Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008720.1 Corchorus capsularis cultivar CVL-1 contig08741, 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: 89149
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:3020 original size:19 final size:18
Alignment explanation
Indices: 2987--3022 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2977 TTGAAATAAT
2987 TCTTCAATGATCTTCAAA
1 TCTTCAATGATCTTCAAA
*
3005 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
3023 GAAATCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAA
Found at i:3849 original size:19 final size:20
Alignment explanation
Indices: 3809--3870 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 20
3799 ATCTCTCCCA
3809 TTCTCCATA-T-TCTT-TTC
1 TTCTCCATATTCTCTTGTTC
3826 TTCTCCATATTCTCTTGTTC
1 TTCTCCATATTCTCTTGTTC
3846 -TCT-CA-ATTCTCTTG-TC
1 TTCTCCATATTCTCTTGTTC
*
3862 TTTTCCATA
1 TTCTCCATA
3871 CTCCAATTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
16 2 0.05
17 20 0.53
18 5 0.13
19 8 0.21
20 3 0.08
ACGTcount: A:0.13, C:0.29, G:0.03, T:0.55
Consensus pattern (20 bp):
TTCTCCATATTCTCTTGTTC
Found at i:10101 original size:15 final size:16
Alignment explanation
Indices: 10077--10106 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10067 AGTTATATCG
10077 AAAAATATAAAAAAAT
1 AAAAATATAAAAAAAT
10093 AAAAA-ATAAAAAAA
1 AAAAATATAAAAAAA
10107 ATTTCGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAATATAAAAAAAT
Found at i:10104 original size:16 final size:17
Alignment explanation
Indices: 10077--10108 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10067 AGTTATATCG
10077 AAAAATATAAAAAAATA
1 AAAAATATAAAAAAATA
10094 AAAAATA-AAAAAAAT
1 AAAAATATAAAAAAAT
10109 TTCGACCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATATAAAAAAATA
Found at i:11826 original size:17 final size:17
Alignment explanation
Indices: 11801--11834 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11791 CACCTTCTTG
11801 GAAAATTCAAAAATTCA
1 GAAAATTCAAAAATTCA
*
11818 GAAACTTCAAAAATTCA
1 GAAAATTCAAAAATTCA
11835 TAGCCGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (17 bp):
GAAAATTCAAAAATTCA
Found at i:11935 original size:15 final size:16
Alignment explanation
Indices: 11908--11938 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11898 GTTATATCGA
11908 AAAATATAAAAAAAAT
1 AAAATATAAAAAAAAT
11924 AAAATA-AAAAAAAAT
1 AAAATATAAAAAAAAT
11939 TTCGACCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATATAAAAAAAAT
Found at i:13529 original size:33 final size:33
Alignment explanation
Indices: 13432--13536 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
13422 TTGAAAAGAG
* * * *
13432 TGTTTT-AGATGTTGTTTGCGATGATATTAAACC
1 TGTTTTAAG-TGTTGTTTGCAATGACACTAAATC
** *
13465 TAATTTGAGTGTTGTTTGCAATGACACTAAATC
1 TGTTTTAAGTGTTGTTTGCAATGACACTAAATC
**
13498 TGTTTTAAGTGTTGTTTGTGATGGA-ACTAAATC
1 TGTTTTAAGTGTTGTTTGCAAT-GACACTAAATC
13531 TGTTTT
1 TGTTTT
13537 GGATGCTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
33 55 0.93
34 4 0.07
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.46
Consensus pattern (33 bp):
TGTTTTAAGTGTTGTTTGCAATGACACTAAATC
Found at i:18793 original size:9 final size:9
Alignment explanation
Indices: 18779--18812 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
18769 TCTGATCGAA
18779 ATTTTTTTT
1 ATTTTTTTT
18788 ATTTTTTTT
1 ATTTTTTTT
18797 ATTTTTTTAT
1 ATTTTTTT-T
18807 ATTTTT
1 ATTTTT
18813 CGATATAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:18795 original size:10 final size:10
Alignment explanation
Indices: 18780--18812 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18770 CTGATCGAAA
18780 TTTTTTTTA-
1 TTTTTTTTAT
18789 TTTTTTTTAT
1 TTTTTTTTAT
*
18799 TTTTTTATAT
1 TTTTTTTTAT
18809 TTTT
1 TTTT
18813 CGATATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:19499 original size:18 final size:15
Alignment explanation
Indices: 19462--19493 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19452 AAGGAACAAG
19462 GAAAACTTGATGAAT
1 GAAAACTTGATGAAT
19477 GAAAACTTGATGAAT
1 GAAAACTTGATGAAT
19492 GA
1 GA
19494 TGAAAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (15 bp):
GAAAACTTGATGAAT
Found at i:27063 original size:33 final size:32
Alignment explanation
Indices: 27020--27119 Score: 110
Period size: 33 Copynumber: 3.1 Consensus size: 32
27010 CAAGTGTCCG
* **
27020 GGTGTAGCCGGGCATGGCCATGTCGCGTGGCC
1 GGTGTGGCCGGGCATCTCCATGTCGCGTGGCC
* *
27052 GGTGATGGCCGGGCATCTCCATGTTGCATGGCC
1 GGTG-TGGCCGGGCATCTCCATGTCGCGTGGCC
* * *
27085 GGTGTTGCGTGGGCATCTCCAAGTCGCGTGGCC
1 GGTGTGGC-CGGGCATCTCCATGTCGCGTGGCC
27118 GG
1 GG
27120 ATCTCCAAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
32 7 0.12
33 49 0.88
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (32 bp):
GGTGTGGCCGGGCATCTCCATGTCGCGTGGCC
Found at i:27115 original size:19 final size:20
Alignment explanation
Indices: 27091--27129 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27081 GGCCGGTGTT
27091 GCGTGG-GCATCTCCAAGTC
1 GCGTGGCGCATCTCCAAGTC
*
27110 GCGTGGCCGGATCTCCAAGT
1 GCGTGG-CGCATCTCCAAGT
27130 TGCATGGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (20 bp):
GCGTGGCGCATCTCCAAGTC
Found at i:27968 original size:31 final size:31
Alignment explanation
Indices: 27930--28007 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
27920 TGTGGCACAT
*
27930 GTGGCATGTCACATGTTTCAAAAAGTGACAC
1 GTGGCATGCCACATGTTTCAAAAAGTGACAC
27961 GTGGCATGCCACATGTTTCAAAAAGTGACAC
1 GTGGCATGCCACATGTTTCAAAAAGTGACAC
27992 GTGGCATGCCACATGT
1 GTGGCATGCCACATGT
28008 ACAAAAGGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (31 bp):
GTGGCATGCCACATGTTTCAAAAAGTGACAC
Found at i:29278 original size:21 final size:21
Alignment explanation
Indices: 29249--29289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29239 ATATGACCGG
29249 CCAAAGCATGGAGAAGCCGCA
1 CCAAAGCATGGAGAAGCCGCA
* *
29270 CCAAGGCATGGAGTAGCCGC
1 CCAAAGCATGGAGAAGCCGC
29290 GCCATCGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.32, T:0.07
Consensus pattern (21 bp):
CCAAAGCATGGAGAAGCCGCA
Found at i:29299 original size:21 final size:21
Alignment explanation
Indices: 29249--29301 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
29239 ATATGACCGG
*
29249 CCAAAGCATGGAGAAGCCGCA
1 CCAACGCATGGAGAAGCCGCA
* * *
29270 CCAAGGCATGGAGTAGCCGCG
1 CCAACGCATGGAGAAGCCGCA
*
29291 CCATCGCATGG
1 CCAACGCATGG
29302 GACAATGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.32, T:0.09
Consensus pattern (21 bp):
CCAACGCATGGAGAAGCCGCA
Found at i:29803 original size:21 final size:21
Alignment explanation
Indices: 29777--29818 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
29767 GCACAAGTGA
*
29777 CCGGCCATGCGACTTGGAGAT
1 CCGGCCACGCGACTTGGAGAT
29798 CCGGCCACGCGACTTGGAGAT
1 CCGGCCACGCGACTTGGAGAT
29819 GCCCGCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (21 bp):
CCGGCCACGCGACTTGGAGAT
Found at i:29876 original size:33 final size:31
Alignment explanation
Indices: 29798--29904 Score: 81
Period size: 33 Copynumber: 3.3 Consensus size: 31
29788 ACTTGGAGAT
* * **
29798 CCGGCCACGCGACTTGGAGATGCCCGCGAAACA
1 CCGGCCACGCGACATGCAGATG-CCG-GCCACA
* *
29831 CCAGCCATGCGACATGCAGATGCCTGGCCATCA
1 CCGGCCACGCGACATGCAGATGCC-GGCCA-CA
*
29864 CCGGCCACGCGACATGGC-CATGCCCGGCCACA
1 CCGGCCACGCGACAT-GCAGATG-CCGGCCACA
29896 TCCGGCCAC
1 -CCGGCCAC
29905 ATGACTCGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
32 6 0.10
33 50 0.83
34 4 0.07
ACGTcount: A:0.21, C:0.41, G:0.27, T:0.10
Consensus pattern (31 bp):
CCGGCCACGCGACATGCAGATGCCGGCCACA
Found at i:29916 original size:33 final size:33
Alignment explanation
Indices: 29879--29941 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
29869 CACGCGACAT
*
29879 GGCCATGCCCGGCCACATCCGGCCACATGACTC
1 GGCCATGCCCGGCCACAACCGGCCACATGACTC
*
29912 GGCCATGCCCGGCCACAACCGGCCATATGA
1 GGCCATGCCCGGCCACAACCGGCCACATGA
29942 TCCTTTAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.43, G:0.25, T:0.11
Consensus pattern (33 bp):
GGCCATGCCCGGCCACAACCGGCCACATGACTC
Found at i:30872 original size:8 final size:8
Alignment explanation
Indices: 30859--30892 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
30849 CACCTTCTTG
30859 AAAAATTC
1 AAAAATTC
30867 AAAAATTC
1 AAAAATTC
*
30875 AGAAACTTC
1 A-AAAATTC
30884 AAAAATTC
1 AAAAATTC
30892 A
1 A
30893 TAGCGGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (8 bp):
AAAAATTC
Found at i:30983 original size:5 final size:5
Alignment explanation
Indices: 30966--30999 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
30956 GTTATATCGA
30966 AAAAT ATAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAA
31000 TTTTCGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:46018 original size:24 final size:24
Alignment explanation
Indices: 45991--46036 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45981 GCTGTTTAAG
45991 TTTATGCTT-TATCTTTAATTTTCC
1 TTTAT-CTTATATCTTTAATTTTCC
* *
46015 TTTATCTTATGTCTTTATTTTT
1 TTTATCTTATATCTTTAATTTT
46037 AAAGTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTATCTTATATCTTTAATTTTCC
Found at i:46988 original size:22 final size:22
Alignment explanation
Indices: 46962--47008 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
46952 ATTTATTCAT
46962 TATTAATTAACTATTAATTAGA
1 TATTAATTAACTATTAATTAGA
* *
46984 TATTAATTAGCTATTCATTAGA
1 TATTAATTAACTATTAATTAGA
47006 TAT
1 TAT
47009 AGTATAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (22 bp):
TATTAATTAACTATTAATTAGA
Found at i:47004 original size:11 final size:11
Alignment explanation
Indices: 46962--47004 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
46952 ATTTATTCAT
*
46962 TATTAATTAAC
1 TATTAATTAGC
*
46973 TATTAATTAGA
1 TATTAATTAGC
46984 TATTAATTAGC
1 TATTAATTAGC
*
46995 TATTCATTAG
1 TATTAATTAG
47005 ATATAGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (11 bp):
TATTAATTAGC
Found at i:48422 original size:21 final size:21
Alignment explanation
Indices: 48394--48433 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48384 AAAAACAACC
48394 CTATTTTTATGGT-TATTTTA
1 CTATTTTTATGGTCTATTTTA
*
48414 CTATGTTTTTTGGTCTATTT
1 CTAT-TTTTATGGTCTATTT
48434 ATGCTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65
Consensus pattern (21 bp):
CTATTTTTATGGTCTATTTTA
Found at i:58008 original size:16 final size:16
Alignment explanation
Indices: 57968--58041 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 16
57958 ACCCGAACCC
*
57968 GAACCCGAAAAAAGCT
1 GAACCCGAAAAAATCT
* *
57984 CAAATCCGAAAAAATCT
1 -GAACCCGAAAAAATCT
58001 GAACCCG-AAAAATCT
1 GAACCCGAAAAAATCT
* * *
58016 GAAACCCAAAAAAACCC
1 G-AACCCGAAAAAATCT
58033 GAACCCGAA
1 GAACCCGAA
58042 GCTGAAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
15 9 0.20
16 17 0.37
17 20 0.43
ACGTcount: A:0.51, C:0.28, G:0.12, T:0.08
Consensus pattern (16 bp):
GAACCCGAAAAAATCT
Found at i:58011 original size:15 final size:15
Alignment explanation
Indices: 57993--58027 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
57983 TCAAATCCGA
57993 AAAAATCTG-AACCC
1 AAAAATCTGAAACCC
58007 GAAAAATCTGAAACCC
1 -AAAAATCTGAAACCC
58023 AAAAA
1 AAAAA
58028 AACCCGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.57, C:0.23, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAATCTGAAACCC
Found at i:58028 original size:32 final size:32
Alignment explanation
Indices: 57963--58041 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
57953 AACCCACCCG
* *
57963 AACCCGAACCCGAAAAAAGCTCAAATCCGAAAA
1 AACCCGAACCCG-AAAAAGCTCAAACCCAAAAA
* * * *
57996 AATCTGAACCCGAAAAATCTGAAACCCAAAAA
1 AACCCGAACCCGAAAAAGCTCAAACCCAAAAA
58028 AACCCGAACCCGAA
1 AACCCGAACCCGAA
58042 GCTGAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 28 0.74
33 10 0.26
ACGTcount: A:0.51, C:0.30, G:0.11, T:0.08
Consensus pattern (32 bp):
AACCCGAACCCGAAAAAGCTCAAACCCAAAAA
Found at i:58272 original size:16 final size:16
Alignment explanation
Indices: 58228--58300 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
58218 CCAATCCGAG
*
58228 CCCGAACCCGAATTAA
1 CCCGAACCCAAATTAA
* * ** *
58244 CCTGATCGAAAATTGA
1 CCCGAACCCAAATTAA
*
58260 CCCGAACCCAAATCAA
1 CCCGAACCCAAATTAA
*
58276 CCTG-ACCCAAATTTAA
1 CCCGAACCCAAA-TTAA
58292 CCCGAACCC
1 CCCGAACCC
58301 GAACCCAACT
Statistics
Matches: 40, Mismatches: 15, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
15 7 0.17
16 29 0.73
17 4 0.10
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.15
Consensus pattern (16 bp):
CCCGAACCCAAATTAA
Found at i:58278 original size:32 final size:32
Alignment explanation
Indices: 58228--58300 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
58218 CCAATCCGAG
* * * * *
58228 CCCGAACCCGAATTAACCTGATCGAAAATTGA
1 CCCGAACCCAAATCAACCTGACCCAAAATTAA
*
58260 CCCGAACCCAAATCAACCTGACCCAAATTTAA
1 CCCGAACCCAAATCAACCTGACCCAAAATTAA
58292 CCCGAACCC
1 CCCGAACCC
58301 GAACCCAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.15
Consensus pattern (32 bp):
CCCGAACCCAAATCAACCTGACCCAAAATTAA
Found at i:59896 original size:32 final size:33
Alignment explanation
Indices: 59837--59901 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
59827 ATAAATTGAG
59837 CATATACACTATTTATATTTTCAACAACTTATA
1 CATATACACTATTTATATTTTCAACAACTTATA
59870 CATATACACTATTTATA-TTTCAACAACTTATA
1 CATATACACTATTTATATTTTCAACAACTTATA
59902 TTGGGACACC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (33 bp):
CATATACACTATTTATATTTTCAACAACTTATA
Found at i:63630 original size:177 final size:178
Alignment explanation
Indices: 63300--63635 Score: 469
Period size: 177 Copynumber: 1.9 Consensus size: 178
63290 TAAGCAGACA
* * * *
63300 AAACAAACTAATTAACAAAACTAAACCCACATTCCGTAGAATTTGAATCCAGGACCTCACGGTCC
1 AAACAAACTAATCAACAAAACTAAACCCACATTCCGTAGAACTTGAACCCAAGACCTCACGGTCC
*
63365 AAACACGATGCACTTACCAGTTAAACGAACAACTCGAGTATTATTTCACATATTAATACCAAGTA
66 AAACACGATGCACTAACCAGTTAAACGAACAACTCGAGTATTATTTCACATATTAATACCAAGTA
*
63430 TGATGTAAGATAACCTTTTAC-AAAGATGTCTCAGCGAACAAACAAAT
131 TGATCTAAGATAACCTTTTACAAAAGATGTCTCAGCGAACAAACAAAT
* * *
63477 AAACAAACTAATCAACTAAACTAAACCCACATTCTGTAGGACTTGAACCCAAGACCTCACGGTCC
1 AAACAAACTAATCAACAAAACTAAACCCACATTCCGTAGAACTTGAACCCAAGACCTCACGGTCC
* * * * * * * * * *
63542 AGATACGATGCACTAACTAGTTGAGCTAAGAAGTCGGGTATTATTTTACATATTAATACCAAGTA
66 AAACACGATGCACTAACCAGTTAAACGAACAACTCGAGTATTATTTCACATATTAATACCAAGTA
*
63607 TGATCTAAGATAA-TTTCTTACAAAAGATG
131 TGATCTAAGATAACCTT-TTACAAAAGATG
63636 CTAATGAGCC
Statistics
Matches: 137, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
176 2 0.01
177 128 0.93
178 7 0.05
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (178 bp):
AAACAAACTAATCAACAAAACTAAACCCACATTCCGTAGAACTTGAACCCAAGACCTCACGGTCC
AAACACGATGCACTAACCAGTTAAACGAACAACTCGAGTATTATTTCACATATTAATACCAAGTA
TGATCTAAGATAACCTTTTACAAAAGATGTCTCAGCGAACAAACAAAT
Found at i:66081 original size:49 final size:49
Alignment explanation
Indices: 66008--66555 Score: 747
Period size: 49 Copynumber: 11.2 Consensus size: 49
65998 GAAGAGGCAT
* * * * ** * * *
66008 TTTGGGAAATGGCAGGTGAGAATAAATACCTTCTGTCCGGGAAGGGCGT
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* * * *
66057 TTTGGTAAATAGCAAGCAAAAATAAATGGCTTCCGTCAGGGAAGGGCGT
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
** *
66106 TTTGGGAAATAGCAAGCGAAAACAAATGGCTTCCGTCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* *
66155 TTTGGGAAATAGCAAGCAAAAACAAATGGCTTCCGTCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
*
66204 TTTGGGAAATAGCGAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* * *
66253 TTTGGGAAATAGCAAGTAAAGATGAATGGCTTCCATCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
*
66302 TTTGGGAAATAGCGAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* * * *
66351 TTTAGGAAATAGCAAGTAAAGATGAATGGCTTCCGTCTAGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* *
66400 TTTGGGAAATAGCAAGTAAAGATGAATGGCTTCCGTCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* ** **
66449 TTTGGGAAATAACAAGTAAGGACGAATGGCTTCCGTCTGGGAAGGGCGC
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
* * *
66498 TTTGGGAAATAGCAAGTAAAGATGAATGGCTTCCGT-TGGGGAAGGGCGT
1 TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCT-GGGAAGGGCGC
66547 TTTGGGAAA
1 TTTGGGAAA
66556 AAGTAGGTAA
Statistics
Matches: 457, Mismatches: 41, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
48 1 0.00
49 456 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (49 bp):
TTTGGGAAATAGCAAGTAAAAATAAATGGCTTCCGTCTGGGAAGGGCGC
Found at i:69067 original size:56 final size:57
Alignment explanation
Indices: 68991--69140 Score: 168
Period size: 56 Copynumber: 2.7 Consensus size: 57
68981 CAGCTTATTT
* *
68991 CTTTTACTT-TTTAGCTTAATTACTCTTGAATTAAACTATC-TACTGATTAC-ACCTC
1 CTTTTACTTCTTTAGCTTAATTACTCATGAATTAAACTAACTTACTGATTACGA-CTC
** * * *
69046 CTTTTACTTCTTTAGCTTAATTAC-CCCGAATTAAACCAACTTACTGATTACTGATTT
1 CTTTTACTTCTTTAGCTTAATTACTCATGAATTAAACTAACTTACTGATTAC-GACTC
*
69103 CTTCTAC-TCTTTAGCTTAATTACTCAT-AATTAAACTAA
1 CTTTTACTTCTTTAGCTTAATTACTCATGAATTAAACTAA
69141 TTATTGTTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
55 21 0.26
56 50 0.62
57 8 0.10
58 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (57 bp):
CTTTTACTTCTTTAGCTTAATTACTCATGAATTAAACTAACTTACTGATTACGACTC
Found at i:70606 original size:58 final size:57
Alignment explanation
Indices: 70536--70689 Score: 213
Period size: 58 Copynumber: 2.7 Consensus size: 57
70526 AATTACCCCG
*
70536 AATTAAGCTAATTGCTACTGCTTACTCCTTTTACTTCTTGATTAACCTAA-TAGC-TCTA
1 AATTAAGCTAATTACTACTG-TTACTCCTTTTACTTCTTGATTAACCTAATTA-CTTC-A
* * *
70594 AATTAAGCTAATTACTACTGTTTACTCTTTTTACTTCTTGATTAACTTAATTACTTCG
1 AATTAAGCTAATTACTACTG-TTACTCCTTTTACTTCTTGATTAACCTAATTACTTCA
*
70652 AATTAGGCTAATTACTACTGTTACTCCTTTTACTTCTT
1 AATTAAGCTAATTACTACTGTTACTCCTTTTACTTCTT
70690 TTACTCCTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
57 17 0.20
58 66 0.76
59 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (57 bp):
AATTAAGCTAATTACTACTGTTACTCCTTTTACTTCTTGATTAACCTAATTACTTCA
Found at i:70675 original size:9 final size:9
Alignment explanation
Indices: 70672--70704 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
70662 ATTACTACTG
70672 TTACTCCTT
1 TTACTCCTT
*
70681 TTACTTCTT
1 TTACTCCTT
70690 TTACTCCTT
1 TTACTCCTT
70699 TTACTC
1 TTACTC
70705 TGATTACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (9 bp):
TTACTCCTT
Found at i:70711 original size:18 final size:17
Alignment explanation
Indices: 70663--70712 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
70653 ATTAGGCTAA
70663 TTACTACTGTTACTCCTT
1 TTACT-CTGTTACTCCTT
*
70681 TTACTTCTTTTACTCCTT
1 TTAC-TCTGTTACTCCTT
70699 TTACTCTGATTACT
1 TTACTCTG-TTACT
70713 TCTTCTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.16, C:0.26, G:0.04, T:0.54
Consensus pattern (17 bp):
TTACTCTGTTACTCCTT
Found at i:70745 original size:32 final size:33
Alignment explanation
Indices: 70684--70760 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 33
70674 ACTCCTTTTA
*
70684 CTTCTTTTACT-CCTTTTACTCTGATTACTTCTT
1 CTTCTTTTACTCCCTTCTAC-CTGATTACTTCTT
70717 CTTCTTTTACTCCCTTCTA-CTGATTACTTCTT
1 CTTCTTTTACTCCCTTCTACCTGATTACTTCTT
70749 -TTACTTTTACTC
1 CTT-CTTTTACTC
70761 TTGATTACCA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 2 0.05
32 22 0.54
33 11 0.27
34 6 0.15
ACGTcount: A:0.13, C:0.29, G:0.03, T:0.56
Consensus pattern (33 bp):
CTTCTTTTACTCCCTTCTACCTGATTACTTCTT
Found at i:70823 original size:40 final size:40
Alignment explanation
Indices: 70730--71034 Score: 369
Period size: 40 Copynumber: 7.6 Consensus size: 40
70720 CTTTTACTCC
* * *
70730 CTTCTACTGATTACTTCTTTTACTTTTACTCTTGATTACCA
1 CTTCT-CTGATTACTTCTTTTACTTCTACTCTTAATTACTA
* * * * *
70771 ATT-TACTAATTACTCCTTTTACTTTTACTCTTAATCACTA
1 CTTCT-CTGATTACTTCTTTTACTTCTACTCTTAATTACTA
* * * *
70811 TTTCTCTGATTACTTGTTTTACTACTACTTTTAATTACTA
1 CTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTA
* * * **
70851 CTTCTCTTATTACTTTTTTTTTCTTCCGCTCTTAATTACTA
1 CTTCTCTGATTAC-TTCTTTTACTTCTACTCTTAATTACTA
70892 CTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTA
1 CTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTA
* *
70932 CTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTA
1 CTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTA
* *
70972 CTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTA
1 CTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTA
* *
71012 CTTCTCCGATTTCTTCTTTTACT
1 CTTCTCTGATTACTTCTTTTACT
71035 ATTTCTTTTT
Statistics
Matches: 230, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
40 194 0.84
41 36 0.16
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.54
Consensus pattern (40 bp):
CTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTA
Found at i:70855 original size:121 final size:120
Alignment explanation
Indices: 70730--71009 Score: 355
Period size: 121 Copynumber: 2.3 Consensus size: 120
70720 CTTTTACTCC
* * * *
70730 CTTCTACTGATTACTTCTTTTACTTTTACTCTTGATTACCAATT-TACTAATTACTCCTTTTACT
1 CTTCT-CTGATTACTTCTTTTTCTTCTGCTCTTAATTACCAATTCT-CTAATTACTCCTTTTACT
* * * *
70794 TTTACTCTTAATCACTATTTCTCTGATTACTTGTTTTACTACTACTTTTAATTACTA
64 TCTACTCTTAATCACTACTTCTCTGATTACTTCTTTTACTACTACTCTTAATTACTA
* * * * * * *
70851 CTTCTCTTATTACTTTTTTTTTCTTCCGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTT
1 CTTCTCTGATTAC-TTCTTTTTCTTCTGCTCTTAATTACCAATTCTCTAATTACTCCTTTTACTT
* * * *
70916 CTACTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTA
65 CTACTCTTAATCACTACTTCTCTGATTACTTCTTTTACTACTACTCTTAATTACTA
70972 CTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTAC
1 CTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTAC
71010 TACTTCTCCG
Statistics
Matches: 135, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
120 30 0.22
121 104 0.77
122 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.04, T:0.54
Consensus pattern (120 bp):
CTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACCAATTCTCTAATTACTCCTTTTACTTC
TACTCTTAATCACTACTTCTCTGATTACTTCTTTTACTACTACTCTTAATTACTA
Found at i:70905 original size:15 final size:14
Alignment explanation
Indices: 70880--70985 Score: 55
Period size: 15 Copynumber: 7.8 Consensus size: 14
70870 TTTCTTCCGC
*
70880 TCTTAATTACTACT
1 TCTTGATTACTACT
*
70894 TCTCTGATTACTTCT
1 TCT-TGATTACTACT
70909 T-TT-ACTT-CTAC-
1 TCTTGA-TTACTACT
*
70920 TCTTAATTACTACT
1 TCTTGATTACTACT
*
70934 TCTCTGATTACTTCT
1 TCT-TGATTACTACT
** *
70949 T-TTTCTT-CTGC-
1 TCTTGATTACTACT
*
70960 TCTTAATTACTACT
1 TCTTGATTACTACT
70974 TCTCTGATTACT
1 TCT-TGATTACT
70986 TCTTTTTCTT
Statistics
Matches: 69, Mismatches: 12, Indels: 21
0.68 0.12 0.21
Matches are distributed among these distances:
11 2 0.03
12 15 0.22
13 14 0.20
14 11 0.16
15 27 0.39
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.53
Consensus pattern (14 bp):
TCTTGATTACTACT
Found at i:70975 original size:19 final size:19
Alignment explanation
Indices: 70953--71016 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
70943 ACTTCTTTTT
70953 CTTCTGCTCTTAATTACTA
1 CTTCTGCTCTTAATTACTA
* * *
70972 CTTCT-CTGATTACTT-CTTTTT
1 CTTCTGCT-CTTAATTAC---TA
70993 CTTCTGCTCTTAATTACTA
1 CTTCTGCTCTTAATTACTA
71012 CTTCT
1 CTTCT
71017 CCGATTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
18 3 0.09
19 16 0.48
21 11 0.33
22 3 0.09
ACGTcount: A:0.16, C:0.27, G:0.05, T:0.53
Consensus pattern (19 bp):
CTTCTGCTCTTAATTACTA
Found at i:71035 original size:24 final size:24
Alignment explanation
Indices: 71006--71088 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 24
70996 CTGCTCTTAA
*
71006 TTACTACTTCTCCGATTTCTTCTT
1 TTACTACTTCTCTGATTTCTTCTT
71030 TTACTATTTCTTTTTCTCTGATTTCTTCTT
1 TTACTA---C---TTCTCTGATTTCTTCTT
* *
71060 TTACTATTTCTCTGATTTCTTCAT
1 TTACTACTTCTCTGATTTCTTCTT
71084 TTACT
1 TTACT
71089 TCTACTCTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
24 27 0.54
27 1 0.02
30 22 0.44
ACGTcount: A:0.13, C:0.23, G:0.04, T:0.60
Consensus pattern (24 bp):
TTACTACTTCTCTGATTTCTTCTT
Found at i:71040 original size:15 final size:15
Alignment explanation
Indices: 71020--71070 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
71010 TACTTCTCCG
71020 ATTTCTTCTTTTACT
1 ATTTCTTCTTTTACT
71035 ATTTCTT-TTTCT-CT
1 ATTTCTTCTTT-TACT
71049 GATTTCTTCTTTTACT
1 -ATTTCTTCTTTTACT
71065 ATTTCT
1 ATTTCT
71071 CTGATTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 5 0.16
ACGTcount: A:0.12, C:0.20, G:0.02, T:0.67
Consensus pattern (15 bp):
ATTTCTTCTTTTACT
Found at i:71053 original size:30 final size:30
Alignment explanation
Indices: 71013--71070 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
71003 TAATTACTAC
71013 TTCTCCGATTTCTTCTTTTACTATTTCTTT
1 TTCTCCGATTTCTTCTTTTACTATTTCTTT
*
71043 TTCTCTGATTTCTTCTTTTACTATTTCT
1 TTCTCCGATTTCTTCTTTTACTATTTCT
71071 CTGATTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.22, G:0.03, T:0.64
Consensus pattern (30 bp):
TTCTCCGATTTCTTCTTTTACTATTTCTTT
Found at i:71096 original size:24 final size:24
Alignment explanation
Indices: 71045--71096 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
71035 ATTTCTTTTT
* *
71045 CTCTGATTTCTTCTTTTACTATTT
1 CTCTGATTTCTTCATTTACTATTA
71069 CTCTGATTTCTTCATTTACT-TCTA
1 CTCTGATTTCTTCATTTACTAT-TA
71093 CTCT
1 CTCT
71097 TCAATTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.13, C:0.25, G:0.04, T:0.58
Consensus pattern (24 bp):
CTCTGATTTCTTCATTTACTATTA
Found at i:71129 original size:255 final size:246
Alignment explanation
Indices: 70787--71539 Score: 720
Period size: 255 Copynumber: 3.0 Consensus size: 246
70777 TAATTACTCC
* * * * * * *
70787 TTTTACTTTTACTCTTAATCACTATTTCTCTGATTACTTGTTTTACTACTACTTTTAATTACTAC
1 TTTTACTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTTACTTCTACTTTCAATTACTAC
** * *
70852 TTCTCTTATTACTTTTTTTTTCTTCCGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTTC
66 TTC-C-TATTAC-TACTTTTTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTTC
70917 TACTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCTGAT
128 TACTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCTGAT
* * *
70982 TACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCCGATTTCTTCTTTTACTAT
193 TTCTTCTTTTTCTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTTACT-T
** * ** *
71037 TTCTTTTTCTCTGATTTCTTCTTTTACTATTTCTCTGATTTCTTCATTTACTTCTACTCTTCAAT
1 TT-TTACT-TCTG--CTCTT-AATTACTATTTCTCTGATTTCTTCTTTTACTTCTACT-TTCAAT
* *
71102 TACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTT
60 TACTACTT-CCT-ATTACTACTTTTTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTT
* * * * * * * * * *
71167 TCTTCTGCTCCTAATTACTATTTTTCTGATTTCTTCTTTTACTATTTCTGATTTCTCTGATTTCT
123 ACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTT--T-CTTCTG--CTCT-TAATTAC-
* * * *
71232 TTACTTTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTAC-T-TTTT
181 -TAC--TTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTT
71295 --TT
243 ACTT
* * *
71297 TTTTACTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTATTTCT-TTTTC-TTTGA
1 TTTTACTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTTAC---TTCTACTTTCAATT-A
* * * * ** ** *
71360 TTTCTT-CT-TT--TACTATTTC-TCTGAT-TTCTTTACTTTTTCTCTGATTTCTTCTTCTACTT
62 CTACTTCCTATTACTACTTTTTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTT
* *
71419 CTACTCTTCAATTACTACTTCTCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTG
127 CTACTCTT-AATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCTG
*
71484 ATTTCTTCTTTTTCTTCTGATCTTAATTACTATTTCTCTGATTTCTTCTTTTACTT
191 ATTTCTTCTTTTTCTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTTACTT
71540 CTACTCTTAA
Statistics
Matches: 404, Mismatches: 72, Indels: 61
0.75 0.13 0.11
Matches are distributed among these distances:
239 47 0.12
240 1 0.00
241 7 0.02
243 6 0.01
244 3 0.01
246 5 0.01
247 1 0.00
248 33 0.08
249 29 0.07
250 9 0.02
251 3 0.01
252 4 0.01
254 6 0.01
255 135 0.33
256 31 0.08
257 3 0.01
258 13 0.03
259 3 0.01
260 6 0.01
261 6 0.01
263 7 0.02
264 1 0.00
265 45 0.11
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.57
Consensus pattern (246 bp):
TTTTACTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTTACTTCTACTTTCAATTACTAC
TTCCTATTACTACTTTTTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTTCTAC
TCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCTGATTTC
TTCTTTTTCTTCTGCTCTTAATTACTATTTCTCTGATTTCTTCTTTTACTT
Found at i:71133 original size:175 final size:171
Alignment explanation
Indices: 70886--71538 Score: 842
Period size: 175 Copynumber: 3.9 Consensus size: 171
70876 CCGCTCTTAA
* *
70886 TTACTACTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTT
1 TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTT
* *
70951 TTCTTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTC
66 TTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTACTTC
*
71016 TCCGATTTCTTCTTTTACTATTTCT-TTTTCTCTGATTTCTTCTT
131 TCCGATTTCTTCTTTTACTATTTCTGATTTCTCTGA--T-TTC-T
* * *
71060 TTACTATTTCTCTGATTTCTTCATTTACTTCTACTCTTCAATTACTACTTCCCTGATTACTCCTT
1 TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTT-AATTACTACTTCTCTGATTACTTCTT
* *
71125 TTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTATTT
65 TTTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTACTT
* *
71190 TTCTGATTTCTTCTTTTACTATTTCTGATTTCTCTGATTTCT
130 CTCCGATTTCTTCTTTTACTATTTCTGATTTCTCTGATTTCT
* * *
71232 TTACT-TTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTT
1 TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTAC---TTC
*
71296 TTTTTACTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTAT-T--T-CT--TT--T
63 TTTTT-CTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTTCT-TCTGCTCCTAATTACT
*
71353 TCTT-T--GATTTCTTC-TTT--TA---CT-ATTTCTCTGATTTCT
126 ACTTCTCCGATTTCTTCTTTTACTATTTCTGATTTCTCTGATTTCT
* * *
71389 TTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTT
1 TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTT-AATTACTACTTCTCTGATTACTTCTT
* * * *
71454 TTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTTCTTCTGATCTTAATTACTATTT
65 TTTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTACTT
*
71519 CTCTGATTTCTTCTTTTACT
130 CTCCGATTTCTTCTTTTACT
71539 TCTACTCTTA
Statistics
Matches: 424, Mismatches: 32, Indels: 52
0.83 0.06 0.10
Matches are distributed among these distances:
154 1 0.00
155 41 0.10
156 6 0.01
157 21 0.05
158 34 0.08
159 19 0.04
160 2 0.00
161 2 0.00
162 3 0.01
163 4 0.01
164 9 0.02
165 9 0.02
166 4 0.01
167 3 0.01
168 1 0.00
169 2 0.00
170 18 0.04
171 33 0.08
172 7 0.02
173 9 0.02
174 77 0.18
175 110 0.26
176 9 0.02
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.57
Consensus pattern (171 bp):
TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTT
TTCTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTACTTC
TCCGATTTCTTCTTTTACTATTTCTGATTTCTCTGATTTCT
Found at i:71166 original size:40 final size:40
Alignment explanation
Indices: 71060--71575 Score: 374
Period size: 40 Copynumber: 12.7 Consensus size: 40
71050 ATTTCTTCTT
* * * *
71060 TTACTATTTCTCTGATTTCTTCATTTACTTCTACTCTTCAA
1 TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTT-AA
* * *
71101 TTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAA
1 TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
* *
71141 TGACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAA
1 TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
* * * * *
71181 TTACTATTTTTCTGATTTCTTCTTTTACTATTTCTGATTTCTCTGA
1 TTACTACTTCTCTGATTTCTTCTTTT--T-CTTCTG--CTCT-TAA
* * *
71227 TTTCTTTACTTTTCTCTGATTTCTTCTTTTACTTCTACTCTTAA
1 TTAC--TAC--TTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
* * * *
71271 TTACTATTTTTCTGATTACTTTTTTTTTTTACTTCTGCTCTTAA
1 TTACTACTTCTCTGA-T--TTCTTCTTTTT-CTTCTGCTCTTAA
*
71315 TTACTACTTCTCTGATTTCTTCTTTTACTAT-T--TCTT--
1 TTACTACTTCTCTGATTTCTTCTTTTTCT-TCTGCTCTTAA
* * *
71351 TT--T-C-T-T-TGATTTCTTCTTTTACTAT-TTCTC-TGA
1 TTACTACTTCTCTGATTTCTTCTTTTTCT-TCTGCTCTTAA
* * * *
71384 TTTCTTTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAA
1 TTAC--TAC---TTCTCTGATTTCTTCTTTTTCTTCTGCTCTT-AA
* *
71430 TTACTACTTCTCTGATTACTCCTTTTTCTTCTGCTCTTAA
1 TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
* *
71470 TGACTACTTCTCTGATTTCTTCTTTTTCTTCTGATCTTAA
1 TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
* * *
71510 TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTTAA
1 TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
* * * *
71550 TTATTATTTTTCTGATTACTTCTTTT
1 TTACTACTTCTCTGATTTCTTCTTTT
71576 CTTACTTTTA
Statistics
Matches: 382, Mismatches: 60, Indels: 67
0.75 0.12 0.13
Matches are distributed among these distances:
30 20 0.05
31 2 0.01
32 3 0.01
33 3 0.01
34 1 0.00
36 2 0.01
37 1 0.00
38 5 0.01
40 166 0.43
41 67 0.18
42 4 0.01
43 16 0.04
44 53 0.14
45 6 0.02
46 9 0.02
47 4 0.01
48 2 0.01
50 18 0.05
ACGTcount: A:0.15, C:0.22, G:0.04, T:0.58
Consensus pattern (40 bp):
TTACTACTTCTCTGATTTCTTCTTTTTCTTCTGCTCTTAA
Found at i:71302 original size:44 final size:44
Alignment explanation
Indices: 71253--71340 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
71243 TGATTTCTTC
* * *
71253 TTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTTT
1 TTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTT
* *
71297 TTTTACTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTT
1 TTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTT
71341 ACTATTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.16, C:0.19, G:0.03, T:0.61
Consensus pattern (44 bp):
TTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTT
Found at i:71304 original size:215 final size:218
Alignment explanation
Indices: 70811--71343 Score: 584
Period size: 215 Copynumber: 2.5 Consensus size: 218
70801 TTAATCACTA
* * * * * *
70811 TTTCTCTGATTACTTGTTTTACTACTACTTTTAATTACTACTTCTCTTATTAC--TTTTTTTTT-
1 TTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTCTCTGATTACTTTTTTTTTTTA
* *
70873 CTTCCGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTC
66 CTTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTTCTACTCTTAATGACTACTTCTC
* *
70938 TGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCT
131 TGATTACTTCTTTTTCTTCTGCTCCTAATTACTACTTCTCTGATTACTTCTTTTACTTCT-CTCT
71003 TAATTACTACTTCTCCGATTTCTTCT
195 TAATTA-TACTTCT-CGATTTCTTCT
* * * * **
71029 TTT-ACT-ATTTCTTTTTCTCTGATTTCT--TCTT--TTACTATTTCTCTG---A-TTTCTTCAT
1 TTTCTCTGATTTCTTCTT-T-T-ACTTCTACTCTTAATTACTATTTCTCTGATTACTTTTTTTTT
* * * * *
71084 TTACTTCTACTCTTCAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACT
63 TTACTTCTGCTCTT-AATTACTACTTCTCTGATTACTTCTTTTACTTCTACTCTTAATGACTACT
* * * *
71149 TCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTATTTTTCTGATTTCTTCTTTTACTAT-T
127 TCTCTGATTACTTCTTTTTCTTCTGCTCCTAATTACTACTTCTCTGATTACTTCTTTTACT-TCT
*
71213 -TC-TGATT-T-C-TCT-GATTTCTTTACT
191 CTCTTAATTATACTTCTCGATTTC-TT-CT
*
71237 TTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTTTTTTTA
1 TTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTCTCTGATTACTTTTTTTTTTTA
*
71302 CTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACT
66 CTTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACT
71344 ATTTCTTTTT
Statistics
Matches: 258, Mismatches: 37, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
206 6 0.02
207 7 0.03
208 9 0.03
209 8 0.03
210 10 0.04
211 13 0.05
212 5 0.02
213 8 0.03
214 37 0.14
215 132 0.51
216 9 0.03
217 6 0.02
218 4 0.02
219 4 0.02
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.57
Consensus pattern (218 bp):
TTTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTCTCTGATTACTTTTTTTTTTTA
CTTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTTCTACTCTTAATGACTACTTCTC
TGATTACTTCTTTTTCTTCTGCTCCTAATTACTACTTCTCTGATTACTTCTTTTACTTCTCTCTT
AATTATACTTCTCGATTTCTTCT
Found at i:71349 original size:15 final size:15
Alignment explanation
Indices: 71329--71379 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
71319 TACTTCTCTG
71329 ATTTCTTCTTTTACT
1 ATTTCTTCTTTTACT
*
71344 ATTTCTT-TTTCT-TT
1 ATTTCTTCTTT-TACT
71358 GATTTCTTCTTTTACT
1 -ATTTCTTCTTTTACT
71374 ATTTCT
1 ATTTCT
71380 CTGATTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.13
15 22 0.73
16 4 0.13
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.69
Consensus pattern (15 bp):
ATTTCTTCTTTTACT
Found at i:71355 original size:155 final size:155
Alignment explanation
Indices: 71059--71495 Score: 531
Period size: 174 Copynumber: 2.7 Consensus size: 155
71049 GATTTCTTCT
* *
71059 TTTACTATTTCTCTGATTTCTTCATT-TACTTCTACTCTTCAATTACTACTTCCCTGATTACTCC
1 TTTACTTTTTCTCTGATTTCTTC-TTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCC
*
71123 TTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTTCT-TCTGCTCCTAATTACTA
65 TTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTACTAT-T--T-C---TT--T-
* *
71187 TTTTTCTGATTTCTTCTTTTACTATTTCTGATTTCTCTGATTTC
120 TTCTT-TGATTTCTAC-TTT--TA---CT-ATTTCTCTGATTTC
* * *
71231 TTTAC-TTTTCTCTGATTTCTTCTTTTACTTCTACTCTT-AATTACTATTTTTCTGATTACTTTT
1 TTTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTAC---T
** *
71294 TTTTTTTACTTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTATTTCTTTTTCTTTG
63 CCTTTTT-CTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTACTATTTCTTTTTCTTTG
*
71359 ATTTCTTCTTTTACTATTTCTCTGATTTC
127 ATTTCTACTTTTACTATTTCTCTGATTTC
71388 TTTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCT
1 TTTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCT
71453 TTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTT
66 TTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTT
71496 TCTTCTGATC
Statistics
Matches: 242, Mismatches: 15, Indels: 33
0.83 0.05 0.11
Matches are distributed among these distances:
155 38 0.16
156 6 0.02
157 19 0.08
158 34 0.14
159 19 0.08
161 2 0.01
163 3 0.01
164 10 0.04
165 4 0.02
166 1 0.00
168 2 0.01
170 20 0.08
171 30 0.12
172 6 0.02
173 6 0.02
174 41 0.17
175 1 0.00
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (155 bp):
TTTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCT
TTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTACTATTTCTTTTTCTTTGATTT
CTACTTTTACTATTTCTCTGATTTC
Found at i:71361 original size:30 final size:30
Alignment explanation
Indices: 71322--71379 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
71312 TAATTACTAC
71322 TTCTCTGATTTCTTCTTTTACTATTTCTTT
1 TTCTCTGATTTCTTCTTTTACTATTTCTTT
*
71352 TTCTTTGATTTCTTCTTTTACTATTTCT
1 TTCTCTGATTTCTTCTTTTACTATTTCT
71380 CTGATTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.67
Consensus pattern (30 bp):
TTCTCTGATTTCTTCTTTTACTATTTCTTT
Found at i:71393 original size:20 final size:20
Alignment explanation
Indices: 71368--71409 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
71358 GATTTCTTCT
71368 TTTACTATTTCTCTGATTTC
1 TTTACTATTTCTCTGATTTC
*
71388 TTTACTTTTTCTCTGATTTC
1 TTTACTATTTCTCTGATTTC
71408 TT
1 TT
71410 CTTCTACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTACTATTTCTCTGATTTC
Found at i:71425 original size:24 final size:22
Alignment explanation
Indices: 71350--71418 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 22
71340 TACTATTTCT
*
71350 TTTTCTTTGATTTCTTCTTTTAC
1 TTTTCTCTGATTTCTTC-TTTAC
71373 TATTTCTCTGA--T-TTCTTTAC
1 T-TTTCTCTGATTTCTTCTTTAC
71393 TTTTTCTCTGATTTCTTCTTCTAC
1 -TTTTCTCTGATTTCTTCTT-TAC
71417 TT
1 TT
71419 CTACTCTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
20 14 0.36
21 4 0.10
22 2 0.05
23 8 0.21
24 11 0.28
ACGTcount: A:0.10, C:0.20, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTCTCTGATTTCTTCTTTAC
Found at i:71429 original size:329 final size:335
Alignment explanation
Indices: 70893--71538 Score: 965
Period size: 329 Copynumber: 1.9 Consensus size: 335
70883 TAATTACTAC
70893 TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCT
1 TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCT
*
70958 GCTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCTGCTCTTAATTACTACTTCTCCGATT
66 GCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTTCT-CTCTT-ATTA-TACTTCT-CGATT
71023 TCTTCTTTTACTATTTCTTTTTCTCTGATTTCTTCTTTTACTATTTCTCTGATTTCTTCATTTAC
127 TCTTCTTTTACTA-----TTTTCTCTGA-TTCTTCTTTTACTATTTCTCTGATTTCTTCATTTAC
71088 TTCTACTCTTCAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTC
186 TTCTACTCTTCAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTC
* *
71153 TGATTTCTTCTTTTTCTTCTGCTCCTAATTACTATTTTTCTGATTTCTTCTTTTACTATTTCTGA
251 TGATTTCTTCTTTTTCTTCTGATCCTAATTACTATTTCTCTGATTTCTTCTTTTACTATTTCTGA
71218 TTTCTCTGATTTCTTTACTT
316 TTTCTCTGATTTCTTTACTT
* * * *
71238 TTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTTTTTTTAC
1 TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTAC---TTCTTTTT-C
*
71303 TTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTAT-T-TCTT-TT-T-CTT-T-GAT
62 TTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTACT-TCTCTCTTATTATACTTCTCGAT
*
71361 TTCTTCTTTTACTA-TTTCTCTGA-T-TTC-TTTACTTTTTCTCTGATTTCTTC-TTCTACTTCT
126 TTCTTCTTTTACTATTTTCTCTGATTCTTCTTTTACTATTTCTCTGATTTCTTCATT-TACTTCT
*
71421 ACTCTTCAATTACTACTTCTCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGAT
190 ACTCTTCAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGAT
*
71486 TTCTTCTTTTTCTTCTGATCTTAATTACTATTTCTCTGATTTCTTCTTTTACT
255 TTCTTCTTTTTCTTCTGATCCTAATTACTATTTCTCTGATTTCTTCTTTTACT
71539 TCTACTCTTA
Statistics
Matches: 284, Mismatches: 11, Indels: 28
0.88 0.03 0.09
Matches are distributed among these distances:
328 2 0.01
329 143 0.50
330 3 0.01
331 1 0.00
333 9 0.03
339 17 0.06
341 1 0.00
342 3 0.01
343 1 0.00
345 51 0.18
347 4 0.01
348 7 0.02
349 41 0.14
350 1 0.00
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.58
Consensus pattern (335 bp):
TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTTTTTCTTCT
GCTCTTAATTACTACTTCTCTGATTACTTCTTTTACTTCTCTCTTATTATACTTCTCGATTTCTT
CTTTTACTATTTTCTCTGATTCTTCTTTTACTATTTCTCTGATTTCTTCATTTACTTCTACTCTT
CAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTC
TTTTTCTTCTGATCCTAATTACTATTTCTCTGATTTCTTCTTTTACTATTTCTGATTTCTCTGAT
TTCTTTACTT
Found at i:71521 original size:80 final size:81
Alignment explanation
Indices: 71396--71597 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 81
71386 TCTTTACTTT
* *
71396 TTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTTTTTCTTC
1 TTCTCTGATTTCTTCTTTTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTTTTACTTC
*
71461 TGCTCTTAATGACTAC
66 TACTCTTAATGACTAC
* * * *
71477 TTCTCTGATTTCTTCTTTTTCTTCTGA-TCTT-AATTACTATTTCTCTGATTTCTTCTTTTACTT
1 TTCTCTGATTTCTTCTTTTACTTCT-ACTCTTCAATTACTACTTCTCTGATTACTCCTTTTACTT
* * *
71540 CTACTCTTAATTATTAT
65 CTACTCTTAATGACTAC
* * *
71557 TTTTCTGATTACTTCTTTTCTTACTTTTACTCTT-AATTACT
1 TTCTCTGATTTCTTC--TT-TTACTTCTACTCTTCAATTACT
71598 TCTTTTACTT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
80 54 0.53
81 27 0.26
82 4 0.04
83 17 0.17
ACGTcount: A:0.16, C:0.23, G:0.04, T:0.56
Consensus pattern (81 bp):
TTCTCTGATTTCTTCTTTTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTTTTACTTC
TACTCTTAATGACTAC
Found at i:71524 original size:21 final size:22
Alignment explanation
Indices: 71454--71565 Score: 66
Period size: 21 Copynumber: 5.5 Consensus size: 22
71444 ATTACTCCTT
* *
71454 TTTCTTCTGCTCTTAATGACTA
1 TTTCTTCTGATCTTAATTACTA
* * *
71476 CTTC-TCTGAT-TT-CTT-CTT
1 TTTCTTCTGATCTTAATTACTA
71494 TTTCTTCTGATCTTAATTACTA
1 TTTCTTCTGATCTTAATTACTA
*
71516 TTTC-TCTGAT-TT-CTT-CT-
1 TTTCTTCTGATCTTAATTACTA
*
71533 TTTACTTCT-ACTCTTAATTATTA
1 TTT-CTTCTGA-TCTTAATTACTA
71556 TTT-TTCTGAT
1 TTTCTTCTGAT
71566 TACTTCTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 25
0.65 0.11 0.24
Matches are distributed among these distances:
17 3 0.04
18 9 0.13
19 13 0.19
20 8 0.12
21 20 0.30
22 11 0.16
23 3 0.04
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTCTTCTGATCTTAATTACTA
Found at i:71625 original size:121 final size:119
Alignment explanation
Indices: 71389--71625 Score: 273
Period size: 121 Copynumber: 2.0 Consensus size: 119
71379 TCTGATTTCT
*
71389 TTACTTTTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTT
1 TTACTATTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTT
* * *
71454 TTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTTCTTCTGATCTTAA
66 TTTCTTCTACTCTTAATGACTACTTCTCT-ATTTCTTC-TATTCTGCTGATCTTAA
* * * * *
71510 TTACTATTTCTCTGATTTCTTCTTTTACTTCTACTCTT-AATTATTATTTTTCTGATTACTTCTT
1 TTACTATTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTAC-TCCT
* * * *
71574 TTCTTACTTTTACTCTTAATTACTTCTTTTACT-TTTACTTC-ATTCTGCTGAT
65 TT-TT-CTTCTACTCTTAATGACTACTTCT-CTATTT-CTTCTATTCTGCTGAT
71626 TACTTCTTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
120 18 0.18
121 50 0.51
122 5 0.05
123 23 0.23
124 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.04, T:0.57
Consensus pattern (119 bp):
TTACTATTTCTCTGATTTCTTCTTCTACTTCTACTCTTCAATTACTACTTCTCTGATTACTCCTT
TTTCTTCTACTCTTAATGACTACTTCTCTATTTCTTCTATTCTGCTGATCTTAA
Found at i:71631 original size:32 final size:32
Alignment explanation
Indices: 71561--71868 Score: 455
Period size: 32 Copynumber: 9.8 Consensus size: 32
71551 TATTATTTTT
*
71561 CTGATTACTTCTTTT-C--TTACTTTTACTCT-
1 CTGATTACTTCTTTTACTTTTAC-TTCACTCTG
* *
71590 -TAATTACTTCTTTTACTTTTACTTCATTCTG
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
* *
71621 CTGATTACTTCTTTTACTTTTACTTTATTCTG
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
*
71653 CTGATTACTTCTTTTACTTTTACTTCACTCTA
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
*
71685 CTGGTTACTTCTTTTACTTTTACTTCACTCTG
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
*
71717 CTGATTACGTCTTTTACTTTTACTTCACTCTG
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
* * * *
71749 CTCATTACTTCTTTTACTTTTACTTTATTCTA
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
71781 CTGATTACTTCTTTTACTTTTACTTCACTCTG
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
71813 CTGATTACTTCTTTTACTTTTACTTCACTCTG
1 CTGATTACTTCTTTTACTTTTACTTCACTCTG
*
71845 CTGATTACTTCTCTTACTTTTACT
1 CTGATTACTTCTTTTACTTTTACT
71869 CTTAATTACC
Statistics
Matches: 252, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
28 13 0.05
29 1 0.00
30 6 0.02
31 4 0.02
32 228 0.90
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.55
Consensus pattern (32 bp):
CTGATTACTTCTTTTACTTTTACTTCACTCTG
Found at i:71698 original size:329 final size:324
Alignment explanation
Indices: 70893--71702 Score: 862
Period size: 329 Copynumber: 2.4 Consensus size: 324
70883 TAATTACTAC
* * *
70893 TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTACTTCTCTGATTACTTCTT-T--TT-C
1 TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTCTGATTAC
*
70954 TTCTGCTCTTAATTACTACTTCTCTGATTACTTCTTTTTCT-TCTGCTCTTAATTACTACTTCTC
66 TTCTGCTCTT-ATTACTACTTCTCTGATTACTTCTTTTACTAT-T--TC----TTACT-C-TCT-
*
71018 CGATTTCTTCTTTTACTATTTCTTTTTCTCTGATTTCTTCTTTTACTATTTCTCTGATTTCTTCA
120 -GATTACTTCTTTTACTA------TTTCTCTGA--T-TTC-TTTACTATTTCTCTGATTTCTTCA
71083 TTTACTTCTACTCTTCAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTAC
174 TTTACTTCTACTCTTCAATTACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTAC
* *
71148 TTCTCTGATTTCTTCTTTTTCTTCTGCTCCTAATTACTATTTTTCTGATTTCTTCTTTTACTATT
239 TTCTCTGATTTCTTCTTTTTCTTCTGATCCTAATTACTATTTCTCTGATTTCTTCTTTTAC--TT
* *
71213 TCTGATTTCTCTGATTTCTTTACTT
302 TCTGA--TCTCTGAATTCATTACTT
* * **
71238 TTCTCTGATTTCTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTTTTTTTAC
1 TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTCTGATTAC
* ** * *
71303 TTCTGCTCTTAATTACTACTTCTCTGATTTCTTCTTTTACTATTTCTTTTTCTTTGATTTCTTCT
66 TTCTGCTCTT-ATTACTACTTCTCTGATTACTTCTTTTACTATTTCTTACTCTCTGATTACTTCT
*
71368 TTTACTATTTCTCTGATTTCTTTACTTTTTCTCTGATTTCTTC-TTCTACTTCTACTCTTCAATT
130 TTTACTATTTCTCTGATTTCTTTACTATTTCTCTGATTTCTTCATT-TACTTCTACTCTTCAATT
*
71432 ACTACTTCTCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTT
194 ACTACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTT
* *
71497 CTTCTGATCTTAATTACTATTTCTCTGATTTCTTCTTTTAC-TTCT-A-CTCTTAATT-ATTA-T
259 CTTCTGATCCTAATTACTATTTCTCTGATTTCTTCTTTTACTTTCTGATCTCTGAATTCATTACT
71557 T
324 T
* *
71558 TT-TCTGATTACTTCTTTTCTTACTTTTACTCTTAATTACT-TCTTTTACT-TTTACTTCATTCT
1 TTCTCTGATTACTTC--TT-TTACTTCTACTCTTAATTACTAT-TTTT-CTGATTACTT--TT-T
**
71620 GCTGATTACTTCTTTTACTT-TTACTTTA-TTCTGCTGATTACTTCTTTTACT-TTTACTTCACT
58 -CTGATTACTTCTGCT-CTTATTAC--TACTTCT-CTGATTACTTCTTTTACTATTT-CTT-ACT
*
71682 CTACTGGTTACTTCTTTTACT
116 CT-CTGATTACTTCTTTTACT
71703 TTTACTTCAC
Statistics
Matches: 412, Mismatches: 31, Indels: 60
0.82 0.06 0.12
Matches are distributed among these distances:
319 11 0.03
320 4 0.01
321 6 0.01
322 37 0.09
323 2 0.00
324 2 0.00
325 6 0.01
326 21 0.05
327 25 0.06
328 5 0.01
329 157 0.38
330 3 0.01
331 1 0.00
333 9 0.02
339 17 0.04
341 2 0.00
342 1 0.00
343 3 0.01
345 53 0.13
346 1 0.00
347 2 0.00
348 2 0.00
349 41 0.10
350 1 0.00
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.58
Consensus pattern (324 bp):
TTCTCTGATTACTTCTTTTACTTCTACTCTTAATTACTATTTTTCTGATTACTTTTTCTGATTAC
TTCTGCTCTTATTACTACTTCTCTGATTACTTCTTTTACTATTTCTTACTCTCTGATTACTTCTT
TTACTATTTCTCTGATTTCTTTACTATTTCTCTGATTTCTTCATTTACTTCTACTCTTCAATTAC
TACTTCCCTGATTACTCCTTTTTCTTCTGCTCTTAATGACTACTTCTCTGATTTCTTCTTTTTCT
TCTGATCCTAATTACTATTTCTCTGATTTCTTCTTTTACTTTCTGATCTCTGAATTCATTACTT
Found at i:79553 original size:23 final size:24
Alignment explanation
Indices: 79521--79565 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
79511 TCTTTTAATT
79521 TTTCTTGC-TTGCTATTGATTGCAA
1 TTTCTTGCTTTGCT-TTGATTGCAA
79545 TTTC-TGCTTTGCTTTGATTGC
1 TTTCTTGCTTTGCTTTGATTGC
79566 TTTGATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (24 bp):
TTTCTTGCTTTGCTTTGATTGCAA
Done.