consensus size: 111
63823 TTTTGCATTC
63833 AGTCCGACTAGGAAGTTGTAAACTTTGTCTTGTTCAATGAAATCTTTTAGGACTGCAACATCTTT
1 AGTCCGACTAGGAAGTTGTAAACTTTGTCTTGTTCAATGAAATCTTTTAGGACTGCAACATCTTT
63898 AAGACATTTAGTTTGTATTACCTGATAGTGATCCAATTCTTGCCAT
66 AAGACATTTAGTTTGTATTACCTGATAGTGATCCAATTCTTGCCAT
63944 AGTCCGACTAGGAAGTTGTAAACTTTGTCTTGTTCAATGAAATCTTTTAGGACTGCAACATCTTT
1 AGTCCGACTAGGAAGTTGTAAACTTTGTCTTGTTCAATGAAATCTTTTAGGACTGCAACATCTTT
*
64009 GAGACATTTAGTTTGTATTACCTGATAGTGATCCAATTCTTGCCAT
66 AAGACATTTAGTTTGTATTACCTGATAGTGATCCAATTCTTGCCAT
64055 A
1 A
64056 ACAACTTCAA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (111 bp):
AGTCCGACTAGGAAGTTGTAAACTTTGTCTTGTTCAATGAAATCTTTTAGGACTGCAACATCTTT
AAGACATTTAGTTTGTATTACCTGATAGTGATCCAATTCTTGCCAT
Found at i:66715 original size:19 final size:19
Alignment explanation
Indices: 66656--66721 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
66646 ATACAAAAAA
* **
66656 ATAAATATGACATAAATAC
1 ATAAATATTACATAAATTT
* * *
66675 ATAAATATAATTATATATTT
1 ATAAATATTA-CATAAATTT
66695 ATAAATATTACATAAATTT
1 ATAAATATTACATAAATTT
66714 AT-AATATT
1 ATAAATATT
66722 CTAAATAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
18 6 0.16
19 18 0.47
20 14 0.37
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAAATATTACATAAATTT
Found at i:66849 original size:31 final size:31
Alignment explanation
Indices: 66798--66877 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
66788 AAATACATAA
* *
66798 AAATATACATAAA-ATAAAATA-AAT-TATT
1 AAATATAAAAAAATATAAAATATAATATATT
*
66826 AATATATAAAAAAAATATAAAATATAATATTTT
1 AA-ATAT-AAAAAAATATAAAATATAATATATT
66859 AAATATAAAAAAATATAAA
1 AAATATAAAAAAATATAAA
66878 TATCAACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.05
29 4 0.09
30 5 0.11
31 21 0.48
32 7 0.16
33 5 0.11
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (31 bp):
AAATATAAAAAAATATAAAATATAATATATT
Found at i:66852 original size:18 final size:18
Alignment explanation
Indices: 66806--66852 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
66796 AAAAATATAC
* *
66806 ATAAAATA-AAATAAATT
1 ATAAAATATAAAAAAAAT
*
66823 ATTAATATATAAAAAAAAT
1 A-TAAAATATAAAAAAAAT
66842 ATAAAATATAA
1 ATAAAATATAA
66853 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAATATAAAAAAAAT
Found at i:66888 original size:24 final size:24
Alignment explanation
Indices: 66844--66892 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
66834 AAAAAAATAT
* *
66844 AAAATATAATATTTTAAATATAAA
1 AAAATATAATATATCAAATATAAA
66868 AAAATATAA-ATATCAACATATAAA
1 AAAATATAATATATCAA-ATATAAA
66892 A
1 A
66893 TTTTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATATAATATATCAAATATAAA
Found at i:66937 original size:13 final size:13
Alignment explanation
Indices: 66916--66951 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
66906 TATGAATTTT
66916 TTTCTTTTTCTTTC
1 TTTC-TTTTCTTTC
*
66930 TTTCTTTTTTTTC
1 TTTCTTTTCTTTC
66943 TTTCTTTTC
1 TTTCTTTTC
66952 CACCACGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:67081 original size:11 final size:11
Alignment explanation
Indices: 67056--67089 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
67046 AGATTATTAT
67056 TATAATAAAAA
1 TATAATAAAAA
67067 -ATAATAAAAA
1 TATAATAAAAA
67077 TATAATAAAAA
1 TATAATAAAAA
67088 TA
1 TA
67090 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TATAATAAAAA
Found at i:67152 original size:32 final size:30
Alignment explanation
Indices: 67090--67198 Score: 91
Period size: 32 Copynumber: 3.6 Consensus size: 30
67080 AATAAAAATA
*
67090 AAAATATTAATATAATTATGATATTAAATATTTT
1 AAAATA-T-ATATAA-TATTATATT-AATATTTT
* *
67124 AAAATTTATATAATATTAATTATTAATATATT
1 AAAATATATATAATATT-A-TATTAATATTTT
* *
67156 AAAATGTATATAA-A-TATAATAATATTTT
1 AAAATATATATAATATTATATTAATATTTT
67184 -AAATAT-TATAATATT
1 AAAATATATATAATATT
67199 TTAAATATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
26 5 0.08
27 6 0.09
28 11 0.17
29 1 0.02
30 1 0.02
31 4 0.06
32 26 0.41
33 5 0.08
34 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
AAAATATATATAATATTATATTAATATTTT
Found at i:67178 original size:41 final size:42
Alignment explanation
Indices: 67071--67181 Score: 104
Period size: 41 Copynumber: 2.6 Consensus size: 42
67061 TAAAAAATAA
* * *
67071 TAAAAATATAATAAAAATAAAAATATTAATATAATTATGATAT
1 TAAAATTAT-ATAAATATAATAATATTAATATAATTATGATAT
* *
67114 TAAATATTTTA-AAATTTATATAATATTAAT-T-ATTAAT-ATAT
1 TAAA-ATTATATAAATATA-ATAATATTAATATAATT-ATGATAT
67155 TAAAATGTATATAAATATAATAATATT
1 TAAAAT-TATATAAATATAATAATATT
67182 TTAAATATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
40 2 0.04
41 22 0.39
42 14 0.25
43 15 0.27
44 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (42 bp):
TAAAATTATATAAATATAATAATATTAATATAATTATGATAT
Found at i:67188 original size:17 final size:17
Alignment explanation
Indices: 67166--67209 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
67156 AAAATGTATA
67166 TAAATATAATAATATTT
1 TAAATATAATAATATTT
*
67183 TAAATATTATAATATTT
1 TAAATATAATAATATTT
67200 TAAATATAAT
1 TAAATATAAT
67210 TATAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATATAATAATATTT
Found at i:67346 original size:22 final size:20
Alignment explanation
Indices: 67312--67361 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
67302 CACCTAAACC
*
67312 TTTTTCTCCTTTCTCTTTCTTT
1 TTTTTCTCATTTCT-TTT-TTT
*
67334 TTTTTTTCATTTCTTTTTTT
1 TTTTTCTCATTTCTTTTTTT
67354 TTCTTTCT
1 TT-TTTCT
67362 TTCCTTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 7 0.29
22 12 0.50
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCTCATTTCTTTTTTT
Found at i:67352 original size:14 final size:14
Alignment explanation
Indices: 67325--67363 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
67315 TTCTCCTTTC
67325 TCTTTCTTTTTTTTT
1 TCTTTC-TTTTTTTT
67340 TCATTTCTTTTTTTT
1 TC-TTTCTTTTTTTT
67355 TCTTTCTTT
1 TCTTTCTTT
67364 CCTTCCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 12 0.52
16 4 0.17
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TCTTTCTTTTTTTT
Found at i:67588 original size:30 final size:29
Alignment explanation
Indices: 67541--67597 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
67531 ATTAAGTTAA
* *
67541 TAAAATTTATTTAATAAATAAATTTAAAGT
1 TAAAATTTATATAATAAA-AAATATAAAGT
67571 TAAAATTTA-ATATATAAAAAATATAAA
1 TAAAATTTATATA-ATAAAAAATATAAA
67598 ATAAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
TAAAATTTATATAATAAAAAATATAAAGT
Found at i:68030 original size:25 final size:24
Alignment explanation
Indices: 67969--68032 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
67959 ATACACGTAC
* *
67969 ATATAAAAATAT-ACATAAAATAA
1 ATATAAAAATATAATATAAAAAAA
** *
67992 A-ATAAATTTTTAATATATAAAAAA
1 ATATAAAAATATAATATA-AAAAAA
68016 ATATAAAAATATAATAT
1 ATATAAAAATATAATAT
68033 TTTAAATACA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
22 7 0.23
23 5 0.17
24 6 0.20
25 12 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATAAAAATATAATATAAAAAAA
Found at i:68553 original size:31 final size:31
Alignment explanation
Indices: 68518--68577 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
68508 CGAATATGTT
*
68518 AAAATATAGAT-AAATAAATAATTAACATATA
1 AAAATATAGATAAAATAAA-AAATAACATATA
* *
68549 AAAATTTATATAAAATAAAAAATAACATA
1 AAAATATAGATAAAATAAAAAATAACATA
68578 AATATGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (31 bp):
AAAATATAGATAAAATAAAAAATAACATATA
Found at i:68690 original size:37 final size:33
Alignment explanation
Indices: 68649--68743 Score: 95
Period size: 37 Copynumber: 2.7 Consensus size: 33
68639 ATACACATAC
68649 ATATAAAAATATACATAAAATAAAATAAATTATTAAT
1 ATATAAAAATATACATAAAATAAAAT--ATT-TT-AT
*
68686 ATATAAAAAGTATACA-AAAATATAATATTTTAT
1 ATATAAAAA-TATACATAAAATAAAATATTTTAT
*
68719 ATACAAAAA-ATAACATAAATATAAA
1 ATATAAAAATAT-ACATAAA-ATAAA
68744 TACATAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
31 2 0.04
32 3 0.06
33 13 0.25
34 6 0.12
35 3 0.06
37 18 0.35
38 6 0.12
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (33 bp):
ATATAAAAATATACATAAAATAAAATATTTTAT
Found at i:68768 original size:4 final size:4
Alignment explanation
Indices: 68754--68783 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
68744 TACATAAATT
68754 TTTC TTTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC T
68784 CAGCTGCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:80524 original size:16 final size:16
Alignment explanation
Indices: 80505--80539 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
80495 AACATTAAAC
* *
80505 CAATGTGCACAACCAT
1 CAATATGCAAAACCAT
80521 CAATATGCAAAACCAT
1 CAATATGCAAAACCAT
80537 CAA
1 CAA
80540 ATCATAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.17
Consensus pattern (16 bp):
CAATATGCAAAACCAT
Found at i:82839 original size:18 final size:18
Alignment explanation
Indices: 82816--82855 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
82806 CTTTGTTCTT
*
82816 GATATACTTGAGGATGAA
1 GATATACTTGAAGATGAA
* *
82834 GATATATTTGAAGATGAT
1 GATATACTTGAAGATGAA
82852 GATA
1 GATA
82856 ATTTTAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (18 bp):
GATATACTTGAAGATGAA
Found at i:83809 original size:18 final size:19
Alignment explanation
Indices: 83776--83814 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
83766 ATTAAATAAT
*
83776 ATAAATTATTAATTATTTA
1 ATAAATTATAAATTATTTA
83795 ATAAA-TATAAATTATTTA
1 ATAAATTATAAATTATTTA
83813 AT
1 AT
83815 TAAGAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAAATTATAAATTATTTA
Found at i:87671 original size:20 final size:20
Alignment explanation
Indices: 87646--87683 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
87636 ATACAATTAG
87646 TGAATGTATCGAGACATAAA
1 TGAATGTATCGAGACATAAA
*
87666 TGAATGTATCGATACATA
1 TGAATGTATCGAGACATA
87684 CCTAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (20 bp):
TGAATGTATCGAGACATAAA
Found at i:87736 original size:60 final size:60
Alignment explanation
Indices: 87668--87857 Score: 168
Period size: 60 Copynumber: 3.2 Consensus size: 60
87658 GACATAAATG
87668 AATGTATCGATACATACCTAAAATGTGTTGATACAAAACAACCCTGCATACTGCCATGGA
1 AATGTATCGATACATACCTAAAATGTGTTGATACAAAACAACCCTGCATACTGCCATGGA
* * ** * * * **
87728 AATGTATCGATACAT---T---A-GTATCGATACAATTAGTGAA---TGTAT-CGAGACATAAA
1 AATGTATCGATACATACCTAAAATGTGTTGATACAA--A-ACAACCCTGCATAC-TGCCATGGA
87781 TGAATGTATCGATACATACCTAAAATGTGTTGATACAAAACAACCCTGCATACTGCCATGGA
1 --AATGTATCGATACATACCTAAAATGTGTTGATACAAAACAACCCTGCATACTGCCATGGA
87843 AATGTATCGATACAT
1 AATGTATCGATACAT
87858 TTCTCATTGT
Statistics
Matches: 95, Mismatches: 18, Indels: 34
0.65 0.12 0.23
Matches are distributed among these distances:
52 1 0.01
53 19 0.20
54 1 0.01
55 16 0.17
56 2 0.02
57 1 0.01
58 1 0.01
59 2 0.02
60 31 0.33
61 1 0.01
62 19 0.20
63 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (60 bp):
AATGTATCGATACATACCTAAAATGTGTTGATACAAAACAACCCTGCATACTGCCATGGA
Found at i:87750 original size:14 final size:15
Alignment explanation
Indices: 87731--87761 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
87721 CCATGGAAAT
87731 GTATCGATAC-ATTA
1 GTATCGATACAATTA
87745 GTATCGATACAATTA
1 GTATCGATACAATTA
87760 GT
1 GT
87762 GAATGTATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (15 bp):
GTATCGATACAATTA
Found at i:87771 original size:21 final size:21
Alignment explanation
Indices: 87745--87796 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
87735 CGATACATTA
* *
87745 GTATCGATACAATTAGTGAAT
1 GTATCGATACAATAAATGAAT
*
87766 GTATCGAGAC-ATAAATGAAT
1 GTATCGATACAATAAATGAAT
87786 GTATCGATACA
1 GTATCGATACA
87797 TACCTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (21 bp):
GTATCGATACAATAAATGAAT
Found at i:87778 original size:115 final size:115
Alignment explanation
Indices: 87635--87858 Score: 448
Period size: 115 Copynumber: 1.9 Consensus size: 115
87625 AACTTATATT
87635 GATACAATTAGTGAATGTATCGAGACATAAATGAATGTATCGATACATACCTAAAATGTGTTGAT
1 GATACAATTAGTGAATGTATCGAGACATAAATGAATGTATCGATACATACCTAAAATGTGTTGAT
87700 ACAAAACAACCCTGCATACTGCCATGGAAATGTATCGATACATTAGTATC
66 ACAAAACAACCCTGCATACTGCCATGGAAATGTATCGATACATTAGTATC
87750 GATACAATTAGTGAATGTATCGAGACATAAATGAATGTATCGATACATACCTAAAATGTGTTGAT
1 GATACAATTAGTGAATGTATCGAGACATAAATGAATGTATCGATACATACCTAAAATGTGTTGAT
87815 ACAAAACAACCCTGCATACTGCCATGGAAATGTATCGATACATT
66 ACAAAACAACCCTGCATACTGCCATGGAAATGTATCGATACATT
87859 TCTCATTGTG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (115 bp):
GATACAATTAGTGAATGTATCGAGACATAAATGAATGTATCGATACATACCTAAAATGTGTTGAT
ACAAAACAACCCTGCATACTGCCATGGAAATGTATCGATACATTAGTATC
Found at i:94275 original size:13 final size:13
Alignment explanation
Indices: 94257--94282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94247 AATTTTTTTG
94257 TGTATCGATACAT
1 TGTATCGATACAT
94270 TGTATCGATACAT
1 TGTATCGATACAT
94283 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:94293 original size:32 final size:34
Alignment explanation
Indices: 94236--94300 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
94226 TACAAGCCAA
*
94236 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
94270 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
94301 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:99553 original size:13 final size:13
Alignment explanation
Indices: 99535--99560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99525 AATTTTTTTG
99535 TGTATCGATACAT
1 TGTATCGATACAT
99548 TGTATCGATACAT
1 TGTATCGATACAT
99561 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:99571 original size:32 final size:34
Alignment explanation
Indices: 99514--99578 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
99504 TACAAGCCAA
*
99514 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
99548 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
99579 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:101482 original size:14 final size:14
Alignment explanation
Indices: 101463--101513 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 14
101453 TACGTGAACA
101463 GTATGAACAGTGAT
1 GTATGAACAGTGAT
101477 GTATGAACAGTACAGTGAT
1 GTATG---A--ACAGTGAT
101496 GTATGAACAGTGAT
1 GTATGAACAGTGAT
101510 GTAT
1 GTAT
101514 CGATACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 17 0.53
16 1 0.03
17 1 0.03
19 13 0.41
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (14 bp):
GTATGAACAGTGAT
Found at i:101493 original size:19 final size:19
Alignment explanation
Indices: 101469--101506 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
101459 AACAGTATGA
101469 ACAGTGATGTATGAACAGT
1 ACAGTGATGTATGAACAGT
101488 ACAGTGATGTATGAACAGT
1 ACAGTGATGTATGAACAGT
101507 GATGTATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (19 bp):
ACAGTGATGTATGAACAGT
Found at i:101578 original size:19 final size:19
Alignment explanation
Indices: 101554--101636 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
101544 CTACTACCAA
101554 TGTATCGATACATATTGTG
1 TGTATCGATACATATTGTG
*
101573 TGTATCGATACAAATT-TG
1 TGTATCGATACATATTGTG
* *
101591 -GCTA-C--TGCCA-A-TGTCC
1 TG-TATCGAT-ACATATTGT-G
101607 TGTATCGATACATATTGTG
1 TGTATCGATACATATTGTG
101626 TGTATCGATAC
1 TGTATCGATAC
101637 TATGCAATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
14 1 0.02
15 3 0.06
16 4 0.08
17 4 0.08
18 6 0.12
19 28 0.57
20 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATATTGTG
Found at i:101669 original size:20 final size:20
Alignment explanation
Indices: 101607--101675 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
101597 GCCAATGTCC
*
101607 TGTATCGATACATATT-GTG
1 TGTATCGATACATATTAATG
* *
101626 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
101646 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
101666 TGTATCGATA
1 TGTATCGATA
101676 AATTTCAGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 11 0.27
20 26 0.63
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:103133 original size:15 final size:13
Alignment explanation
Indices: 103101--103126 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
103091 CAGGGTAGTT
103101 TTGTATCGATACA
1 TTGTATCGATACA
103114 TTGTATCGATACA
1 TTGTATCGATACA
103127 AATTGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:106077 original size:13 final size:13
Alignment explanation
Indices: 106059--106084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106049 TATAGCAAGT
106059 ATGTATCGATACA
1 ATGTATCGATACA
106072 ATGTATCGATACA
1 ATGTATCGATACA
106085 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:106161 original size:20 final size:19
Alignment explanation
Indices: 106127--106166 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
106117 GGCTATATTT
*
106127 TCAAATATTTATCGATACA
1 TCAAAAATTTATCGATACA
106146 TCAAAAATTGTATCGATACA
1 TCAAAAATT-TATCGATACA
106166 T
1 T
106167 TTACACGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (19 bp):
TCAAAAATTTATCGATACA
Found at i:108324 original size:21 final size:21
Alignment explanation
Indices: 108291--108335 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108281 TTGCAAGTTG
*
108291 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
108313 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
108333 AAA
1 AAA
108336 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:110159 original size:15 final size:15
Alignment explanation
Indices: 110139--110169 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110129 TAAAAATGTC
*
110139 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
110154 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
110169 C
1 C
110170 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:112437 original size:20 final size:20
Alignment explanation
Indices: 112394--112439 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
112384 AAATCTTTTG
112394 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
112415 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
112435 CAAAA
1 CAAAA
112440 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:114549 original size:20 final size:19
Alignment explanation
Indices: 114494--114549 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
114484 AAAACCCTTA
*
114494 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
114514 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
114534 AATGTATCGATACATG
1 AAAGTATCGATACATG
114550 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:116542 original size:32 final size:32
Alignment explanation
Indices: 116498--117113 Score: 548
Period size: 32 Copynumber: 19.4 Consensus size: 32
116488 AAATCTTTTT
* * * *
116498 CCTTCTCAAAGCCTACAGAAGTTGGTGGTAACC
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
* * * *
116531 CCTTCTAAAGCCCATACAAGCCGATGGTAA-C
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
116562 CCTTCTCAAAGCCCACATAAGTCGATGGCAACC
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
* *
116595 CC-TCTCAAAGCCCACAGAAGTTGGTGGC-ACC
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
* * * **
116626 TTCTT-TAAAGCCCATATAAGTTAGTGGCAACC
1 -CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
116658 CTCTT-TAAAGCTCACACAAGTCGATGGCAACC
1 C-CTTCTAAAGCCCACACAAGTCGGTGGCAACC
* * *
116690 CC-TCTAAA-CCCACACAAGTCAGTGAC-ATC
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
116719 CCTTCTCAAAGCCCACACAAGTTGGTGGC-A-C
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
*
116750 CCTCTCTAAAGCCCACACAAGTCGGTGGTAACC
1 CCT-TCTAAAGCCCACACAAGTCGGTGGCAACC
* *
116783 CTTTCTAAAGCCCACACAAGTCAGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
116815 CCTT-TCAAAGCCCACACAAGTCAGTGGC-A-C
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
116845 CCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CCT-TCTAAAGCCCACACAAGTCGGTGGCAACC
** * * * *
116878 ATTTTTAAAGCCCACACAAGTCGATAGTAACC
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* **
116910 CC-TCTAAAGCCCACATAAGTTAGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* * *
116941 CCTTTTATAGCCCATACAAGTCGGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
116973 CCTTCTAAAGCCCACACAAGTCGGTGGCAA-C
1 CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
117004 TCTTCTCAAAGCCCACACAAGTCGCTGGCAACC
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
* * * * *
117037 CC-TCTCAACGCCTACAAAAGTTGGTAGCAACC
1 CCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
* * * *
117069 CTTCTCTAAAACCTACATAAGTCGGTGGCAA-C
1 CCT-TCTAAAGCCCACACAAGTCGGTGGCAACC
117101 CCTTCT-AAGCCCA
1 CCTTCTAAAGCCCA
117114 ATGTTATTGG
Statistics
Matches: 479, Mismatches: 81, Indels: 49
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.01
30 27 0.06
31 118 0.25
32 291 0.61
33 36 0.08
34 3 0.01
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (32 bp):
CCTTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:116654 original size:63 final size:64
Alignment explanation
Indices: 116522--117102 Score: 471
Period size: 63 Copynumber: 9.2 Consensus size: 64
116512 ACAGAAGTTG
* * * * * * *
116522 GTGGTAACCCCT-TCTAAAGCCCATACAAGCCGATGGTAACCCTTC-TCAAAGCCCACATAAGTC
1 GTGGCAACCCCTCTC-AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTTAAAGCCCACACAAGTC
116585 -
64 A
* * * * *
116585 GATGGCAACCCCTCTCAAAGCCCACAGAAGTTGGTGGC-ACCTTCTTTAAAGCCCATATAAGTTA
1 G-TGGCAACCCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGTCA
* * * * *
116649 GTGGCAA-CCCTCTTTAAAGCTCACACAAGTCGATGGCAACC-CCTCTAAA-CCCACACAAGTCA
1 GTGGCAACCCCTC-TCAAAGCCCACACAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGTCA
* * * * * * *
116711 GTGACATCCCTTCTCAAAGCCCACACAAGTTGGTGGC-ACCCTCTCTAAAGCCCACACAAGTCG
1 GTGGCAACCCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGTCA
* * * *
116774 GTGGTAA-CCCTTTCTAAAGCCCACACAAGTCAGTGGCAACC-CCTTTCAAAGCCCACACAAGTC
1 GTGGCAACCCCTCTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTT-AAAGCCCACACAAGTC
116837 A
64 A
116838 GTGGC-A-CCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCATT-TTTAAAGCCCACACAAGTC
1 GTGGCAACCCCTCTC-AAAGCCCACACAAGTCGGTGGCAACC-TTCTTTAAAGCCCACACAAGTC
116900 -
64 A
* * * ** * * *
116900 GATAGTAACCCCTCT-AAAGCCCACATAAGTTAGTGGCAACC-CCTTTTATAGCCCATACAAGTC
1 G-TGGCAACCCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTC-TTTAAAGCCCACACAAGTC
*
116963 G
64 A
*
116964 GTGGCAACCCCT-TCTAAAGCCCACACAAGTCGGTGGCAACTCTTC-TCAAAGCCCACACAAGTC
1 GTGGCAACCCCTCTC-AAAGCCCACACAAGTCGGTGGCAAC-CTTCTTTAAAGCCCACACAAGTC
117027 -
64 A
* * * * * * * * *
117027 GCTGGCAACCCCTCTCAACGCCTACAAAAGTTGGTAGCAACCCTTCTCTAAAACCTACATAAGTC
1 G-TGGCAACCCCTCTCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTTTAAAGCCCACACAAGTC
*
117092 G
64 A
117093 GTGGCAACCC
1 GTGGCAACCC
117103 TTCTAAGCCC
Statistics
Matches: 419, Mismatches: 70, Indels: 56
0.77 0.13 0.10
Matches are distributed among these distances:
61 3 0.01
62 59 0.14
63 192 0.46
64 129 0.31
65 34 0.08
66 2 0.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.20
Consensus pattern (64 bp):
GTGGCAACCCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTTAAAGCCCACACAAGTCA
Found at i:116679 original size:95 final size:94
Alignment explanation
Indices: 116501--117113 Score: 494
Period size: 95 Copynumber: 6.4 Consensus size: 94
116491 TCTTTTTCCT
* * * * * ** *
116501 TCTCAAAGCCTACAGAAGTTGGTGGTAACCCCTTCTAAAGCCCATACAAG-CCGATGGTAACCCT
1 TCTCAAAGCCCACACAAGTCGGTGG-CACCCCTT-TAAAGCCCACACAAGTTAG-TGGCAACCCT
* * *
116565 -TCTCAAAGCCCACATAAGTCGATGGCAACCCC
63 CT-TTAAAGCCCACACAAGTCGGTGGCAACCCC
* * * * *
116597 TCTCAAAGCCCACAGAAGTTGGTGGCACCTTCTTTAAAGCCCATATAAGTTAGTGGCAACCCTCT
1 TCTCAAAGCCCACACAAGTCGGTGGCACC-CCTTTAAAGCCCACACAAGTTAGTGGCAACCCTCT
* *
116662 TTAAAGCTCACACAAGTCGATGGCAACCCC
65 TTAAAGCCCACACAAGTCGGTGGCAACCCC
* * * *
116692 TCT-AAA-CCCACACAAGTCAGTGACATCCCTTCTCAAAGCCCACACAAGTTGGTGGC-ACCCTC
1 TCTCAAAGCCCACACAAGTCGGTGGCACCCCTT-T-AAAGCCCACACAAGTTAGTGGCAACCCTC
* *
116754 TCTAAAGCCCACACAAGTCGGTGGTAA-CCC
64 TTTAAAGCCCACACAAGTCGGTGGCAACCCC
* * *
116784 TTTCTAAAGCCCACACAAGTCAGTGGCAACCCCTTTCAAAGCCCACACAAGTCAGTGGC-ACCCT
1 TCTC-AAAGCCCACACAAGTCGGTGGC-ACCCCTTT-AAAGCCCACACAAGTTAGTGGCAACCCT
* **
116848 CTCTAAAGCCCACACAAGTCGGTGGCAACCAT
63 CTTTAAAGCCCACACAAGTCGGTGGCAACCCC
* * * ** * *
116880 TTTTAAAGCCCACACAAGTCGATAGTAACCCCTCTAAAGCCCACATAAGTTAGTGGCAACCC-CT
1 TCTCAAAGCCCACACAAGTCGGT-GGCACCCCTTTAAAGCCCACACAAGTTAGTGGCAACCCTC-
* *
116944 TTTATAGCCCATACAAGTCGGTGGCAACCCC
64 TTTAAAGCCCACACAAGTCGGTGGCAACCCC
* * *
116975 T-TCTAAAGCCCACACAAGTCGGTGGCAACTCTTCTCAAAGCCCACACAAG-TCGCTGGCAACCC
1 TCTC-AAAGCCCACACAAGTCGGTGGCACCCCTT-T-AAAGCCCACACAAGTTAG-TGGCAACCC
* * * * * * *
117038 -CTCTCAACGCCTACAAAAGTTGGTAGCAACCCT
62 TCT-TTAAAGCCCACACAAGTCGGTGGCAACCCC
* * * *
117071 TCTCTAAAACCTACATAAGTCGGTGGCAACCCTTCT-AAGCCCA
1 TCTC-AAAGCCCACACAAGTCGGTGGCACCCCTT-TAAAGCCCA
117114 ATGTTATTGG
Statistics
Matches: 432, Mismatches: 66, Indels: 39
0.80 0.12 0.07
Matches are distributed among these distances:
92 8 0.02
93 46 0.11
94 52 0.12
95 211 0.49
96 85 0.20
97 30 0.07
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (94 bp):
TCTCAAAGCCCACACAAGTCGGTGGCACCCCTTTAAAGCCCACACAAGTTAGTGGCAACCCTCTT
TAAAGCCCACACAAGTCGGTGGCAACCCC
Found at i:117241 original size:52 final size:52
Alignment explanation
Indices: 117179--117462 Score: 235
Period size: 52 Copynumber: 5.3 Consensus size: 52
117169 TCCGATATCG
* *
117179 CTGGCCTTGAATCATCATATTGGCACCTTTACCATTTTTAAGCCCAATGCCA
1 CTGGCCTTGAATCAACATATTGGCACCTTTACCATTTTTAAGCCCAATGTCA
* * * * * *
117231 TTGGCCTTGAATTAACACATTGGCATTCTTTTCATCCTTATCATCTTTAAGTCTAATGTCA
1 CTGGCCTTGAATCAACATATTGGCA--CCTTT-A-CC--AT--T-TTTAAGCCCAATGTCA
* * * * * ** ** ** * *
117292 CTGACCTTGAATCAGCACATTGGAACCTTTTTCTTTTTTTAAATCTGATATCG
1 CTGGCCTTGAATCAACATATTGGCACC-TTTACCATTTTTAAGCCCAATGTCA
* * *
117345 CTAGCCTTGAATCAGCATATTGGCACCTTTACCATTTTTAAGCCCAATGTCG
1 CTGGCCTTGAATCAACATATTGGCACCTTTACCATTTTTAAGCCCAATGTCA
* * *
117397 CTGGCCCTAAATCAACATATTGGCACCATTACCATTTTTAAGCCCAATGTCA
1 CTGGCCTTGAATCAACATATTGGCACCTTTACCATTTTTAAGCCCAATGTCA
117449 CTGGCCTTGAATCA
1 CTGGCCTTGAATCA
117463 GCACATTAGC
Statistics
Matches: 181, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
52 96 0.53
53 35 0.19
54 5 0.03
55 1 0.01
56 3 0.02
58 3 0.02
59 1 0.01
60 4 0.02
61 33 0.18
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (52 bp):
CTGGCCTTGAATCAACATATTGGCACCTTTACCATTTTTAAGCCCAATGTCA
Found at i:117330 original size:113 final size:110
Alignment explanation
Indices: 117106--117321 Score: 254
Period size: 113 Copynumber: 1.9 Consensus size: 110
117096 GCAACCCTTC
** * *
117106 TAAGCCCAATGTTATTGGCCTTGAATCAACACATTGGCACTTGTCAAATCTTCTTTCTTTAAGTC
1 TAAGCCCAATGCCATTGGCCTTGAATCAACACATTGGCACTTGTC-AATCTTATATCTTTAAGTC
* * * * * *
117171 CGATATCGCTGGCCTTGAATCATCATATTGGCACCTTTACCATTTT
65 CAATATCACTGACCTTGAATCAGCACATTGGAACCTTTACCATTTT
* *
117217 TAAGCCCAATGCCATTGGCCTTGAATTAACACATTGGCATTCTTTTC-ATCCTTATCATCTTTAA
1 TAAGCCCAATGCCATTGGCCTTGAATCAACACATTGGCA--CTTGTCAAT-CTTAT-ATCTTTAA
* *
117281 GTCTAATGTCACTGACCTTGAATCAGCACATTGGAACCTTT
62 GTCCAATATCACTGACCTTGAATCAGCACATTGGAACCTTT
117322 TTCTTTTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
111 38 0.44
112 4 0.05
113 45 0.52
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (110 bp):
TAAGCCCAATGCCATTGGCCTTGAATCAACACATTGGCACTTGTCAATCTTATATCTTTAAGTCC
AATATCACTGACCTTGAATCAGCACATTGGAACCTTTACCATTTT
Found at i:117383 original size:53 final size:53
Alignment explanation
Indices: 117296--117700 Score: 158
Period size: 52 Copynumber: 7.6 Consensus size: 53
117286 ATGTCACTGA
* * ** * * **
117296 CCTTGAATCAGCACATTGGAACCTTTTTCTTTTTTTAAATCTGATATCGCTAG
1 CCTTGAATCAGCATATTGGCACCTTTACCATTTTTTAAACCCAATATCGCTAG
* * *
117349 CCTTGAATCAGCATATTGGCACCTTTACCA-TTTTTAAGCCCAATGTCGCTGG
1 CCTTGAATCAGCATATTGGCACCTTTACCATTTTTTAAACCCAATATCGCTAG
* * * * * * * *
117401 CCCTAAATCAACATATTGGCACCATTACCA-TTTTTAAGCCCAATGTCACTGG
1 CCTTGAATCAGCATATTGGCACCTTTACCATTTTTTAAACCCAATATCGCTAG
* * ** * ** * *
117453 CCTTGAATCAGCACATTAGCATTTTTCTTACCCTTATCATCTTTAAGTCCAATGTCGCTGG
1 CCTTGAATCAGCATATTGGCA--CCT-TTA-CC--AT--TTTTTAAACCCAATATCGCTAG
* * ** * * * *
117514 CCTTAAATCAGCACATTAACACATTT---TTTTTCTTAAGCCCAATATCGTTAG
1 CCTTGAATCAGCATATTGGCACCTTTACCATTTT-TTAAACCCAATATCGCTAG
* * ** * * * *
117565 CCTTGAATCAGCATATTAGTACCTTTGTCA-TCTTTAAATCCAATGTCGCTGG
1 CCTTGAATCAGCATATTGGCACCTTTACCATTTTTTAAACCCAATATCGCTAG
* * * * ** * ** *
117617 CCTTGAATTAGCACAGTGGCACCATTGTCA-TTGTTAAGTCCAATATCACTAG
1 CCTTGAATCAGCATATTGGCACCTTTACCATTTTTTAAACCCAATATCGCTAG
* * * *
117669 CCTTGAATTAGCATATTAGCATCTTTATCATT
1 CCTTGAATCAGCATATTGGCACCTTTACCATT
117701 CTTCTCATCT
Statistics
Matches: 271, Mismatches: 67, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
50 2 0.01
51 36 0.13
52 158 0.58
53 28 0.10
55 3 0.01
56 2 0.01
58 3 0.01
59 1 0.00
61 38 0.14
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (53 bp):
CCTTGAATCAGCATATTGGCACCTTTACCATTTTTTAAACCCAATATCGCTAG
Found at i:117575 original size:112 final size:113
Alignment explanation
Indices: 117381--117583 Score: 257
Period size: 112 Copynumber: 1.8 Consensus size: 113
117371 CTTTACCATT
* ** *
117381 TTTAAGCCCAATGTCGCTGGCCCTAAATCAACATATTGGCACCATTACCATTTTTAAGCCCAATG
1 TTTAAGCCCAATGTCGCTGGCCCTAAATCAACACATTAACACCATTACCATTTTTAAGCCCAATA
*
117446 TCACTGGCCTTGAATCAGCACATTAGCATTTTTCTTACCCTTATCATC
66 TCACTAGCCTTGAATCAGCACATTAGCATTTTTCTTACCCTTATCATC
* * * ***
117494 TTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTAACA-CATT-TTTTTTCTTAAGCCCAAT
1 TTTAAGCCCAATGTCGCTGGCCCTAAATCAACACATTAACACCATTACCATTT-TTAAGCCCAAT
** *
117557 ATCGTTAGCCTTGAATCAGCATATTAG
65 ATCACTAGCCTTGAATCAGCACATTAG
117584 TACCTTTGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
111 3 0.04
112 37 0.49
113 35 0.47
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (113 bp):
TTTAAGCCCAATGTCGCTGGCCCTAAATCAACACATTAACACCATTACCATTTTTAAGCCCAATA
TCACTAGCCTTGAATCAGCACATTAGCATTTTTCTTACCCTTATCATC
Found at i:117607 original size:103 final size:104
Alignment explanation
Indices: 117489--117687 Score: 265
Period size: 104 Copynumber: 1.9 Consensus size: 104
117479 CTTACCCTTA
* * * **
117489 TCATCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTAACA-CATTTTTTTTCTTAAGCC
1 TCATCTTTAAATCCAATGTCGCTGGCCTTAAATCAGCACAGTAACACCATTGTCATTCTTAAGCC
**
117553 CAATATCGTTAGCCTTGAATCAGCATATTAGTACCTTTG
66 CAATATCACTAGCCTTGAATCAGCATATTAGTACCTTTG
* * ** * *
117592 TCATCTTTAAATCCAATGTCGCTGGCCTTGAATTAGCACAGTGGCACCATTGTCATTGTTAAGTC
1 TCATCTTTAAATCCAATGTCGCTGGCCTTAAATCAGCACAGTAACACCATTGTCATTCTTAAGCC
*
117657 CAATATCACTAGCCTTGAATTAGCATATTAG
66 CAATATCACTAGCCTTGAATCAGCATATTAG
117688 CATCTTTATC
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
103 40 0.49
104 41 0.51
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (104 bp):
TCATCTTTAAATCCAATGTCGCTGGCCTTAAATCAGCACAGTAACACCATTGTCATTCTTAAGCC
CAATATCACTAGCCTTGAATCAGCATATTAGTACCTTTG
Found at i:117620 original size:52 final size:52
Alignment explanation
Indices: 117489--117699 Score: 183
Period size: 52 Copynumber: 4.1 Consensus size: 52
117479 CTTACCCTTA
* * * * * *
117489 TCATCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTAACACATTTT
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTTG
** * * * *
117541 TTTTC-TTAAGCCCAATATCGTTAGCCTTGAATCAGCATATTAGTACCTTTG
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTTG
* * * * * * *
117592 TCATCTTTAAATCCAATGTCGCTGGCCTTGAATTAGCACAGTGGCACCATTG
1 TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTTG
* * * * *
117644 TCAT-TGTTAAGTCCAATATCACTAGCCTTGAATTAGCATATTAGCATCTTTA
1 TCATCT-TTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTTG
117696 TCAT
1 TCAT
117700 TCTTCTCATC
Statistics
Matches: 122, Mismatches: 35, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
51 40 0.33
52 82 0.67
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTTG
Found at i:117674 original size:216 final size:217
Alignment explanation
Indices: 117161--117715 Score: 641
Period size: 216 Copynumber: 2.6 Consensus size: 217
117151 AAATCTTCTT
* * * *
117161 TCTTTAAGTCCGATATCGCTGGCCTTGAATCATCATATTGGCACCTTTACCATTTTTAAGCCCAA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCATTACCATTTTTAAGCCCAA
* * * * * *
117226 TGCCATTGGCCTTGAATTAACACATTGGCATTCTTTTCATCCTTATCATCTTTAAGTCTAATGTC
66 TGTCACTGGCCTTGAATTAGCACATTAGCATTCTTTTCACCCTTATCATCTTTAAGTCCAATGTC
* * * * **
117291 ACTGACCTTGAATCAGCACATTGGAACCTTTTTCTTTTTTTAAATCTGATATCGCTAGCCTTGAA
131 ACTGACCTTAAATCAGCACATT-GAACCATTTTCTTTTCTTAAACCCAATATCGCTAGCCTTGAA
*
117356 TCAGCATATTGGCACCTTTACCA
195 TCAGCATATTAGCACCTTTACCA
* * * *
117379 TTTTTAAGCCCAATGTCGCTGGCCCTAAATCAACATATTGGCACCATTACCATTTTTAAGCCCAA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCATTACCATTTTTAAGCCCAA
* *
117444 TGTCACTGGCCTTGAATCAGCACATTAGCATT-TTTCTTACCCTTATCATCTTTAAGTCCAATGT
66 TGTCACTGGCCTTGAATTAGCACATTAGCATTCTTT-TCACCCTTATCATCTTTAAGTCCAATGT
* * * *
117508 CGCTGGCCTTAAATCAGCACATT-AACACATTTT-TTTTCTTAAGCCCAATATCGTTAGCCTTGA
130 CACTGACCTTAAATCAGCACATTGAAC-CATTTTCTTTTCTTAAACCCAATATCGCTAGCCTTGA
* **
117571 ATCAGCATATTAGTACCTTTGTCA
194 ATCAGCATATTAGCACCTTTACCA
* * * * * ** * *
117595 TCTTTAAATCCAATGTCGCTGGCCTTGAATTAGCACAGTGGCACCATTGTCATTGTTAAGTCCAA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCATTACCATTTTTAAGCCCAA
* * * ** *
117660 TATCACTAGCCTTGAATTAGCATATTAGCA-TCTTTATCATTCTTCTCATCTTTAAG
66 TGTCACTGGCCTTGAATTAGCACATTAGCATTCTTT-TCACCCTTATCATCTTTAAG
117716 CCTGATACCT
Statistics
Matches: 282, Mismatches: 52, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
215 1 0.00
216 144 0.51
217 8 0.03
218 129 0.46
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (217 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCACCATTACCATTTTTAAGCCCAA
TGTCACTGGCCTTGAATTAGCACATTAGCATTCTTTTCACCCTTATCATCTTTAAGTCCAATGTC
ACTGACCTTAAATCAGCACATTGAACCATTTTCTTTTCTTAAACCCAATATCGCTAGCCTTGAAT
CAGCATATTAGCACCTTTACCA
Found at i:118506 original size:21 final size:20
Alignment explanation
Indices: 118482--118527 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
118472 TTCTACGATC
* *
118482 TGTATCAATACAATTAGTGAA
1 TGTATCAATAC-ATAAATGAA
*
118503 TGTATCGATACATAAATGAA
1 TGTATCAATACATAAATGAA
118523 TGTAT
1 TGTAT
118528 GGATACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCAATACATAAATGAA
Found at i:123476 original size:7 final size:7
Alignment explanation
Indices: 123466--123497 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
123456 AAAAAATAAA
123466 AAAATTT
1 AAAATTT
123473 AAAATTT
1 AAAATTT
123480 AAAATTT
1 AAAATTT
123487 AAAATTT
1 AAAATTT
123494 AAAA
1 AAAA
123498 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:123476 original size:17 final size:17
Alignment explanation
Indices: 123416--123476 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
123406 TGTCTAATAA
123416 TTAAAAAATAAAAATAAT
1 TTAAAAAATAAAAA-AAT
* *
123434 TAAGAAAAAATTAAAAAAAG
1 T--TAAAAAA-TAAAAAAAT
**
123454 CCAAAAAATAAAAAAAT
1 TTAAAAAATAAAAAAAT
123471 TTAAAA
1 TTAAAA
123477 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
17 12 0.36
18 7 0.21
20 8 0.24
21 6 0.18
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
TTAAAAAATAAAAAAAT
Found at i:123504 original size:21 final size:21
Alignment explanation
Indices: 123466--123505 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
123456 AAAAAATAAA
* *
123466 AAAATTTAAAATTTAAAATTT
1 AAAATTTAAAAATAAAAATTT
123487 AAAATTTAAAAATAAAAAT
1 AAAATTTAAAAATAAAAAT
123506 AATATAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTTAAAAATAAAAATTT
Found at i:124063 original size:2 final size:2
Alignment explanation
Indices: 124056--124101 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
124046 GATATGTATC
*
124056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124098 AT AT
1 AT AT
124102 TGTTGAACCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124420 original size:21 final size:21
Alignment explanation
Indices: 124394--124433 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
124384 AAATATAATT
124394 ATGATAATATAAAAATATACA
1 ATGATAATATAAAAATATACA
* *
124415 ATGATAATATGAATATATA
1 ATGATAATATAAAAATATA
124434 AATTGCCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (21 bp):
ATGATAATATAAAAATATACA
Found at i:127078 original size:15 final size:15
Alignment explanation
Indices: 127058--127099 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
127048 CTGCGTTGAT
127058 TGCAATGGTTGTCAA
1 TGCAATGGTTGTCAA
127073 TGCAATGGTTGTCAA
1 TGCAATGGTTGTCAA
*
127088 TGTAATGGTTGT
1 TGCAATGGTTGT
127100 ACTGACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (15 bp):
TGCAATGGTTGTCAA
Found at i:127351 original size:36 final size:36
Alignment explanation
Indices: 127297--127386 Score: 114
Period size: 35 Copynumber: 2.5 Consensus size: 36
127287 ATATTGTCAT
*
127297 AATAAAAAAAATAATTTATTATTATTATT-ATTAAA
1 AATATAAAAAATAATTTATTATTATTATTAATTAAA
* *
127332 AATATAAAAAATAATTTTATTTTTATTTTTAATTAAA
1 AATATAAAAAATAA-TTTATTATTATTATTAATTAAA
127369 AA-AT-AAAAATAAATTTAT
1 AATATAAAAAAT-AATTTAT
127387 AACAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
35 24 0.49
36 17 0.35
37 8 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (36 bp):
AATATAAAAAATAATTTATTATTATTATTAATTAAA
Found at i:129995 original size:24 final size:25
Alignment explanation
Indices: 129965--130015 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
129955 TTCATATTAA
129965 ATAAATTTAATTAAAAAA-TAAAAC
1 ATAAATTTAATTAAAAAAGTAAAAC
*
129989 ATAAATTTAATTAAAAAAGTGAAAC
1 ATAAATTTAATTAAAAAAGTAAAAC
130014 AT
1 AT
130016 TTTTTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
ATAAATTTAATTAAAAAAGTAAAAC
Found at i:130697 original size:14 final size:15
Alignment explanation
Indices: 130678--130706 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
130668 ATGTTTATTA
130678 TTTTAAAT-TATTTT
1 TTTTAAATATATTTT
130692 TTTTAAATATATTTT
1 TTTTAAATATATTTT
130707 AAGAGGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAAATATATTTT
Found at i:133570 original size:2 final size:2
Alignment explanation
Indices: 133563--133611 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
133553 TTGCAATGCT
133563 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
133605 TC TC TC T
1 TC TC TC T
133612 TTTTATAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:138241 original size:19 final size:18
Alignment explanation
Indices: 138217--138314 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
138207 TAGCTTAAAT
138217 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
138236 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
138249 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
138268 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
138281 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
138301 TGCATCGATACAAA
1 TGTATCGATACAAA
138315 TCGTTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.37
20 12 0.18
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:138254 original size:13 final size:13
Alignment explanation
Indices: 138236--138292 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
138226 ACAAAACTTA
138236 TGTATCGATACAT
1 TGTATCGATACAT
138249 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
138267 ATGTATCGATACAT
1 -TGTATCGATACAT
138281 TGTATCGATACA
1 TGTATCGATACA
138293 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:138256 original size:32 final size:32
Alignment explanation
Indices: 138215--138312 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
138205 AGTAGCTTAA
*
138215 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
138247 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
138279 ATTGTATCGATACAACACTTTATGCATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
138312 A
1 A
138313 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.78
33 14 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:141275 original size:19 final size:20
Alignment explanation
Indices: 141251--141293 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
141241 TCTATAATGT
141251 AAATAATTATATA-TTTAAA
1 AAATAATTATATACTTTAAA
*
141270 AAATAATTATGTACTTTAAA
1 AAATAATTATATACTTTAAA
141290 AAAT
1 AAAT
141294 TATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATAATTATATACTTTAAA
Found at i:141335 original size:24 final size:24
Alignment explanation
Indices: 141288--141344 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
141278 ATGTACTTTA
141288 AAAAATTATTTTAAATTTATACTT-
1 AAAAATTATTTT-AATTTATACTTG
141312 AAAAATTATTTGT-ATTTATAACTTG
1 AAAAATTATTT-TAATTTAT-ACTTG
141337 AATAAATT
1 AA-AAATT
141345 TAAAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.21
24 15 0.52
25 3 0.10
26 5 0.17
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
AAAAATTATTTTAATTTATACTTG
Found at i:142339 original size:2 final size:2
Alignment explanation
Indices: 142332--142368 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
142322 AGATGGAAAC
142332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
142369 AGATGATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:142562 original size:15 final size:16
Alignment explanation
Indices: 142542--142574 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
142532 TATTTAATTA
142542 TTTAT-AATATAAAAT
1 TTTATAAATATAAAAT
*
142557 TTTATAAATTTAAAAT
1 TTTATAAATATAAAAT
142573 TT
1 TT
142575 AAATTCTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTATAAATATAAAAT
Found at i:142624 original size:2 final size:2
Alignment explanation
Indices: 142619--142644 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
142609 TTTCTCATAA
142619 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
142645 TGGGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:146513 original size:14 final size:14
Alignment explanation
Indices: 146496--146525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
146486 TAATAATCTA
146496 ATATGTATAAATAT
1 ATATGTATAAATAT
*
146510 ATATGTATATATAT
1 ATATGTATAAATAT
146524 AT
1 AT
146526 CTGAAGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
ATATGTATAAATAT
Found at i:149880 original size:16 final size:17
Alignment explanation
Indices: 149859--149890 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
149849 TTGATTGACA
149859 ATTTAATTT-TATTTTC
1 ATTTAATTTCTATTTTC
149875 ATTTAATTTCTATTTT
1 ATTTAATTTCTATTTT
149891 GAACGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTAATTTCTATTTTC
Found at i:152429 original size:32 final size:33
Alignment explanation
Indices: 152388--152450 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
152378 AGCCAAACTT
* **
152388 GTATCGATACAC-CAAGTATGTATCGATACAAG
1 GTATCGATACACAAAAAAATGTATCGATACAAG
152420 GTATCGATACACAAAAAAATGTATCGATACA
1 GTATCGATACACAAAAAAATGTATCGATACA
152451 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (33 bp):
GTATCGATACACAAAAAAATGTATCGATACAAG
Found at i:154134 original size:78 final size:79
Alignment explanation
Indices: 154024--154229 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 79
154014 GAGATAATAA
* * * * * * * *
154024 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTAGAGTATCCCCGGTTGTGAGAAATCGAT-G
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
*
154088 CTTAGAAAAAAAAT
66 CTTAGAAAAAAAAC
* * *
154102 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
* * * * *
154167 TTTGGGAATAAAGC
66 CTTAGAAAAAAAAC
* *
154181 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
154230 GAAATAACGA
Statistics
Matches: 106, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 53 0.50
79 53 0.50
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAG
CTTAGAAAAAAAAC
Found at i:154221 original size:28 final size:28
Alignment explanation
Indices: 154181--154252 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
154171 GGAATAAAGC
** *
154181 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
154209 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
154237 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
154253 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:154244 original size:107 final size:108
Alignment explanation
Indices: 154102--154306 Score: 254
Period size: 107 Copynumber: 1.9 Consensus size: 108
154092 GAAAAAAAAT
* *
154102 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-
1 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* * *
154166 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
* * * * ***
154209 CGGGGTTGGAGTAT-CCC-CGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGT
1 CGGGATTGGAGTATCCCCTCGA--AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAAT
*
154272 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
154307 GATTAAAGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
106 3 0.04
107 47 0.57
108 29 0.35
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
Found at i:154310 original size:52 final size:51
Alignment explanation
Indices: 154241--154408 Score: 144
Period size: 52 Copynumber: 3.2 Consensus size: 51
154231 AAATAACGAG
*
154241 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAA-CGGA
** * ** * **
154293 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAACGGA
* * * *
154344 GATTGGAGTATCCCCGATTGTGGAGAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 G-TTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAA-CGGA
154397 GTTGGAGTATCC
1 GTTGGAGTATCC
154409 TCTCGGAAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
51 3 0.03
52 71 0.79
53 16 0.18
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAACGGA
Found at i:154416 original size:212 final size:212
Alignment explanation
Indices: 154135--154523 Score: 586
Period size: 212 Copynumber: 1.8 Consensus size: 212
154125 AATAACGGGG
* * *
154135 TTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCAATTATGAGAAATCAATATTTTGCGAATAAAACCGGAGTTGGAGTATCCCCT
* *
154200 CGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAA-
66 CGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATTGTGAAG
*
154264 AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTT
130 AAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTAAAGGAAAATTGGCGTT
154328 TTGAAAATAAAACCAAGA
195 TTGAAAATAAAACCAAGA
* * * * * *
154346 TTGGAGTATCCCCGATTGTGGAGAAATTAGTGTTTTAGCG-ATAAAACCGGAGTTGGAGTATCCT
1 TTGGAGTATCCCCAATTAT-GAGAAATCAATATTTT-GCGAATAAAACCGGAGTTGGAGTATCCC
* *
154410 CTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAA
64 CTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTGAA
* *
154475 GAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAATATCCTCGATT
129 GAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATT
154524 GTGGAGAATT
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 46 0.29
212 74 0.47
213 38 0.24
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (212 bp):
TTGGAGTATCCCCAATTATGAGAAATCAATATTTTGCGAATAAAACCGGAGTTGGAGTATCCCCT
CGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTGAAGA
AATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAATATCCCCGATTAAAGGAAAATTGGCGTTT
TGAAAATAAAACCAAGA
Found at i:154478 original size:107 final size:107
Alignment explanation
Indices: 154127--154519 Score: 329
Period size: 107 Copynumber: 3.7 Consensus size: 107
154117 CCCTCGAAAA
* * * * * * * *
154127 TAACGGGGTTGGAGTATCCCCAATTATG-AGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGA
1 TAACGAGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTATTTTTGGAATAAAACCGGAGTTGGA
* * *
154191 GTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 GTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * *
154234 TAACGAGGTTGGAGTATCCTCGATTGTGAA-AAATTGGTATTTTTGGAAATAAAATCGGAGTTGG
1 TAACGAGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTATTTTTGG-AATAAAACCGGAGTTGG
* * ** * ** **
154298 AGTATCC-C-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 AGTATCCTCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * * *
154336 AAAACCAAGATTGGAGTATCCCCGATTGTGGAGAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGAGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTATTTTTG-GAATAAAACCGGAGTT
154400 GGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
63 GGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * *
154445 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTG
1 TAACGAGGTTGGAGTATCCCCGATTGTGAAGAAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
*
154510 GAATATCCTC
64 GAGTATCCTC
154520 GATTGTGGAG
Statistics
Matches: 219, Mismatches: 49, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 51 0.23
105 15 0.07
106 15 0.07
107 71 0.32
108 35 0.16
109 27 0.12
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (107 bp):
TAACGAGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTATTTTTGGAATAAAACCGGAGTTGGA
GTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:156912 original size:13 final size:13
Alignment explanation
Indices: 156894--156919 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
156884 ACAAAGATCC
156894 ATGTATCGATACA
1 ATGTATCGATACA
156907 ATGTATCGATACA
1 ATGTATCGATACA
156920 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:158584 original size:21 final size:21
Alignment explanation
Indices: 158558--158611 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
158548 CTCTTATACT
158558 TTTGATGAATTACAAGAAGCA
1 TTTGATGAATTACAAGAAGCA
158579 TTTGATGAATTACAAGAAGCA
1 TTTGATGAATTACAAGAAGCA
158600 TTTGATGAATTA
1 TTTGATGAATTA
158612 GTATTAGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGATGAATTACAAGAAGCA
Found at i:162811 original size:13 final size:13
Alignment explanation
Indices: 162791--162828 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
162781 CATTTTACTT
*
162791 TGTATCGATACAT
1 TGTATCGATACAC
*
162804 TTTATCGATACAC
1 TGTATCGATACAC
162817 TGTATCGATACA
1 TGTATCGATACA
162829 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAC
Done.