Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010010.1 Kokia drynarioides strain JFW-HI SEQ_124771, 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: 162641
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:664 original size:59 final size:59
Alignment explanation
Indices: 597--714 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
587 GGTACAAAAA
*
597 TAATAATATGATGGGGATATTATTTTCATAATTAATTATTTTTTATATTATATTTTGGT
1 TAATAATATGATGGGGATATTATTTTAATAATTAATTATTTTTTATATTATATTTTGGT
*
656 TAATAATATGATGGTGATATTATTTTAATAATTAATTATTTTTTATATTATATTTTGGT
1 TAATAATATGATGGGGATATTATTTTAATAATTAATTATTTTTTATATTATATTTTGGT
715 AATTAATTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.55
Consensus pattern (59 bp):
TAATAATATGATGGGGATATTATTTTAATAATTAATTATTTTTTATATTATATTTTGGT
Found at i:710 original size:30 final size:30
Alignment explanation
Indices: 617--723 Score: 96
Period size: 30 Copynumber: 3.6 Consensus size: 30
607 ATGGGGATAT
*
617 TATTTTCATAATTAATTATTTTTTATATTA
1 TATTTTGATAATTAATTATTTTTTATATTA
* ** *
647 TATTTTGGTTAA-TAA-TATGATGGTGATA-T-
1 TATTTT-GATAATTAATTAT--TTTTTATATTA
*
676 TATTTTAATAATTAATTATTTTTTATATTA
1 TATTTTGATAATTAATTATTTTTTATATTA
*
706 TATTTTGGTAATTAATTA
1 TATTTTGATAATTAATTA
724 GCTAAGTTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
28 8 0.14
29 13 0.22
30 29 0.50
31 8 0.14
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (30 bp):
TATTTTGATAATTAATTATTTTTTATATTA
Found at i:956 original size:37 final size:37
Alignment explanation
Indices: 915--991 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
905 GCATTTGGAT
915 CACTTTGATTCGAACAATAAAGAGCGATCATTGTCTC
1 CACTTTGATTCGAACAATAAAGAGCGATCATTGTCTC
952 CACTTTGATTCGAACAATAAAGAGCGATCATTGTCTC
1 CACTTTGATTCGAACAATAAAGAGCGATCATTGTCTC
989 CAC
1 CAC
992 GTCTTCGTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (37 bp):
CACTTTGATTCGAACAATAAAGAGCGATCATTGTCTC
Found at i:1356 original size:4 final size:4
Alignment explanation
Indices: 1347--1420 Score: 96
Period size: 4 Copynumber: 18.2 Consensus size: 4
1337 AACACATTAC
* * *
1347 CTTT CTTT CTTT C-TT CTTT CTTT CCTCT CCTT CTTC CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT
1395 CTTT CCTTT CTTT CTTT CTTT CTTT C
1 CTTT -CTTT CTTT CTTT CTTT CTTT C
1421 CCGTTTATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
3 3 0.05
4 51 0.84
5 7 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:1394 original size:25 final size:26
Alignment explanation
Indices: 1351--1421 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
1341 CATTACCTTT
*
1351 CTTTCTTTC-TTCTTTCTTTCCTCTC
1 CTTTCTTCCTTTCTTTCTTTCCTCTC
*
1376 C-TTCTTCCTTTCTTTCTTT-CTTTC
1 CTTTCTTCCTTTCTTTCTTTCCTCTC
*
1400 CTTTCTTTCTTTCTTTCTTTCC
1 CTTTCTTCCTTTCTTTCTTTCC
1422 CGTTTATTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
24 11 0.28
25 28 0.70
26 1 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (26 bp):
CTTTCTTCCTTTCTTTCTTTCCTCTC
Found at i:4394 original size:25 final size:26
Alignment explanation
Indices: 4355--4404 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
4345 GTGCGCAACT
*
4355 TTAAAATTTAATTAT-TTTTTAAATA
1 TTAAAATATAATTATATTTTTAAATA
*
4380 TTAAAATATATTTATAATTTTTAAA
1 TTAAAATATAATTAT-ATTTTTAAA
4405 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
27 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTAAAATATAATTATATTTTTAAATA
Found at i:4440 original size:29 final size:28
Alignment explanation
Indices: 4368--4444 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 28
4358 AAATTTAATT
*
4368 ATTTTTTAAATATTAAAATATATTTATA
1 ATTTTTTAAATTTTAAAATATATTTATA
* * *
4396 ATTTTTAAAAAATTTTAAATTAT-TTTTTGA
1 ATTTTT--TAAATTTTAAAATATATTTAT-A
4426 ATTTTTTAAACTTTTAAAA
1 ATTTTTTAAA-TTTTAAAA
4445 ATCAAATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 9 0.23
29 11 0.28
30 19 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
ATTTTTTAAATTTTAAAATATATTTATA
Found at i:4999 original size:22 final size:23
Alignment explanation
Indices: 4974--5027 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
4964 CCCCTTCCAT
4974 CCCACCT-CTCATCTATCCCAAA
1 CCCACCTCCTCATCTATCCCAAA
*
4996 CCCACCCTCCCCTCATCTGTCCCAAA
1 CCCA-CCT--CCTCATCTATCCCAAA
5022 CCCACC
1 CCCACC
5028 CTCCCCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
25 2 0.07
26 18 0.67
ACGTcount: A:0.22, C:0.57, G:0.02, T:0.19
Consensus pattern (23 bp):
CCCACCTCCTCATCTATCCCAAA
Found at i:5010 original size:26 final size:26
Alignment explanation
Indices: 4981--5033 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
4971 CATCCCACCT
4981 CTCATCTATCCCAAACCCACCCTCCC
1 CTCATCTATCCCAAACCCACCCTCCC
*
5007 CTCATCTGTCCCAAACCCACCCTCCC
1 CTCATCTATCCCAAACCCACCCTCCC
5033 C
1 C
5034 CAAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.58, G:0.02, T:0.19
Consensus pattern (26 bp):
CTCATCTATCCCAAACCCACCCTCCC
Found at i:13180 original size:24 final size:24
Alignment explanation
Indices: 13148--13203 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
13138 TGTATGGTTA
13148 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
13172 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
13196 TCCTCTTG
1 TCTTCTTG
13204 AGAACTCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:16198 original size:24 final size:24
Alignment explanation
Indices: 16166--16221 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
16156 TGTATGGTTA
16166 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
16190 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
16214 TCCTCTTG
1 TCTTCTTG
16222 AGAACTCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:25731 original size:20 final size:20
Alignment explanation
Indices: 25708--25746 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25698 AATTACATTT
25708 TTTCT-TTTTCTTTTCTCAAA
1 TTTCTCTTTT-TTTTCTCAAA
*
25728 TTTCTCTTTTTTTTTTCAA
1 TTTCTCTTTTTTTTCTCAA
25747 TTCAATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTCTCTTTTTTTTCTCAAA
Found at i:26723 original size:12 final size:12
Alignment explanation
Indices: 26706--26829 Score: 107
Period size: 12 Copynumber: 10.8 Consensus size: 12
26696 AATGCATAAT
*
26706 AAAATAAAATTA
1 AAAATAAAACTA
*
26718 AAAAT-ACACTA
1 AAAATAAAACTA
*
26729 AAACTAAAACTA
1 AAAATAAAACTA
*
26741 AAACTAAAACTA
1 AAAATAAAACTA
* *
26753 AAACTAAAAATA
1 AAAATAAAACTA
26765 AAAAT-AAACTA
1 AAAATAAAACTA
*
26776 AAAAT-AAAGTA
1 AAAATAAAACTA
26787 AAAA-AAAA-TA
1 AAAATAAAACTA
26797 AAAA-AAAATCTA
1 AAAATAAAA-CTA
**
26809 AATCTAAAACTA
1 AAAATAAAACTA
*
26821 AAACTAAAA
1 AAAATAAAA
26830 ATGAAAATGA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
10 10 0.10
11 30 0.31
12 52 0.54
13 4 0.04
ACGTcount: A:0.72, C:0.10, G:0.01, T:0.18
Consensus pattern (12 bp):
AAAATAAAACTA
Found at i:26748 original size:18 final size:18
Alignment explanation
Indices: 26727--26836 Score: 113
Period size: 18 Copynumber: 6.3 Consensus size: 18
26717 AAAAATACAC
*
26727 TAAAACTAAAACTAAAAC
1 TAAAACTAAAACTAAAAA
26745 TAAAACTAAAACTAAAAA
1 TAAAACTAAAACTAAAAA
*
26763 TAAAAAT-AAACTAAAAA
1 TAAAACTAAAACTAAAAA
*
26780 T-AAAGTAAAA--AAAAA
1 TAAAACTAAAACTAAAAA
* **
26795 TAAAA-AAAAATCTAAATC
1 TAAAACTAAAA-CTAAAAA
26813 TAAAACTAAAACTAAAAA
1 TAAAACTAAAACTAAAAA
26831 TGAAAA
1 T-AAAA
26837 TGAAAATGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
15 10 0.13
16 7 0.09
17 14 0.18
18 37 0.49
19 8 0.11
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (18 bp):
TAAAACTAAAACTAAAAA
Found at i:26810 original size:22 final size:22
Alignment explanation
Indices: 26703--26810 Score: 76
Period size: 23 Copynumber: 4.8 Consensus size: 22
26693 AATAATGCAT
* * *
26703 AATAAAATAAAATTAAAAATAC
1 AATAAAAAAAAACTAAAAATAA
* * *
26725 ACTAAAACTAAAACTAAAACTAA
1 AATAAAA-AAAAACTAAAAATAA
26748 AACTAAAACTAAAAA-TAAAAATAA
1 AA-TAAAA--AAAAACTAAAAATAA
* * *
26772 ACTAAAAATAAAGTAAAAA-AA
1 AATAAAAAAAAACTAAAAATAA
26793 AATAAAAAAAAATCTAAA
1 AATAAAAAAAAA-CTAAA
26811 TCTAAAACTA
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
21 16 0.24
22 16 0.24
23 18 0.26
24 14 0.21
25 4 0.06
ACGTcount: A:0.73, C:0.08, G:0.01, T:0.18
Consensus pattern (22 bp):
AATAAAAAAAAACTAAAAATAA
Found at i:26836 original size:7 final size:7
Alignment explanation
Indices: 26826--26891 Score: 86
Period size: 7 Copynumber: 9.7 Consensus size: 7
26816 AACTAAAACT
26826 AAAAATG
1 AAAAATG
26833 -AAAATG
1 AAAAATG
26839 -AAAATG
1 AAAAATG
26845 AAAAATG
1 AAAAATG
26852 AAAAAAATG
1 --AAAAATG
26861 AAAAATG
1 AAAAATG
26868 AAAAA--
1 AAAAATG
26873 AAAAATG
1 AAAAATG
26880 AAAAATG
1 AAAAATG
26887 AAAAA
1 AAAAA
26892 GGATATGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.09
6 12 0.22
7 30 0.56
9 7 0.13
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:26860 original size:16 final size:16
Alignment explanation
Indices: 26839--26891 Score: 79
Period size: 16 Copynumber: 3.1 Consensus size: 16
26829 AATGAAAATG
26839 AAAATGAAAAATGAAA
1 AAAATGAAAAATGAAA
26855 AAAATGAAAAATGAAAAAA
1 AAAATGAAAAATG---AAA
26874 AAAATGAAAAATGAAA
1 AAAATGAAAAATGAAA
26890 AA
1 AA
26892 GGATATGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 18 0.53
19 16 0.47
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAATGAAAAATGAAA
Found at i:26865 original size:74 final size:73
Alignment explanation
Indices: 26728--26878 Score: 173
Period size: 74 Copynumber: 2.1 Consensus size: 73
26718 AAAATACACT
* *
26728 AAAA-CTAAAACTAAAACTAAAACTAAAACTAAAAATAAAAATAAACTAAAAATAAAGTAAAAAA
1 AAAATCTAAAACTAAAACTAAAACTAAAAATAAAAATAAAAATAAAATAAAAATAAAGTAAAAAA
26792 AAATAAAAA
66 AAA-AAAAA
* * * * *
26801 AAAATCTAAATCTAAAACTAAAACTAAAAATGAAAATGAAAATGAAAAATGAAAA-AAA-TGAAA
1 AAAATCTAAAACTAAAACTAAAACTAAAAATAAAAATAAAAAT--AAAATAAAAATAAAGTAAAA
**
26864 AATGAAAAAA
64 AAAAAAAAAA
26874 AAAAT
1 AAAAT
26879 GAAAAATGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
73 14 0.21
74 41 0.62
75 3 0.05
76 8 0.12
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (73 bp):
AAAATCTAAAACTAAAACTAAAACTAAAAATAAAAATAAAAATAAAATAAAAATAAAGTAAAAAA
AAAAAAAA
Found at i:26885 original size:80 final size:79
Alignment explanation
Indices: 26703--26876 Score: 192
Period size: 80 Copynumber: 2.2 Consensus size: 79
26693 AATAATGCAT
* * * *
26703 AATAAAATAAAATTAAAAATACA-CTAAAACTAAAACTAAAACTAAAACTAAAACTAAAAATAAA
1 AATAAAA-AAAAATAAAAAAAAATCTAAAACTAAAACTAAAACTAAAAATAAAACTAAAAATAAA
26767 AATAAACTAAAAATAA
65 AATAAAC-AAAAATAA
* * *
26783 AGTAAAAAAAAATAAAAAAAAATCTAAATCTAAAACTAAAACTAAAAATGAAAA-TGAAAATGAA
1 AATAAAAAAAAATAAAAAAAAATCTAAAACTAAAACTAAAACTAAAAAT-AAAACTAAAAAT-AA
*
26847 AAATGAA-AAAAATGAAA
64 AAATAAACAAAAAT--AA
26864 AATGAAAAAAAAA
1 AAT-AAAAAAAAA
26877 ATGAAAAATG
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
79 18 0.23
80 36 0.46
81 16 0.20
82 9 0.11
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (79 bp):
AATAAAAAAAAATAAAAAAAAATCTAAAACTAAAACTAAAACTAAAAATAAAACTAAAAATAAAA
ATAAACAAAAATAA
Found at i:26899 original size:19 final size:19
Alignment explanation
Indices: 26826--26902 Score: 97
Period size: 19 Copynumber: 4.2 Consensus size: 19
26816 AACTAAAACT
*
26826 AAAAATGAAAATGAAAATG
1 AAAAATGAAAAAGAAAATG
26845 AAAAATG--AAA-AAAATG
1 AAAAATGAAAAAGAAAATG
*
26861 AAAAATGAAAAAAAAAATG
1 AAAAATGAAAAAGAAAATG
* *
26880 AAAAATGAAAAAGGATATG
1 AAAAATGAAAAAGAAAATG
26899 AAAA
1 AAAA
26903 TAAAAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
16 13 0.25
17 2 0.04
18 3 0.06
19 33 0.65
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.13
Consensus pattern (19 bp):
AAAAATGAAAAAGAAAATG
Found at i:26912 original size:6 final size:6
Alignment explanation
Indices: 26706--26891 Score: 89
Period size: 6 Copynumber: 30.7 Consensus size: 6
26696 AATGCATAAT
* * * * * * *
26706 AAAATA AAATTA AAAAT- ACACTA AAACTA AAACTA AAACTA AAACTA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
26753 AAACTA AAAATA AAAAT- AAACTA AAAAT- AAAGT- AAAA-A AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* ** * * * *
26797 AAAA-A AAATCTA AATCTA AAACTA AAACTA AAAATG AAAATG AAAATGA
1 AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A
26846 AAAATGAAA AAAATGA AAAATGA AAAA-A AAAATGA AAAATGA AAAA
1 AAAAT---A AAAAT-A AAAAT-A AAAATA AAAAT-A AAAAT-A AAAA
26892 GGATATGAAA
Statistics
Matches: 151, Mismatches: 18, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
5 27 0.18
6 86 0.57
7 32 0.21
9 6 0.04
ACGTcount: A:0.73, C:0.06, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:26914 original size:35 final size:34
Alignment explanation
Indices: 26839--26908 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
26829 AATGAAAATG
26839 AAAATGAAAAATGAAAAAAATGAAAAATGAAAAAA
1 AAAATGAAAAATGAAAAAAATGAAAAAT-AAAAAA
26874 AAAATGAAAAATGAAAAAGGATATG-AAAATAAAAA
1 AAAATGAAAAATGAAAAA--A-ATGAAAAATAAAAA
26909 TAAATGTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
35 18 0.56
36 5 0.16
37 6 0.19
38 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (34 bp):
AAAATGAAAAATGAAAAAAATGAAAAATAAAAAA
Found at i:33456 original size:25 final size:23
Alignment explanation
Indices: 33428--33473 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
33418 GTTGGATCCA
33428 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
33453 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
33474 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:34161 original size:80 final size:80
Alignment explanation
Indices: 34020--34175 Score: 226
Period size: 80 Copynumber: 1.9 Consensus size: 80
34010 GGTGCAAAAC
* *
34020 CGTTGGTTAATCCAACTAGAGCTAAGCTCACTTATCGCGGTTTATCCACTAGGCACTGGGTGCCA
1 CGTTAGTTAATCCAACTAGAGCTAAGCTCACTTATCGCGATTTATCCACTAGGCACTGGGTGCCA
34085 TGAATTGACGGATTT
66 TGAATTGACGGATTT
** * *
34100 CGTTAGTTAATCCAACTAGAGCTGGGCTCACTTA-CTTCGATTTATCCGCTAGGCA-TCGGGTGC
1 CGTTAGTTAATCCAACTAGAGCTAAGCTCACTTATC-GCGATTTATCCACTAGGCACT-GGGTGC
34163 CATGAATTGACGG
64 CATGAATTGACGG
34176 TTTTGGTTGA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
79 2 0.03
80 66 0.97
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (80 bp):
CGTTAGTTAATCCAACTAGAGCTAAGCTCACTTATCGCGATTTATCCACTAGGCACTGGGTGCCA
TGAATTGACGGATTT
Found at i:38568 original size:180 final size:181
Alignment explanation
Indices: 38262--38624 Score: 577
Period size: 180 Copynumber: 2.0 Consensus size: 181
38252 GCAAGGGGTG
* * * *
38262 CCACATAAGGCACTATAGCCAGAGGATTGAAATCCTCATTGCTGACTATCACAACCTCAGCTTGA
1 CCACATAAGGCACTATAACCAGAGGATTGAAATCCTCATTACTGACTATCACAACCTCAACCTGA
*
38327 TTCGTAATAGATTGTGCCAGATTGTCATTAATTGCACCCACAGATTCAGATGTGACGACAAATTC
66 TTCGTAATAGATTGTGCCAGATTGTCATTAATTGCACCCACAGATTCAGATGAGACGACAAATTC
38392 TTCAGACAAAATTATCGTG-AAAAATTTCCTCTTTTCTTCCTTTTCTACTT
131 TTCAGACAAAATTATCGTGAAAAAATTTCCTCTTTTCTTCCTTTTCTACTT
* * * *
38442 CCACATAAGGCACTATAACTAGAGGATTGAAATCCTCATTACTGATTGTCACAGCCTCAACCTGA
1 CCACATAAGGCACTATAACCAGAGGATTGAAATCCTCATTACTGACTATCACAACCTCAACCTGA
* *
38507 TTCGTAATAGATTGTGCCAGATTGTCATTAATTGCACCCACAGCTTCGGATGCAG-CGACAAATT
66 TTCGTAATAGATTGTGCCAGATTGTCATTAATTGCACCCACAGATTCAGATG-AGACGACAAATT
* *
38571 CTTCAGACAAATTTGTCGTGAAAAAAATTTCCTCTTTTCTTCCTTTTCTACTT
130 CTTCAGACAAAATTATCGTG-AAAAAATTTCCTCTTTTCTTCCTTTTCTACTT
38624 C
1 C
38625 TATCTCTTCT
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
180 134 0.80
181 1 0.01
182 32 0.19
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (181 bp):
CCACATAAGGCACTATAACCAGAGGATTGAAATCCTCATTACTGACTATCACAACCTCAACCTGA
TTCGTAATAGATTGTGCCAGATTGTCATTAATTGCACCCACAGATTCAGATGAGACGACAAATTC
TTCAGACAAAATTATCGTGAAAAAATTTCCTCTTTTCTTCCTTTTCTACTT
Found at i:47951 original size:48 final size:48
Alignment explanation
Indices: 47899--48125 Score: 332
Period size: 48 Copynumber: 4.8 Consensus size: 48
47889 TTGTTTTTCC
* * *
47899 TTTATTTATACTTCATTGATTGTTTTGTTGCATTCGTAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
* *
47947 TTTATTTATGCTTCATTGATTGTTTTGTTACATTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
* *
47995 TTTATTTATGCTTCGTTG-TTGCCTTGTTGCATTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
* *
48042 TTTATTTATGCGTCATTGATTGTCTTGTTGCATTCATAAATATAGTTG
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
* *
48090 TTTATTTAAT-TTTCATTGATTGGCTTGTTGCATTCA
1 TTTATTT-ATGCTTCATTGATTGTCTTGTTGCATTCA
48126 AAGTGGTGTT
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 42 0.26
48 119 0.73
49 2 0.01
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (48 bp):
TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
Found at i:48027 original size:95 final size:95
Alignment explanation
Indices: 47899--48125 Score: 330
Period size: 95 Copynumber: 2.4 Consensus size: 95
47889 TTGTTTTTCC
** * *
47899 TTTATTTATACTTCATTGATTGTTTTGTTGCATTCGTAAATAAAGTTGTTTATTTATGCTTCATT
1 TTTATTTAT-CTTCATTGATTGCCTTGTTGCATTCATAAATAAAGTTGTTTATTTATGCGTCATT
*
47964 GATTGTTTTGTTACATTCATAAATAAAGTTG
65 GATTGTCTTGTTACATTCATAAATAAAGTTG
*
47995 TTTATTTATGCTTCGTTG-TTGCCTTGTTGCATTCATAAATAAAGTTGTTTATTTATGCGTCATT
1 TTTATTTAT-CTTCATTGATTGCCTTGTTGCATTCATAAATAAAGTTGTTTATTTATGCGTCATT
* *
48059 GATTGTCTTGTTGCATTCATAAATATAGTTG
65 GATTGTCTTGTTACATTCATAAATAAAGTTG
* *
48090 TTTATTTAATTTTCATTGATTGGCTTGTTGCATTCA
1 TTTATTT-ATCTTCATTGATTGCCTTGTTGCATTCA
48126 AAGTGGTGTT
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 83 0.71
96 34 0.29
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (95 bp):
TTTATTTATCTTCATTGATTGCCTTGTTGCATTCATAAATAAAGTTGTTTATTTATGCGTCATTG
ATTGTCTTGTTACATTCATAAATAAAGTTG
Found at i:53295 original size:56 final size:56
Alignment explanation
Indices: 53223--53339 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
53213 ATAAACAACA
*
53223 GGTCAGGGTCTGTTCGATACTAATTCTTGTTTCAATTATTTGTCGTATAGAAAACG
1 GGTCGGGGTCTGTTCGATACTAATTCTTGTTTCAATTATTTGTCGTATAGAAAACG
* *
53279 GGTCGGGGTCTGTTCGATACTAATTCTTGTTTCAATTGTTTGTCGTATAGAAAATG
1 GGTCGGGGTCTGTTCGATACTAATTCTTGTTTCAATTATTTGTCGTATAGAAAACG
53335 GGTCG
1 GGTCG
53340 TGCTCTTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (56 bp):
GGTCGGGGTCTGTTCGATACTAATTCTTGTTTCAATTATTTGTCGTATAGAAAACG
Found at i:58908 original size:590 final size:591
Alignment explanation
Indices: 57789--58971 Score: 2224
Period size: 590 Copynumber: 2.0 Consensus size: 591
57779 ATCTACCTTC
57789 TTCATCATGAGATAGCACGTTTATGTTGCAACAAACCCCCTATGTTACGAAATAGAATATCTATG
1 TTCATCATGAGATAGCACGTTTATGTTGCAACAAACCCCCTATGTTACGAAATAGAATATCTATG
* *
57854 TCTCGACAAACCCCCTATGTCACAACACAACATGTTTATGTCACGACAAACCCCTGAAGATGTTT
66 TCTCGACAAACCCCCTATGTCACAACACAACATGTTTAAGTCACGACAAACCCCTGAAGATGTCT
*
57919 ACAAAAAAGTACACTAACTACTATGTCGCTACATATGACCTGGTATGTTACGACATCAACTCCTA
131 ACAAAAAAGTACACTAACTACTATGTCGCTACATAGGACCTGGTATGTTACGACATCAACTCCTA
* *
57984 GACGTGAATTTGACATCGAGTAAAGGGTGTTTTGATCTTTACAATGCCACTTAAACACAAGAAAC
196 AACGTGAATTTGACATCGAGTAAAGGGTGTTTCGATCTTTACAATGCCACTTAAACACAAGAAAC
58049 GATAGCTGACCTAGGGTTGAGGAAAATGACGGTTCAAGGCTATAAATAGGGCCTTTAGCACTAGG
261 GATAGCTGACCTAGGGTTGAGGAAAATGACGGTTCAAGGCTATAAATAGGGCCTTTAGCACTAGG
58114 GTTTCACACACCTTTTCTTAGCTTTTAGCTTTCGCTTTGTAATTTTTGTTAAGAAACTAGATTGT
326 GTTTCACACACCTTTTCTTAGCTTTTAGCTTTCGCTTTGTAATTTTTGTTAAGAAACTAGATTGT
*
58179 AACTTTTGCATAAACGTTCGAGGAATTATTTCCCGACAAATTGCCAATACAATTGAAGTTTCTAT
391 AACTTTTGCAAAAACGTTCGAGGAATTATTTCCCGACAAATTGCCAATACAATTGAAGTTTCTAT
58244 TATTTAGTTAGAATAACTTTTATGCTTGGTTATATTATTGTTTTTTATTATGTTTAAGAAAACCA
456 TATTTAGTTAGAATAACTTTTATGCTTGGTTATATTATTGTTTTTTATTATGTTTAAGAAAACCA
58309 TGAAGAAATAATTACATTTTGGGTAACTAGGGAGTGGAAGGATGAATATTTAATTTTGTTACAAA
521 TGAAGAAATAATTACATTTTGGGTAACTAGGGAGTGGAAGGATGAATATTTAATTTTGTTACAAA
58374 CAGGGA
586 CAGGGA
* *
58380 TTCATCATGAGATAGCATGTTTATGTTGCAACAAACCCCCTATGTTACGAAATAGAATGTCTATG
1 TTCATCATGAGATAGCACGTTTATGTTGCAACAAACCCCCTATGTTACGAAATAGAATATCTATG
58445 TCTCGACAAACCCCCTATGTCACAACACAACATG-TTAAGTCACGACAAACCCCTGAAGATGTCT
66 TCTCGACAAACCCCCTATGTCACAACACAACATGTTTAAGTCACGACAAACCCCTGAAGATGTCT
* *
58509 ACAGAAAAGTACACTAACTACTATGTCGCTACATAGGACCTGGTATGTTGCGACATCAACTCCTA
131 ACAAAAAAGTACACTAACTACTATGTCGCTACATAGGACCTGGTATGTTACGACATCAACTCCTA
*
58574 AACGTGAATTTGACATCGAGTAAAGGGTGTTTCGGTCTTTACAATGCCACTTAAACACAAGAAAC
196 AACGTGAATTTGACATCGAGTAAAGGGTGTTTCGATCTTTACAATGCCACTTAAACACAAGAAAC
58639 GATAGCTGACCTAGGGTTGAGGAAAATGACGGTTCAAGGCTATAAATAGGGCCTTTAGCACTAGG
261 GATAGCTGACCTAGGGTTGAGGAAAATGACGGTTCAAGGCTATAAATAGGGCCTTTAGCACTAGG
* *
58704 GTTTCACACACCTTTTCTTAGCTTTTAGCTTTCGCTTTGTTATTTTTGTTTAGAAACTAGATTGT
326 GTTTCACACACCTTTTCTTAGCTTTTAGCTTTCGCTTTGTAATTTTTGTTAAGAAACTAGATTGT
*
58769 AACTTTTGCAAAAACGTTCGAGGAATTATTTCCCGACAAATTGTCAATACAATTGAAGTTTCTAT
391 AACTTTTGCAAAAACGTTCGAGGAATTATTTCCCGACAAATTGCCAATACAATTGAAGTTTCTAT
58834 TATTTAGTTAGAATAACTTTTATGCTTGGTTATATTATTGTTTTTTATTATGTTTAAGAAAACCA
456 TATTTAGTTAGAATAACTTTTATGCTTGGTTATATTATTGTTTTTTATTATGTTTAAGAAAACCA
*
58899 TGAAGAAATAATTACATTTTGGGTAACTAGGGAGTGGAAGGATGAATATTTAATTTTGTTATAAA
521 TGAAGAAATAATTACATTTTGGGTAACTAGGGAGTGGAAGGATGAATATTTAATTTTGTTACAAA
58964 CAGGGA
586 CAGGGA
58970 TT
1 TT
58972 TTCAATCGGA
Statistics
Matches: 577, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
590 480 0.83
591 97 0.17
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (591 bp):
TTCATCATGAGATAGCACGTTTATGTTGCAACAAACCCCCTATGTTACGAAATAGAATATCTATG
TCTCGACAAACCCCCTATGTCACAACACAACATGTTTAAGTCACGACAAACCCCTGAAGATGTCT
ACAAAAAAGTACACTAACTACTATGTCGCTACATAGGACCTGGTATGTTACGACATCAACTCCTA
AACGTGAATTTGACATCGAGTAAAGGGTGTTTCGATCTTTACAATGCCACTTAAACACAAGAAAC
GATAGCTGACCTAGGGTTGAGGAAAATGACGGTTCAAGGCTATAAATAGGGCCTTTAGCACTAGG
GTTTCACACACCTTTTCTTAGCTTTTAGCTTTCGCTTTGTAATTTTTGTTAAGAAACTAGATTGT
AACTTTTGCAAAAACGTTCGAGGAATTATTTCCCGACAAATTGCCAATACAATTGAAGTTTCTAT
TATTTAGTTAGAATAACTTTTATGCTTGGTTATATTATTGTTTTTTATTATGTTTAAGAAAACCA
TGAAGAAATAATTACATTTTGGGTAACTAGGGAGTGGAAGGATGAATATTTAATTTTGTTACAAA
CAGGGA
Found at i:60492 original size:37 final size:37
Alignment explanation
Indices: 60459--60551 Score: 159
Period size: 37 Copynumber: 2.5 Consensus size: 37
60449 GTGCTCTATT
60459 CGAGACGTAAGCCTTCCATATAACATTACGCTCTAAC
1 CGAGACGTAAGCCTTCCATATAACATTACGCTCTAAC
* * *
60496 CGAGATGTAAGTCTTTCATATAACATTACGCTCTAAC
1 CGAGACGTAAGCCTTCCATATAACATTACGCTCTAAC
60533 CGAGACGTAAGCCTTCCAT
1 CGAGACGTAAGCCTTCCAT
60552 CAAAGTAGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (37 bp):
CGAGACGTAAGCCTTCCATATAACATTACGCTCTAAC
Found at i:66438 original size:16 final size:17
Alignment explanation
Indices: 66417--66463 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
66407 CATTGTCCCC
* *
66417 AATGCACTGACATTA-A
1 AATGCAATGACAATAGA
66433 AATGCAATGACAATAGA
1 AATGCAATGACAATAGA
*
66450 AATGCAACGACAAT
1 AATGCAATGACAAT
66464 GTGCACTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (17 bp):
AATGCAATGACAATAGA
Found at i:75535 original size:36 final size:35
Alignment explanation
Indices: 75473--75572 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 35
75463 TGGTAACAGG
*
75473 CATGACCTTCGGGTTAACAAGGAGTAAAATAAGCAA
1 CATGACCTTCGGGTCAA-AAGGAGTAAAATAAGCAA
* * *
75509 CATGACCTTTGGGTCAATAGGAAGTAAAATGAGCAA
1 CATGACCTTCGGGTCAAAAGG-AGTAAAATAAGCAA
* *
75545 CATGACCTTCGAGTCAACAGGGAGTAAA
1 CATGACCTTCGGGTCAA-AAGGAGTAAA
75573 TCAAATAACG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 3 0.06
36 49 0.91
37 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (35 bp):
CATGACCTTCGGGTCAAAAGGAGTAAAATAAGCAA
Found at i:77898 original size:40 final size:40
Alignment explanation
Indices: 77841--77922 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
77831 TACCTTCTTC
* * **
77841 GTCGCGACATAGCATGTCTATGTTGCGACAAACCCCCTAT
1 GTCGCAACATAGAATGTCTATGTCACGACAAACCCCCTAT
77881 GTCGCAACATAGAATGTCTATGTCACGACAAACCCCCTAT
1 GTCGCAACATAGAATGTCTATGTCACGACAAACCCCCTAT
77921 GT
1 GT
77923 TATAACACAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
GTCGCAACATAGAATGTCTATGTCACGACAAACCCCCTAT
Found at i:77943 original size:40 final size:40
Alignment explanation
Indices: 77851--77956 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
77841 GTCGCGACAT
* * *
77851 AGCATGTCTATGTTGCGACAAACCCCCTATGTCGCAACAT
1 AGCATGTCTATGTCGCGACAAACCCCCTATGTCACAACAC
* * * *
77891 AGAATGTCTATGTCACGACAAACCCCCTATGTTATAACAC
1 AGCATGTCTATGTCGCGACAAACCCCCTATGTCACAACAC
* *
77931 AGCATGTTTATGTCGCAACAAACCCC
1 AGCATGTCTATGTCGCGACAAACCCC
77957 TGAAGATGTC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (40 bp):
AGCATGTCTATGTCGCGACAAACCCCCTATGTCACAACAC
Found at i:80367 original size:21 final size:20
Alignment explanation
Indices: 80328--80367 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80318 GTAAATAGAT
*
80328 TTAATTAAGGTTAAAAATGG
1 TTAATTAAGCTTAAAAATGG
*
80348 TTAATTAAAGCTTAATAATG
1 TTAATT-AAGCTTAAAAATG
80368 AAAATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
TTAATTAAGCTTAAAAATGG
Found at i:81300 original size:51 final size:50
Alignment explanation
Indices: 81223--81397 Score: 260
Period size: 51 Copynumber: 3.4 Consensus size: 50
81213 AAAGGGTCCA
* *
81223 ATGACTAAGTGTCATCGTGAGCAAATGAATCCTTTATGGATTAATGGTCTG
1 ATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGGATTAA-GGTCTG
* * *
81274 ATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTGTGGATTGAAGGTTTG
1 ATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGGATT-AAGGTCTG
* *
81325 ATGACTAAGTGTCATCATGAGTAAATGAGTCCTTTATGGATTAAAGGTCCG
1 ATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGGATT-AAGGTCTG
81376 ATGACTAAGTGTCATCATGAGT
1 ATGACTAAGTGTCATCATGAGT
81398 TTATGGATTC
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 112 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (50 bp):
ATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGGATTAAGGTCTG
Found at i:83254 original size:15 final size:16
Alignment explanation
Indices: 83234--83267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
83224 CAAATATACG
*
83234 AAAAT-AAATATGAGA
1 AAAATAAAATACGAGA
83249 AAAATAAAATACGAGA
1 AAAATAAAATACGAGA
83265 AAA
1 AAA
83268 TACAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.15
Consensus pattern (16 bp):
AAAATAAAATACGAGA
Found at i:83456 original size:29 final size:29
Alignment explanation
Indices: 83332--83590 Score: 185
Period size: 29 Copynumber: 8.9 Consensus size: 29
83322 GAAAAAAATA
* *
83332 GGGTCAAAAATG-AAGTTTCGAAGAGTTT-G
1 GGGT-AAAAATGTAATTTTTGAA-AGTTTAG
* * *
83361 AGGTTAAAATGTAATTTTAGAAAGTTTTAG
1 GGGTAAAAATGTAATTTTTGAAAG-TTTAG
* * * *
83391 AGGTAAAAATGTTATTTTGGGTAAA-TTCA-
1 GGGTAAAAATGTAATTTT-TG-AAAGTTTAG
* *
83420 AGGTAAAAATGTGATTTTTGAAAGTTTAG
1 GGGTAAAAATGTAATTTTTGAAAGTTTAG
* *
83449 GGG-GAAAATGTGATTTTT-AGAAGTTTAG
1 GGGTAAAAATGTAATTTTTGA-AAGTTTAG
* * *
83477 GGGCAAAAATGTAATTTTTAAGAAG-TTCG
1 GGGTAAAAATGTAATTTTTGA-AAGTTTAG
* *
83506 AGGGTAAAAATGCAAATTTTAGAAA-TTTAG
1 -GGGTAAAAATG-TAATTTTTGAAAGTTTAG
*
83536 GGGTAAAAATGTAA-TTTGGAAAGTTTAG
1 GGGTAAAAATGTAATTTTTGAAAGTTTAG
*
83564 GGGTTAAAATGTAATTTTTGGAAAGTT
1 GGGTAAAAATGTAATTTTT-GAAAGTT
83591 CGAGGGCTTT
Statistics
Matches: 189, Mismatches: 25, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
27 11 0.06
28 57 0.30
29 63 0.33
30 47 0.25
31 8 0.04
32 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGAAAGTTTAG
Found at i:83512 original size:87 final size:87
Alignment explanation
Indices: 83366--83596 Score: 220
Period size: 87 Copynumber: 2.6 Consensus size: 87
83356 GTTTGAGGTT
* * * * ** *
83366 AAAATGTAATTTTAGAAAGTTTTAGAGGTAAAAATGTTATTTTGGGTAAA-TTC-AAGGTAAAAA
1 AAAATGTAA-TTTGGAAAG-TTTAGGGGCAAAAATGTAATTTTTAG-AAAGTTCGAGGGTAAAAA
** * *
83429 TG-TGATTTTTGAAAGTTTAGGGG-G
63 TGCAAATTTTAGAAA-TTTAGGGGTA
* **
83453 AAAATGTGATTTTTAGAAGTTTAGGGGCAAAAATGTAATTTTTA-AGAAGTTCGAGGGTAAAAAT
1 AAAATGTAATTTGGA-AAGTTTAGGGGCAAAAATGTAATTTTTAGA-AAGTTCGAGGGTAAAAAT
83517 GCAAATTTTAGAAATTTAGGGGTA
64 GCAAATTTTAGAAATTTAGGGGTA
** *
83541 AAAATGTAATTTGGAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGTTCGAGGG
1 AAAATGTAATTTGGAAAGTTTAGGGGCAAAAATGTAATTTTTAGAAAGTTCGAGGG
83597 CTTTCTAAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
84 1 0.01
85 2 0.02
86 27 0.23
87 66 0.56
88 22 0.19
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (87 bp):
AAAATGTAATTTGGAAAGTTTAGGGGCAAAAATGTAATTTTTAGAAAGTTCGAGGGTAAAAATGC
AAATTTTAGAAATTTAGGGGTA
Found at i:85031 original size:17 final size:17
Alignment explanation
Indices: 84996--85041 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
84986 TTTAGATTTG
***
84996 AATAAATTTAAATTTAA
1 AATAAATTTAAACCAAA
85013 AATAAATTTAAACCAAA
1 AATAAATTTAAACCAAA
*
85030 AACAAATTTAAA
1 AATAAATTTAAA
85042 AATGAGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAATTTAAACCAAA
Found at i:85655 original size:39 final size:39
Alignment explanation
Indices: 85437--86176 Score: 381
Period size: 39 Copynumber: 18.9 Consensus size: 39
85427 TATTGCTTCA
* * * *
85437 AATGATTGTCATCTGCCCCATGTTCGGGGTAAGAGATTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
*** * * * * * * *
85476 GCCGA-TGATGATCTACCTCAGGCCTCGAGGTAAAAGATCG
1 AATGACTG-TAATCTGCCCCAAG-CTCGGGGTAAGAGATTG
* * * *
85516 AATGGCTGCAATCTGCCCCAGGCTCAGGGTAAGAGATTGG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT-G
* * * * * * *
85556 CATCA-GGTTATCTGTCCCAGGCTCGGGGTAAGAGA-TC
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * * * *
85593 AAACAGTTGCAATCTACCTCAAGCTCGGGGTAAGAGATTG
1 AATGA-CTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * * *
85633 GTTGACCGTGATCTGCCCCAAGCTCGAGGTAAGAGATTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
* **
85672 AATGGCTACAATCTGTCCCC-AGCTCGGGGTAAGAGATTG
1 AATGACTGTAATCTG-CCCCAAGCTCGGGGTAAGAGATTG
* * * *
85711 AATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * * * * *
85750 GCT-AGTGATGATCTACCCCAAGCTCGAGGTAAGAGATCG
1 AATGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATTG
* * *
85789 AACGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGA-TTG
* * * * * *
85829 -CT-AGTGAAGATATTCCCCAAGCTCGGGATAAGAGATTG
1 AATGACTGTA-ATCTGCCCCAAGCTCGGGGTAAGAGATTG
* * * ** *
85867 AATGGCTGCAATTTGCCGTAGGCTCGGGGTAAGAGATTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * * * *
85906 GCT-AGTGATGATCTGCCCCAGGCTCGGGGTAAGAGATCG
1 AATGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATTG
* * *
85945 AATGGCTGTAATCTGCCCCAATCTTGGGGTAAGAGATTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * * * * **
85984 GTTG-GTGATGATCTGCCCCAGGCTCGAGGTAAGAGATCA
1 AATGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATTG
* **
86023 AAT-AGCTGTAATCTGCCCCAGGCTCAAGGTAAGAGATTG
1 AATGA-CTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * *
86062 GCT-AGTGATGATCTGCCCCAAGCTCGGGGTAAGAGATTG
1 AATGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATTG
** * * * *
86101 AATGGTTGTAATCTGCCCTAGGCTTGAGGTAAGAGATTTG
1 AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGA-TTG
* * *
86141 -CTG-GTGATGATCTGCCCCAAGCTCGGGGTAAGAGAT
1 AATGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGAT
86177 CGAAATCTTT
Statistics
Matches: 517, Mismatches: 160, Indels: 49
0.71 0.22 0.07
Matches are distributed among these distances:
37 3 0.01
38 24 0.05
39 439 0.85
40 49 0.09
41 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
AATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTG
Found at i:85730 original size:78 final size:78
Alignment explanation
Indices: 85612--86176 Score: 657
Period size: 78 Copynumber: 7.2 Consensus size: 78
85602 CAATCTACCT
** * * * * * ** *
85612 CAAGCTCGGGGTAAGAGATTGGTTGACCGTGATCTGCCCCAAGCTCGAGGTAAGAGATTGAATGG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
**
85677 CT-ACAATCTGTCCC
66 -TGATGATCTG-CCC
* *
85691 C-AGCTCGGGGTAAGAGATTGAATGGCTGCAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTAG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
*
85755 TGATGATCTACCC
66 TGATGATCTGCCC
* * * * * *
85768 CAAGCTCGAGGTAAGAGATCGAACGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTTGCTAG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
* * *
85833 TGAAGATATTCCC
66 TGATGATCTGCCC
* * * **
85846 CAAGCTCGGGATAAGAGATTGAATGGCTGCAATTTGCCGTAGGCTCGGGGTAAGAGATTGGCTAG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
85911 TGATGATCTGCCC
66 TGATGATCTGCCC
* * ** * * *
85924 CAGGCTCGGGGTAAGAGATCGAATGGCTGTAATCTGCCCCAATCTTGGGGTAAGAGATTGGTTGG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
85989 TGATGATCTGCCC
66 TGATGATCTGCCC
* * ** * **
86002 CAGGCTCGAGGTAAGAGATCAAATAGCTGTAATCTGCCCCAGGCTCAAGGTAAGAGATTGGCTAG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
86067 TGATGATCTGCCC
66 TGATGATCTGCCC
* * * * * *
86080 CAAGCTCGGGGTAAGAGATTGAATGGTTGTAATCTGCCCTAGGCTTGAGGTAAGAGATTTGCTGG
1 CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
86145 TGATGATCTGCCC
66 TGATGATCTGCCC
86158 CAAGCTCGGGGTAAGAGAT
1 CAAGCTCGGGGTAAGAGAT
86177 CGAAATCTTT
Statistics
Matches: 415, Mismatches: 69, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
77 5 0.01
78 409 0.99
79 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (78 bp):
CAAGCTCGGGGTAAGAGATTGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTAG
TGATGATCTGCCC
Found at i:97786 original size:97 final size:97
Alignment explanation
Indices: 97620--97800 Score: 290
Period size: 97 Copynumber: 1.9 Consensus size: 97
97610 AACCTTGAAA
* * * *
97620 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGTCACAAATTTTCA
1 AAGGGTATTCAATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
* *
97685 AAACCCGAAATAAAGGAATGCTGCCTTGATTT
66 AAACCCAAAATAAAAGAATGCTGCCTTGATTT
* *
97717 AAGGGTATTCAATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACGAATTTTCA
1 AAGGGTATTCAATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
97782 AAACCCAAAATAAAAGAAT
66 AAACCCAAAATAAAAGAAT
97801 ATTGCCTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCAATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCCAAAATAAAAGAATGCTGCCTTGATTT
Found at i:98179 original size:28 final size:27
Alignment explanation
Indices: 98120--98387 Score: 117
Period size: 28 Copynumber: 9.3 Consensus size: 27
98110 GGAAAATTTG
*
98120 GGGTAAAAATGTGATTTTTTTAAAGTTCGA
1 GGGT-AAAATGTGA-TTTTTTGAAGTT-GA
98150 GGGTAAAATGTGATTTTTTGAAGTGTGA
1 GGGTAAAATGTGATTTTTTGAAGT-TGA
* * * * *
98178 GGGCAAAAACGTGAATTTTGGAAGTTTAA
1 GGG-TAAAATGTGATTTTTTGAAG-TTGA
* * *
98207 GGGAAAAAAATGTGATTTTTTGGATGTTCGG
1 GGG--TAAAATGTGATTTTTT-GAAGTT-GA
* ** * *
98238 GGGCAAAATGCAATTTTTGGAAGTTTAA
1 GGGTAAAATGTGATTTTTTGAAG-TTGA
* * *
98266 GGGTAAAATGTAATTTTTGGAAGTTCTA
1 GGGTAAAATGTGATTTTTTGAAGTT-GA
* *
98294 GGGTAATAT-TGTATTTTTTGGAAGTTTA
1 GGGTAAAATGTG-ATTTTTT-GAAGTTGA
* * *
98322 GGGGCAAAATGT-AATTTTTGAAAAGTTTA
1 -GGGTAAAATGTGATTTTTTG--AAGTTGA
* * * *
98351 AGGTAAAATGTAATTTTTAAGAAGTTTA
1 GGGTAAAATGTGATTTTT-TGAAGTTGA
98379 GGGGTAAAA
1 -GGGTAAAA
98388 ATATAATTTT
Statistics
Matches: 187, Mismatches: 34, Indels: 35
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.02
28 78 0.42
29 77 0.41
30 22 0.12
31 6 0.03
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (27 bp):
GGGTAAAATGTGATTTTTTGAAGTTGA
Found at i:98312 original size:57 final size:56
Alignment explanation
Indices: 98193--98398 Score: 189
Period size: 57 Copynumber: 3.6 Consensus size: 56
98183 AAAACGTGAA
* * * ** * * *
98193 TTTTGGAAGTTTAAGGGAAAAAAATGTGATTTTTTGGATGTTCGGGGGCAAAATGCAAT
1 TTTTGGAAGTTTAAGGG--TAAAATGT-AATTTTTGGAAGTTCTAGGGTAAAATGTATT
*
98252 TTTTGGAAGTTTAAGGGTAAAATGTAATTTTTGGAAGTTCTAGGGTAATATTGTATT
1 TTTTGGAAGTTTAAGGGTAAAATGTAATTTTTGGAAGTTCTAGGGTAA-AATGTATT
* * * *
98309 TTTTGGAAGTTTAGGGGCAAAATGTAATTTTTGAAAAGTT-TAAGGTAAAATGTAATT
1 TTTTGGAAGTTTAAGGGTAAAATGTAATTTTTG-GAAGTTCTAGGGTAAAATGT-ATT
** * *
98366 TTTAAGAAGTTTAGGGGTAAAAATATAATTTTT
1 TTTTGGAAGTTTAAGGGT-AAAATGTAATTTTT
98399 TAAAATATGG
Statistics
Matches: 125, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
56 22 0.18
57 68 0.54
58 18 0.14
59 17 0.14
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.39
Consensus pattern (56 bp):
TTTTGGAAGTTTAAGGGTAAAATGTAATTTTTGGAAGTTCTAGGGTAAAATGTATT
Found at i:98328 original size:85 final size:85
Alignment explanation
Indices: 98221--98381 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 85
98211 AAAAAATGTG
* * *
98221 ATTTTTTGGATGTTCGGGGGCAAAATGCAATTTTTG-GAAGTTTAAGGGTAAAATGTAATTTTT-
1 ATTTTTTGGAAGTTCAGGGGCAAAATGCAATTTTTGAAAAGTTTAA-GGTAAAATGTAATTTTTA
*
98284 GGAAGTTCTAGGGTAATATTGT
65 AGAAGTT-TAGGGTAATATTGT
* *
98306 ATTTTTTGGAAGTTTAGGGGCAAAATGTAATTTTTGAAAAGTTTAAGGTAAAATGTAATTTTTAA
1 ATTTTTTGGAAGTTCAGGGGCAAAATGCAATTTTTGAAAAGTTTAAGGTAAAATGTAATTTTTAA
98371 GAAGTTTAGGG
66 GAAGTTTAGGG
98382 GTAAAAATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
85 54 0.79
86 14 0.21
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (85 bp):
ATTTTTTGGAAGTTCAGGGGCAAAATGCAATTTTTGAAAAGTTTAAGGTAAAATGTAATTTTTAA
GAAGTTTAGGGTAATATTGT
Found at i:98347 original size:29 final size:28
Alignment explanation
Indices: 98060--98464 Score: 187
Period size: 29 Copynumber: 14.0 Consensus size: 28
98050 CAGAGAGTTG
* *
98060 GGGGTTAAAATATAATTTTGGAAAGCTTTA
1 GGGG-TAAAATGTAATTTTTGAAAG-TTTA
* * * * *
98090 GGGATAAAAAAGTTATTTTGGGAAAATTT-
1 GGGGT-AAAATGTAATTTT-TGAAAGTTTA
* * *
98119 GGGGTAAAAATGTGATTTTTTTAAAG-TTC
1 GGGGT-AAAATGT-AATTTTTGAAAGTTTA
* *
98148 GAGGGTAAAATGTGATTTTTTG-AAGTGTGA
1 G-GGGTAAAATGT-AATTTTTGAAAGT-TTA
** * *
98178 GGGCAAAAACGTGAA-TTTTGGAAGTTTAA
1 GGGGTAAAATGT-AATTTTTGAAAGTTT-A
** * * * **
98207 GGGAAAAAAATGTGATTTTTTGGATGTTCG
1 GGG-GTAAAATGT-AATTTTTGAAAGTTTA
* * *
98237 GGGGCAAAATGCAATTTTTGGAAGTTTA
1 GGGGTAAAATGTAATTTTTGAAAGTTTA
* *
98265 AGGGTAAAATGTAATTTTTGGAAGTTCTA
1 GGGGTAAAATGTAATTTTTGAAAGTT-TA
* * *
98294 -GGGTAATATTGTATTTTTTGGAAGTTTA
1 GGGGTAA-AATGTAATTTTTGAAAGTTTA
*
98322 GGGGCAAAATGTAATTTTTGAAAAGTTTA
1 GGGGTAAAATGTAATTTTTG-AAAGTTTA
* *
98351 -AGGTAAAATGTAATTTTTAAGAAGTTTA
1 GGGGTAAAATGTAATTTTTGA-AAGTTTA
* * * *
98379 GGGGTAAAAATATAATTTTTTAAAATAT-
1 GGGGT-AAAATGTAATTTTTGAAAGTTTA
* *
98407 GGGGTTAAAATGTAATTTTAGAAAG-TTC
1 GGGG-TAAAATGTAATTTTTGAAAGTTTA
*
98435 GAGAGTCAAAATGTAATTTTTGAAAAGTTT
1 G-GGGT-AAAATGTAATTTTTG-AAAGTTT
98465 TAGAGCCTTT
Statistics
Matches: 294, Mismatches: 57, Indels: 47
0.74 0.14 0.12
Matches are distributed among these distances:
27 2 0.01
28 109 0.37
29 110 0.37
30 56 0.19
31 17 0.06
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (28 bp):
GGGGTAAAATGTAATTTTTGAAAGTTTA
Found at i:98422 original size:28 final size:29
Alignment explanation
Indices: 98327--98464 Score: 115
Period size: 28 Copynumber: 4.8 Consensus size: 29
98317 GTTTAGGGGC
* **
98327 AAAATGTAATTTTTGAAAAGTTTAAGG-T
1 AAAATGTAATTTTTTAAAAGTTTGGGGTT
*
98355 AAAATGTAA-TTTTTAAGAAGTTTAGGGGTA
1 AAAATGTAATTTTTTAA-AAGTTT-GGGGTT
* *
98385 AAAATATAATTTTTTAAAA-TATGGGGTT
1 AAAATGTAATTTTTTAAAAGTTTGGGGTT
* * *
98413 AAAATGTAA--TTTTAGAAAGTTCGAGAGTC
1 AAAATGTAATTTTTTA-AAAGTTTG-GGGTT
*
98442 AAAATGTAATTTTTGAAAAGTTT
1 AAAATGTAATTTTTTAAAAGTTT
98465 TAGAGCCTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
26 5 0.06
27 9 0.10
28 30 0.34
29 16 0.18
30 16 0.18
31 11 0.13
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTTAAAAGTTTGGGGTT
Found at i:98433 original size:57 final size:57
Alignment explanation
Indices: 98242--98425 Score: 151
Period size: 57 Copynumber: 3.2 Consensus size: 57
98232 GTTCGGGGGC
* * * * * * * *
98242 AAAATGCAATTTTT-GGAAGTTTAAGGGTAAAATGTAATTTTTG-GAAGTTCTAGGGT
1 AAAATGTAATTTTTAAGAAGTTTAGGGGAAAAATATAATTTTTGAAAAG-TATAAGGT
* ** * * *
98298 AATATTGT-ATTTTTTGGAAGTTTAGGGGCAAAATGTAATTTTTGAAAAGTTTAAGGT
1 AA-AATGTAATTTTTAAGAAGTTTAGGGGAAAAATATAATTTTTGAAAAGTATAAGGT
* **
98355 AAAATGTAATTTTTAAGAAGTTTAGGGGTAAAAATATAATTTTTTAAAA-TATGGGGTT
1 AAAATGTAATTTTTAAGAAGTTTAGGGG-AAAAATATAATTTTTGAAAAGTATAAGG-T
98413 AAAATGTAATTTT
1 AAAATGTAATTTT
98426 AGAAAGTTCG
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
56 12 0.11
57 60 0.57
58 34 0.32
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (57 bp):
AAAATGTAATTTTTAAGAAGTTTAGGGGAAAAATATAATTTTTGAAAAGTATAAGGT
Found at i:99950 original size:16 final size:16
Alignment explanation
Indices: 99931--99981 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
99921 TTTAGATTTG
99931 AATAAATTTAAAATTA
1 AATAAATTTAAAATTA
* *
99947 AATAATTTTAAATTTAA
1 AATAAATTTAAAATT-A
99964 AATAAATTTAAAA-TA
1 AATAAATTTAAAATTA
99979 AAT
1 AAT
99982 TTAAACCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 4 0.13
16 14 0.47
17 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAAATTTAAAATTA
Found at i:99971 original size:11 final size:11
Alignment explanation
Indices: 99955--99986 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
99945 TAAATAATTT
99955 TAAATTTAAAA
1 TAAATTTAAAA
99966 TAAATTTAAAA
1 TAAATTTAAAA
99977 TAAATTTAAA
1 TAAATTTAAA
99987 CCTAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:99978 original size:28 final size:28
Alignment explanation
Indices: 99946--100004 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
99936 ATTTAAAATT
* ** *
99946 AAATAATTTTAAATTTAAAATAAATTTA
1 AAATAAATTTAAACCTAAAACAAATTTA
*
99974 AAATAAATTTAAACCTAAAACAATTTTA
1 AAATAAATTTAAACCTAAAACAAATTTA
100002 AAA
1 AAA
100005 ATGAGTTCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATAAATTTAAACCTAAAACAAATTTA
Found at i:105919 original size:51 final size:51
Alignment explanation
Indices: 105846--106080 Score: 310
Period size: 51 Copynumber: 4.6 Consensus size: 51
105836 TAAACGAAAG
*
105846 GGTCCGATGACTAAGTGTCATCGTGAGCAAATGAATCCTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
* *
105897 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
* * *
105948 GGTCTGAGGACTAAGTGTCATCGTGAGTAAATGAATCTTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
* ** * * **
105999 GGTCCGATGACTAAGTGTCATCATGAGTTTATGGATTCCTATATGGAACAAGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAAT-GAATCCTTTATGGATTAA-A
*
106052 GGTCCGATGACTATA-TATCATCGTGAGTA
1 GGTCCGATGACTA-AGTGTCATCGTGAGTA
106081 TTAAATGAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
51 122 0.76
52 13 0.08
53 25 0.16
54 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
Found at i:107495 original size:48 final size:48
Alignment explanation
Indices: 107437--107813 Score: 506
Period size: 48 Copynumber: 7.8 Consensus size: 48
107427 TGTGTTTTTC
* *
107437 TTTATTTATGCTCCATTGATTATTTTGTTGCATTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTG
* ****
107485 TTTATTTATGCTTCATTGATTGTTTTGTTGCA-T-AAAAATAAAACAAC
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAAT-AAAGTTG
* * *
107532 TTTATTTATGGTTCATTTATTGTTTTGTTTCATTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTG
* *
107580 TTTATTTATGCTTTATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTG
* * * *
107628 TTTATTTATGTTTCATTTATTGTTTTGTTGCATTCATAACTAAGGTTG
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTG
*
107676 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTG
107724 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGATG
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGT--TG
* * *
107774 TTTTTAATTATGTTTCATTGTTTGTTTTTGTTGCATTCAT
1 --TTTATTTATGCTTCATTGATTG-TTTTGTTGCATTCAT
107814 TTTTTTTCGG
Statistics
Matches: 286, Mismatches: 35, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
46 5 0.02
47 33 0.12
48 207 0.72
49 5 0.02
50 2 0.01
52 19 0.07
53 15 0.05
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.53
Consensus pattern (48 bp):
TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTTG
Found at i:120881 original size:141 final size:137
Alignment explanation
Indices: 120703--121039 Score: 433
Period size: 141 Copynumber: 2.4 Consensus size: 137
120693 TGTGATGAGG
* ** ** *
120703 GTTTAGGTCTTTGCATTTAAATGGAAGGAGTCCTTCAAATCTATATGGAATATGATTCATCTTCA
1 GTTTAGGTCTTTGAATTGCAATGGAAGGAACCCTTCAAATCTATATGTAATATGATTCATCTTCA
* * *
120768 TGCTTAATTAATAATCGTAAATATTGCTTTTCAGTTTTCAATTATGGGATTGTAGCTGAAATGAT
66 TGCTAAATTAATAATCGTAAACATTGCTTTTCAGTTTCCAATTATGGGATTGTAGCTGAAATGAT
120833 GTCAGGGTTTA
131 GTCA-GG---A
* * *
120844 GTTTAGGTCTTTGAATTGCAATGGAAGGAACCCTTCAAATCTATATGTATTATGATTGATGTTCA
1 GTTTAGGTCTTTGAATTGCAATGGAAGGAACCCTTCAAATCTATATGTAATATGATTCATCTTCA
* * ** * *
120909 TGCTAAATTTATAATCTTTTACCTTGCTTTTCAGTTTCCAGTTATGGGATTGTAGCTGAAATGAT
66 TGCTAAATTAATAATCGTAAACATTGCTTTTCAGTTTCCAATTATGGGATTGTAGCTGAAATGAT
120974 GTCAGGA
131 GTCAGGA
* * * *
120981 -TTTAGGTCTTTGAGTTGCAATGGAAGGAACCCTTTAAATATATATGTACTATGATTCAT
1 GTTTAGGTCTTTGAATTGCAATGGAAGGAACCCTTCAAATCTATATGTAATATGATTCAT
121040 TTGCATAATC
Statistics
Matches: 173, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
136 54 0.31
137 1 0.01
140 2 0.01
141 116 0.67
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (137 bp):
GTTTAGGTCTTTGAATTGCAATGGAAGGAACCCTTCAAATCTATATGTAATATGATTCATCTTCA
TGCTAAATTAATAATCGTAAACATTGCTTTTCAGTTTCCAATTATGGGATTGTAGCTGAAATGAT
GTCAGGA
Found at i:129295 original size:12 final size:12
Alignment explanation
Indices: 129278--129309 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
129268 TTTGGTATAA
129278 TATATACACTAT
1 TATATACACTAT
*
129290 TATATATACTAT
1 TATATACACTAT
129302 TATATACA
1 TATATACA
129310 TAATAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATACACTAT
Found at i:129335 original size:15 final size:18
Alignment explanation
Indices: 129300--129336 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
129290 TATATATACT
129300 ATTATATACATAATAGAA
1 ATTATATACATAATAGAA
129318 ATTATA-ACAT-AT-GAA
1 ATTATATACATAATAGAA
129333 ATTA
1 ATTA
129337 AGACCACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 4 0.21
18 6 0.32
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (18 bp):
ATTATATACATAATAGAA
Found at i:129705 original size:13 final size:13
Alignment explanation
Indices: 129687--129711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
129677 AAAATAACAG
129687 AATTAACCGACCT
1 AATTAACCGACCT
129700 AATTAACCGACC
1 AATTAACCGACC
129712 GATTAATTTA
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:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (13 bp):
AATTAACCGACCT
Found at i:130395 original size:51 final size:51
Alignment explanation
Indices: 130319--130421 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
130309 TCAGTCAACC
130319 TTTATTCCATTCGGTAGGTTATTTCTATTGTTTGGTTGATTGAACTAGTGA
1 TTTATTCCATTCGGTAGGTTATTTCTATTGTTTGGTTGATTGAACTAGTGA
130370 TTTATTCCATTCGGTAGGTTATTTCTATTGTTTGGTTGATTGAACTAGTGA
1 TTTATTCCATTCGGTAGGTTATTTCTATTGTTTGGTTGATTGAACTAGTGA
130421 T
1 T
130422 ATGGTAGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (51 bp):
TTTATTCCATTCGGTAGGTTATTTCTATTGTTTGGTTGATTGAACTAGTGA
Found at i:132457 original size:24 final size:24
Alignment explanation
Indices: 132430--132521 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
132420 AAAAATCTTC
*
132430 CAATTAATCTCTTTTTATTTGTTT
1 CAATTAAACTCTTTTTATTTGTTT
*
132454 CAATTAAACTCTATTTATTTGTTT
1 CAATTAAACTCTTTTTATTTGTTT
*
132478 CAATTAAACTCTGTTTATTTGTTT
1 CAATTAAACTCTTTTTATTTGTTT
* * *
132502 CAGTCAAACTCTTATTATTT
1 CAATTAAACTCTTTTTATTT
132522 AGATTTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.54
Consensus pattern (24 bp):
CAATTAAACTCTTTTTATTTGTTT
Found at i:137824 original size:25 final size:25
Alignment explanation
Indices: 137796--137846 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
137786 GAGCCTAGAT
137796 AGAACACCGCTCTAACGAGTCAGAC
1 AGAACACCGCTCTAACGAGTCAGAC
* * * *
137821 AGAATATCGCTCTTACTAGTCAGAC
1 AGAACACCGCTCTAACGAGTCAGAC
137846 A
1 A
137847 AAATATCGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAACACCGCTCTAACGAGTCAGAC
Found at i:137851 original size:25 final size:25
Alignment explanation
Indices: 137803--137857 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
137793 GATAGAACAC
*
137803 CGCTCTAACGAGTCAGACAGAATAT
1 CGCTCTAACGAGTCAGACAAAATAT
* *
137828 CGCTCTTACTAGTCAGACAAAATAT
1 CGCTCTAACGAGTCAGACAAAATAT
137853 CGCTC
1 CGCTC
137858 CATCGAGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (25 bp):
CGCTCTAACGAGTCAGACAAAATAT
Found at i:140216 original size:20 final size:20
Alignment explanation
Indices: 140191--140242 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
140181 TAATAAGGGT
140191 ACTGAAGTGCAAAAAAAGGC
1 ACTGAAGTGCAAAAAAAGGC
* **
140211 ACTGAAGTGCAAATAGGGGC
1 ACTGAAGTGCAAAAAAAGGC
*
140231 ACCGAAGTGCAA
1 ACTGAAGTGCAA
140243 GCAGAGGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (20 bp):
ACTGAAGTGCAAAAAAAGGC
Found at i:140251 original size:20 final size:20
Alignment explanation
Indices: 140194--140251 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
140184 TAAGGGTACT
* * *
140194 GAAGTGCAAAAAAAGGCACT
1 GAAGTGCAAACAGAGGCACC
* *
140214 GAAGTGCAAATAGGGGCACC
1 GAAGTGCAAACAGAGGCACC
*
140234 GAAGTGCAAGCAGAGGCA
1 GAAGTGCAAACAGAGGCA
140252 TTTTTTCATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.33, T:0.09
Consensus pattern (20 bp):
GAAGTGCAAACAGAGGCACC
Found at i:142555 original size:23 final size:24
Alignment explanation
Indices: 142508--142557 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
142498 AGAAATAATC
142508 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
142532 TTTCAATTAAACTCTG-TTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
142555 TTT
1 TTT
142558 GAGTCAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:142566 original size:23 final size:24
Alignment explanation
Indices: 142508--142567 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
142498 AGAAATAATC
*
142508 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATCAAACTCTGTTTATTTG
*
142532 TTTCAATTAAACTCTG-TTATTTG
1 TTTCAATCAAACTCTGTTTATTTG
* *
142555 TTTGAGTCAAACT
1 TTTCAATCAAACT
142568 TTTATTAGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (24 bp):
TTTCAATCAAACTCTGTTTATTTG
Found at i:143468 original size:57 final size:57
Alignment explanation
Indices: 143376--143490 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
143366 CAGATTGACG
*
143376 ATGAAGATCAGACTATGCTATTATTGTGTTTTTTACCCCCTTCATACAAGTCTTTCA
1 ATGAAGATCAGACTATGCTATTATTGTGTTCTTTACCCCCTTCATACAAGTCTTTCA
*
143433 ATGAAGATCAGGCTATGCTATTATTGTGTTCTTTACCCCCTTCATACAAGTCTTTCA
1 ATGAAGATCAGACTATGCTATTATTGTGTTCTTTACCCCCTTCATACAAGTCTTTCA
143490 A
1 A
143491 GGAGACCTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (57 bp):
ATGAAGATCAGACTATGCTATTATTGTGTTCTTTACCCCCTTCATACAAGTCTTTCA
Found at i:146741 original size:22 final size:21
Alignment explanation
Indices: 146698--146762 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
146688 GGAGAGTGAA
146698 AATTATATTTATAATATAAAT
1 AATTATATTTATAATATAAAT
* * *
146719 AATTATAATTTTTATTATTAAT
1 AATTAT-ATTTATAATATAAAT
*
146741 AATTTTA-TTATAATAT-AAT
1 AATTATATTTATAATATAAAT
146760 AAT
1 AAT
146763 AGAATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 6 0.16
20 7 0.19
21 7 0.19
22 17 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTATATTTATAATATAAAT
Found at i:146758 original size:16 final size:16
Alignment explanation
Indices: 146717--146759 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
146707 TATAATATAA
146717 ATAATTATAATTTTTATT
1 ATAA-TATAA-TTTTATT
*
146735 ATTA-ATAATTTTATT
1 ATAATATAATTTTATT
146750 ATAATATAAT
1 ATAATATAAT
146760 AATAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.45
16 9 0.41
18 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATATAATTTTATT
Found at i:147394 original size:24 final size:24
Alignment explanation
Indices: 147349--147395 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
147339 AAAACCCAAA
* * *
147349 CCCTTTATTTTTTCACTCAATTTT
1 CCCTTAATTTTCTCACTAAATTTT
*
147373 CCCTTAATTTTCTCTCTAAATTT
1 CCCTTAATTTTCTCACTAAATTT
147396 AGCATAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (24 bp):
CCCTTAATTTTCTCACTAAATTTT
Found at i:147473 original size:28 final size:29
Alignment explanation
Indices: 147438--147501 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
147428 CTCAAATTTT
*
147438 ATTTAATTTA-ATTATTTTTATTTTTATA
1 ATTTAATTTATATTATTTTTATTTGTATA
*
147466 ATTTAA-TTATTTTATTTTTATTTGTATA
1 ATTTAATTTATATTATTTTTATTTGTATA
147494 ATTTAATT
1 ATTTAATT
147502 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 3 0.09
28 28 0.88
29 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
ATTTAATTTATATTATTTTTATTTGTATA
Found at i:147496 original size:23 final size:23
Alignment explanation
Indices: 147441--147486 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
147431 AAATTTTATT
147441 TAATTTAATTATTTTTATTTTTA
1 TAATTTAATTATTTTTATTTTTA
147464 TAATTTAATTA-TTTTATTTTTA
1 TAATTTAATTATTTTTATTTTTA
147486 T
1 T
147487 TTGTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TAATTTAATTATTTTTATTTTTA
Found at i:147502 original size:28 final size:28
Alignment explanation
Indices: 147449--147506 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
147439 TTTAATTTAA
*
147449 TTATTTTTATTTTTATAATTTAATTATT
1 TTATTTTTATTTGTATAATTTAATTATT
147477 TTATTTTTATTTGTATAATTTAATTATT
1 TTATTTTTATTTGTATAATTTAATTATT
147505 TT
1 TT
147507 TTATTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (28 bp):
TTATTTTTATTTGTATAATTTAATTATT
Found at i:148723 original size:42 final size:42
Alignment explanation
Indices: 148671--148842 Score: 220
Period size: 42 Copynumber: 4.1 Consensus size: 42
148661 ATACTCGTGA
* * * *
148671 CTCGAAATGAGCATGAAAATAGGATTAAAGGAAGACTCATGT
1 CTCGAGATGAGAATGAGAATATGATTAAAGGAAGACTCATGT
*
148713 CTCGAGATGAGAATGAGATTATGATTAAAGGAAGACTCATGT
1 CTCGAGATGAGAATGAGAATATGATTAAAGGAAGACTCATGT
* * * * *
148755 CTCGAGATAAGATTGAGATTTTGATTAAAGGAAGACTCATAT
1 CTCGAGATGAGAATGAGAATATGATTAAAGGAAGACTCATGT
* *
148797 CTCG-GAATGAGAATGAGAATATGATTAAAGGAAGACTTATGA
1 CTCGAG-ATGAGAATGAGAATATGATTAAAGGAAGACTCATGT
148839 CTCG
1 CTCG
148843 TTATAGCATA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 112 0.99
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (42 bp):
CTCGAGATGAGAATGAGAATATGATTAAAGGAAGACTCATGT
Found at i:153070 original size:18 final size:18
Alignment explanation
Indices: 153047--153092 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
153037 GTTGTTGAAA
*
153047 GATTATGACCTTGTGATT
1 GATTATCACCTTGTGATT
153065 GATTATCACCTTGTGATT
1 GATTATCACCTTGTGATT
153083 GATTATCACC
1 GATTATCACC
153093 CAAGAAAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (18 bp):
GATTATCACCTTGTGATT
Found at i:155722 original size:42 final size:42
Alignment explanation
Indices: 155598--155828 Score: 238
Period size: 42 Copynumber: 5.5 Consensus size: 42
155588 TGATGTAAAA
* * *
155598 AAAGGAAGACTCATGTCTCGAGTTGAGCATGAGAATT-TG-TAC
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATGAT-T
* * * *
155640 AAATGGAAGACTCGTGACTCG-GAATGA-ACATGAAAATATGATT
1 AAA-GGAAGACTCATGTCTCGAG-ATGAGA-ATGAGATTATGATT
155683 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* * *
155725 AAATGAAGACTCATGTCTCGAGATGAGATTGAGATTTTGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* * *
155767 AAAGGAAGACTCACGTTTCG-GAATGAGAATGAGAATATGATT
1 AAAGGAAGACTCATGTCTCGAG-ATGAGAATGAGATTATGATT
* *
155809 AAAGGAAGACTTATGACTCG
1 AAAGGAAGACTCATGTCTCG
155829 TTAAAGCATA
Statistics
Matches: 157, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 126 0.80
43 29 0.18
44 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
Found at i:160275 original size:21 final size:21
Alignment explanation
Indices: 160194--160288 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
160184 TCATTGCTCT
*
160194 TAATTTAAAATATCCTACACCC
1 TAATTTAAAATA-CCTAAACCC
* * *
160216 TTATATAAAATACCAAAACCC
1 TAATTTAAAATACCTAAACCC
* *
160237 TAATTT-TAATAACATAAACCC
1 TAATTTAAAAT-ACCTAAACCC
160258 TAATTTAAAA-ACCCTAAA-CC
1 TAATTTAAAATA-CCTAAACCC
160278 TAA-TTAAAATA
1 TAATTTAAAATA
160289 AAAACATCCT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
19 6 0.10
20 10 0.17
21 30 0.52
22 12 0.21
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATTTAAAATACCTAAACCC
Done.