Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold258
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: 5730937
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 25
Found at i:4720785 original size:13 final size:14
Alignment explanation
Indices: 4720767--4720795 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4720757 TAATATATAA
4720767 TAAATTTTAA-ATT
1 TAAATTTTAATATT
4720780 TAAATTTTAATATT
1 TAAATTTTAATATT
4720794 TA
1 TA
4720796 TAATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATTTTAATATT
Found at i:4721828 original size:2 final size:2
Alignment explanation
Indices: 4721821--4721845 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4721811 AATTAATTAA
4721821 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4721846 GCGAGGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4722713 original size:16 final size:16
Alignment explanation
Indices: 4722692--4722722 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4722682 TATTCTCCAT
4722692 TGGAAAACAGCAAGAA
1 TGGAAAACAGCAAGAA
4722708 TGGAAAACAGCAAGA
1 TGGAAAACAGCAAGA
4722723 TATACGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.26, T:0.06
Consensus pattern (16 bp):
TGGAAAACAGCAAGAA
Found at i:4725143 original size:25 final size:23
Alignment explanation
Indices: 4725115--4725161 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
4725105 TATTTAATAC
*
4725115 TAATATTTTATATGGATATAAAATG
1 TAATATTTTAAAT--ATATAAAATG
*
4725140 TAATTTTTTAAATATATAAAAT
1 TAATATTTTAAATATATAAAAT
4725162 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
TAATATTTTAAATATATAAAATG
Found at i:4725471 original size:2 final size:2
Alignment explanation
Indices: 4725464--4725491 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4725454 AGGCGGAAAC
4725464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4725492 GTACAGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4727918 original size:20 final size:19
Alignment explanation
Indices: 4727893--4727938 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
4727883 AATTTCTAAT
4727893 AATTTAATAA-ATTTTTATTA
1 AATTTAA-AATATTTTT-TTA
4727913 AATTTAAAATATTTTTTTA
1 AATTTAAAATATTTTTTTA
4727932 ATATTTA
1 A-ATTTA
4727939 TATTATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTAAAATATTTTTTTA
Found at i:4728001 original size:11 final size:10
Alignment explanation
Indices: 4727975--4728016 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
4727965 ATTATATAAT
4727975 ATATAAATTA
1 ATATAAATTA
4727985 ATATAAATTA
1 ATATAAATTA
4727995 CATAT-AATTA
1 -ATATAAATTA
* *
4728005 AAAAAAATTA
1 ATATAAATTA
4728015 AT
1 AT
4728017 TTATTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.07
10 21 0.78
11 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
ATATAAATTA
Found at i:4734241 original size:13 final size:13
Alignment explanation
Indices: 4734210--4734246 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4734200 ATTTGTATAG
4734210 AATTATTTTATTAA
1 AATTATTTT-TTAA
*
4734224 TATTATTTTTTAA
1 AATTATTTTTTAA
4734237 AATTATTTTT
1 AATTATTTTT
4734247 ATTTGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
AATTATTTTTTAA
Found at i:4734544 original size:134 final size:135
Alignment explanation
Indices: 4734323--4734651 Score: 353
Period size: 134 Copynumber: 2.4 Consensus size: 135
4734313 TAATAATTTT
** * *
4734323 AATATTTTAACGTAATAAGAAAATAATTAATAAAAAGTTAGATTAAAAATAGTTAATATTAATAA
1 AATATTTTAATTTAATAA-AAAATAATTAATAAAAAATTAGATT-AAAA-A-TT-A-GTTAATAA
* *
4734388 AAAATATATCAATGAAATAAAATTTAGATTAA-TAAGGACTTTCAA-ATTAGTAAAACAATAATA
60 AAAATATATCAATGAAATAAAATTTACATTAATTAA-GA-TTTCAAGATTAATAAAA-AATAATA
*
4734451 AAT-AAAATTACTT
122 AATAAAAATTACTC
** * *
4734464 AATATTTTGGTTTAATAAAAAAT-ATTAATAAAAACTTAGATTAAAAATTAGTTAATAAAATATA
1 AATATTTTAATTTAATAAAAAATAATTAATAAAAAATTAGATTAAAAATTAGTTAATAAAAAATA
* *
4734528 TATCAATTAAGA-AAAATTTACATTAATTAAGATTTCAAGCTTAATAAAAAATAATAAATAAAAA
66 TATCAATGAA-ATAAAATTTACATTAATTAAGATTTCAAGATTAATAAAAAATAATAAATAAAAA
*
4734592 TTAGTC
130 TTACTC
* * * *
4734598 AATATTTTAATTTATTAAAAATTCATTTAATAAAAAAATTAGTTTAAAAATTAG
1 AATATTTTAATTTAATAAAAAAT-AATTAAT-AAAAAATTAGATTAAAAATTAG
4734652 ATAAAATTAA
Statistics
Matches: 161, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
133 16 0.10
134 71 0.44
135 5 0.03
136 7 0.04
137 21 0.13
138 4 0.02
139 18 0.11
140 5 0.03
141 14 0.09
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (135 bp):
AATATTTTAATTTAATAAAAAATAATTAATAAAAAATTAGATTAAAAATTAGTTAATAAAAAATA
TATCAATGAAATAAAATTTACATTAATTAAGATTTCAAGATTAATAAAAAATAATAAATAAAAAT
TACTC
Found at i:4734670 original size:134 final size:132
Alignment explanation
Indices: 4734384--4734771 Score: 322
Period size: 134 Copynumber: 2.8 Consensus size: 132
4734374 GTTAATATTA
* * * *
4734384 ATAAAAAATATATCAATGAA-ATAAAATTTAGATTAATAAGGACTTTCAAATTAGTAAAACAATA
1 ATAAAATATATATCAATTAAGA-AAAATTTACATTAATAAGGACTTTCAAATTAATAAAACAATA
* ** *
4734448 ATAAATAAAATTACTTAATATTTTGGTTTAATAAAAAATATTAATAAAAACTTAGATTAAAAATT
65 ATAAATAAAATTACTCAATATTTTAATTTAATAAAAAATATTAATAAAAAATTAGATTAAAAATT
4734513 AGTT
130 AG-T
*
4734517 AATAAAATATATATCAATTAAGAAAAATTTACATTAATTAA-GA-TTTCAAGCTTAATAAAA-AA
1 -ATAAAATATATATCAATTAAGAAAAATTTACATTAA-TAAGGACTTTCAA-ATTAATAAAACAA
* * * *
4734579 TAATAAATAAAAATTAGTCAATATTTTAATTTATTAAAAATTCATTTAATAAAAAAATTAGTTTA
63 TAATAAAT-AAAATTACTCAATATTTTAATTTAATAAAAAAT-A-TTAAT-AAAAAATTAGATTA
4734644 AAAATTAGAT
124 AAAATTAG-T
* * * * *
4734654 AAAATTAATAATAATTAAACATATTAATTAAGAAAAGTTTACATTAATAAAGAATTTAAAATTAA
1 ---A-TAA-AAT-A-T----ATATCAATTAAGAAAAATTTACATTAATAAGGACTTTCAAATTAA
* * * * *
4734719 T-AAA-GA-ACTAAATAAAATTTCTCAATATTTTATTTTTAATAAAAATTATTAAT
55 TAAAACAATAATAAATAAAATTACTCAATATTTTA-ATTTAATAAAAAATATTAAT
4734772 TGATTAAAGA
Statistics
Matches: 210, Mismatches: 24, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
133 16 0.08
134 68 0.32
135 5 0.02
136 5 0.02
137 21 0.10
139 2 0.01
140 3 0.01
141 3 0.01
142 1 0.00
143 6 0.03
144 18 0.09
145 18 0.09
146 7 0.03
147 32 0.15
148 5 0.02
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (132 bp):
ATAAAATATATATCAATTAAGAAAAATTTACATTAATAAGGACTTTCAAATTAATAAAACAATAA
TAAATAAAATTACTCAATATTTTAATTTAATAAAAAATATTAATAAAAAATTAGATTAAAAATTA
GT
Found at i:4734887 original size:5 final size:5
Alignment explanation
Indices: 4734871--4734906 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
4734861 TATATGTTAT
4734871 ATATA TATATA ATATA ATA-A ATATA ATATA ATATA A
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA A
4734907 AAATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:4734906 original size:16 final size:16
Alignment explanation
Indices: 4734871--4734917 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
4734861 TATATGTTAT
*
4734871 ATATATATATAATAT-
1 ATATAAATATAATATA
4734886 A-ATAAATATAATATA
1 ATATAAATATAATATA
*
4734901 ATATAAAAAT-ATATA
1 ATATAAATATAATATA
4734916 AT
1 AT
4734918 TATTAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 12 0.43
15 9 0.32
16 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAATATAATATA
Found at i:4737487 original size:93 final size:93
Alignment explanation
Indices: 4737328--4737517 Score: 328
Period size: 93 Copynumber: 2.0 Consensus size: 93
4737318 AGCTGAATGT
*
4737328 AGACAGAGACTTAAACACCAGCTATCAATATGATCTCTAATATAATTTAATGAAACCGAGCACTG
1 AGACAGAGACTTAAACACCAGCTATCAATATGATCTCTAATATAATTTAATGAAACAGAGCACTG
*
4737393 AATTCTCTCCACTCATTTCG-CCTCTTGA
66 AATTCTCTCCACTCA-TTCGACCCCTTGA
* *
4737421 AGACAGAGATTTCAACACCAGCTATCAATATGATCTCTAATATAATTTAATGAAACAGAGCACTG
1 AGACAGAGACTTAAACACCAGCTATCAATATGATCTCTAATATAATTTAATGAAACAGAGCACTG
4737486 AATTCTCTCCACTCATTCGACCCCTTGA
66 AATTCTCTCCACTCATTCGACCCCTTGA
4737514 AGAC
1 AGAC
4737518 GCATTCGTAT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 4 0.04
93 88 0.96
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (93 bp):
AGACAGAGACTTAAACACCAGCTATCAATATGATCTCTAATATAATTTAATGAAACAGAGCACTG
AATTCTCTCCACTCATTCGACCCCTTGA
Found at i:4751869 original size:46 final size:46
Alignment explanation
Indices: 4751802--4751891 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
4751792 TTTGATTCTC
4751802 ATTATACATGTTTAGCCGGTCATTTAGAGCACCCAAATAGGCTTGT
1 ATTATACATGTTTAGCCGGTCATTTAGAGCACCCAAATAGGCTTGT
4751848 ATTATACATGTTTAGCCGGTCATTTAGAGCACCCAAATAGGCTT
1 ATTATACATGTTTAGCCGGTCATTTAGAGCACCCAAATAGGCTT
4751892 TCTTTCCCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (46 bp):
ATTATACATGTTTAGCCGGTCATTTAGAGCACCCAAATAGGCTTGT
Found at i:4752572 original size:31 final size:31
Alignment explanation
Indices: 4752537--4752603 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 31
4752527 AAATTATATA
4752537 ATTTA-ATTAAATATTTATTATA-TTAATA-TTT
1 ATTTACATTAAA-A-TT-TTATAGTTAATATTTT
4752568 ATTTATCATTAAAATTTTATAGTTAATATTTT
1 ATTTA-CATTAAAATTTTATAGTTAATATTTT
4752600 ATTT
1 ATTT
4752604 TTTTAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
30 5 0.16
31 13 0.41
32 8 0.25
33 6 0.19
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (31 bp):
ATTTACATTAAAATTTTATAGTTAATATTTT
Found at i:4754767 original size:18 final size:17
Alignment explanation
Indices: 4754746--4754804 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
4754736 ATTAAAATTT
4754746 ATATAATATAATTTATTA
1 ATAT-ATATAATTTATTA
*
4754764 ATATATCAAAATTTATATA
1 ATATAT-ATAATTTAT-TA
4754783 A-ATATATAATATT-TTA
1 ATATATATAAT-TTATTA
4754799 A-ATATA
1 ATATATA
4754805 ATTATTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 8 0.22
17 7 0.19
18 18 0.50
19 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATATAATTTATTA
Found at i:4754768 original size:20 final size:21
Alignment explanation
Indices: 4754719--4754794 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
4754709 ATTAAAATAT
4754719 AATATA-AATATAAATTTATTAA
1 AATATATAATAT-AATTTATT-A
4754741 AATTTATATAATATAATTTATT-
1 AA--TATATAATATAATTTATTA
*
4754763 AATATATCA-A-AATTTATATA
1 AATATATAATATAATTTAT-TA
4754783 AATATATAATAT
1 AATATATAATAT
4754795 TTTAAATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
18 7 0.16
19 2 0.04
20 14 0.31
21 1 0.02
22 4 0.09
24 12 0.27
25 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATATAATATAATTTATTA
Found at i:4754780 original size:32 final size:31
Alignment explanation
Indices: 4754715--4754794 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
4754705 AATAATTAAA
* *
4754715 ATATAATATAAATATAAATTTATTAAAATTT
1 ATATAATATAAATATAAATATATCAAAATTT
* *
4754746 ATATAATATAATTTATTAATATATCAAAATTT
1 ATATAATATAA-ATATAAATATATCAAAATTT
4754778 ATATAAATATATAATAT
1 ATAT-AATATA-AATAT
4754795 TTTAAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 11 0.27
32 20 0.49
33 9 0.22
34 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATAATATAAATATAAATATATCAAAATTT
Found at i:4754815 original size:15 final size:15
Alignment explanation
Indices: 4754779--4754835 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
4754769 TCAAAATTTA
4754779 TATAAATATATAATAT
1 TATAAATATA-AATAT
* *
4754795 TTTAAATATAATTAT
1 TATAAATATAAATAT
* *
4754810 TATAAAAATAAATAA
1 TATAAATATAAATAT
4754825 TATAAATATAA
1 TATAAATATAA
4754836 TATAAAGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 25 0.74
16 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAAATATAAATAT
Found at i:4754826 original size:24 final size:25
Alignment explanation
Indices: 4754799--4754864 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 25
4754789 TAATATTTTA
4754799 AATATAATTATTATAA-AAATAAAT
1 AATATAATTATTATAAGAAATAAAT
*
4754823 AATATAAATATAATATAAAGAAATAAAT
1 AATAT-AAT-TATTAT-AAGAAATAAAT
*
4754851 TAT-TAATTATTATA
1 AATATAATTATTATA
4754865 TCTAACTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
24 6 0.17
25 8 0.23
26 8 0.23
27 3 0.09
28 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATAATTATTATAAGAAATAAAT
Found at i:4754833 original size:30 final size:31
Alignment explanation
Indices: 4754779--4754836 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
4754769 TCAAAATTTA
* * *
4754779 TATAAATATATAATATTTTAAATATAATTAT
1 TATAAAAATATAATAATATAAATATAATTAT
4754810 TATAAAAATA-AATAATATAAATATAAT
1 TATAAAAATATAATAATATAAATATAAT
4754837 ATAAAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TATAAAAATATAATAATATAAATATAATTAT
Found at i:4754834 original size:52 final size:55
Alignment explanation
Indices: 4754717--4754839 Score: 127
Period size: 51 Copynumber: 2.4 Consensus size: 55
4754707 TAATTAAAAT
* * * *
4754717 ATAATATAAATATAAATTTATTAAAATTTATATAATATAATTTATTAATATATCA
1 ATAATATAAATATAAATATATTAAAATTTATATAATATAATTTATTAAAAAATAA
* *
4754772 A-AAT-T-TATATAAATATA-TAATATTT-TA-AATATAA-TTATTATAAAAATAA
1 ATAATATAAATATAAATATATTAAAATTTATATAATATAATTTATTA-AAAAATAA
4754821 ATAATATAAATAT-AATATA
1 ATAATATAAATATAAATATA
4754840 AAGAAATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
48 6 0.11
49 13 0.23
50 5 0.09
51 14 0.25
52 14 0.25
53 1 0.02
54 3 0.05
55 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (55 bp):
ATAATATAAATATAAATATATTAAAATTTATATAATATAATTTATTAAAAAATAA
Found at i:4754857 original size:21 final size:21
Alignment explanation
Indices: 4754798--4754857 Score: 50
Period size: 24 Copynumber: 2.7 Consensus size: 21
4754788 ATAATATTTT
*
4754798 AAATATAATTATT-ATAAAAAT
1 AAATA-AATTATTAATAAAAAG
* *
4754819 AAATAATATAAATATAATATAAAG
1 AAATAA-AT-TAT-TAATAAAAAG
4754843 AAATAAATTATTAAT
1 AAATAAATTATTAAT
4754858 TATTATATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 4 0.13
23 3 0.10
24 12 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATAAATTATTAATAAAAAG
Found at i:4755321 original size:2 final size:2
Alignment explanation
Indices: 4755314--4755339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4755304 TTCAATTAAA
4755314 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4755340 TAAACCACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4766076 original size:30 final size:31
Alignment explanation
Indices: 4766015--4766101 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
4766005 CTTAAATAGG
*
4766015 ATAATTATAAGTTAAATTTAAATAAAATTTT
1 ATAATTAAAAGTTAAATTTAAATAAAATTTT
*
4766046 ATAATTAAAAGTT-AATTT-AAT-TAATTTT
1 ATAATTAAAAGTTAAATTTAAATAAAATTTT
*
4766074 -TTATTAAAA-TTAAATATTAATATAAAAT
1 ATAATTAAAAGTTAAAT-TTAA-ATAAAAT
4766102 AATTTTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.04
27 11 0.23
28 8 0.17
29 4 0.09
30 7 0.15
31 15 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
ATAATTAAAAGTTAAATTTAAATAAAATTTT
Found at i:4766086 original size:17 final size:18
Alignment explanation
Indices: 4766064--4766110 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4766054 AAGTTAATTT
4766064 AATTAATTTTTTAT-TAA
1 AATTAATTTTTTATATAA
* * *
4766081 AATTAAATATTAATATAA
1 AATTAATTTTTTATATAA
4766099 AA-TAATTTTTTA
1 AATTAATTTTTTA
4766111 ATATTATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAATTTTTTATATAA
Found at i:4767796 original size:23 final size:23
Alignment explanation
Indices: 4767749--4767793 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
4767739 AATAAATTAA
*
4767749 AATATAATGTAATATTAAAAAAT
1 AATATAATGTAACATTAAAAAAT
*
4767772 AATATAAATGTAACATCAAAAA
1 AATAT-AATGTAACATTAAAAA
4767794 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
AATATAATGTAACATTAAAAAAT
Found at i:4768042 original size:2 final size:2
Alignment explanation
Indices: 4768035--4768064 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4768025 TATCTCCCTT
4768035 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4768065 CAACAACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4769470 original size:2 final size:2
Alignment explanation
Indices: 4769465--4769517 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
4769455 ACTTACTCCT
4769465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4769507 TA TA TA GA TA T
1 TA TA TA TA TA T
4769518 TTATCTCGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4770598 original size:2 final size:2
Alignment explanation
Indices: 4770591--4770641 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
4770581 TCAAATGAAT
* *
4770591 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA AC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4770633 TC TC TC TC T
1 TC TC TC TC T
4770642 TTTCGTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.04, C:0.47, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:4771219 original size:17 final size:15
Alignment explanation
Indices: 4771173--4771226 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
4771163 ATGATATAAA
4771173 TATATATTTAAAATTT
1 TATATA-TTAAAATTT
*
4771189 TATATAATATAAATTAT
1 TATATATTA-AAATT-T
4771206 TAATATATTAAAA-TT
1 T-ATATATTAAAATTT
4771221 TATATA
1 TATATA
4771227 AATATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 12 0.36
17 5 0.15
18 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATTAAAATTT
Found at i:4771229 original size:27 final size:26
Alignment explanation
Indices: 4771207--4771275 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 26
4771197 ATAAATTATT
4771207 AATATATTAAAATTTATATAAATATAA
1 AATATA-TAAAATTTATATAAATATAA
*
4771234 AATATATAAAATATA-AT-AATATAA
1 AATATATAAAATTTATATAAATATAA
4771258 AA-AT-TATAAATTTA-ATAA
1 AATATATA-AAATTTATATAA
4771276 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.05
23 10 0.26
24 10 0.26
25 2 0.05
26 8 0.21
27 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AATATATAAAATTTATATAAATATAA
Found at i:4771241 original size:15 final size:15
Alignment explanation
Indices: 4771189--4771267 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 15
4771179 TTTAAAATTT
*
4771189 TATAT-AATATAAAT
1 TATATAAATATAAAA
4771203 TAT-TAATATATTAAAA
1 TATATAA-ATA-TAAAA
4771219 TTTATATAAATATAAAA
1 --TATATAAATATAAAA
4771236 TATATAAAATATAATAA
1 TATAT-AAATATAA-AA
*
4771253 TATAAAAATTATAAA
1 TATATAAA-TATAAA
4771268 TTTAATAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
13 1 0.02
14 4 0.07
15 8 0.15
16 16 0.30
17 16 0.30
18 6 0.11
19 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATAAATATAAAA
Found at i:4771254 original size:17 final size:16
Alignment explanation
Indices: 4771189--4771267 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 16
4771179 TTTAAAATTT
* *
4771189 TATATAATATAAATTA
1 TATAAAATATAAAATA
* *
4771205 T-TAATATATTAAAATT
1 TATAAAATA-TAAAATA
4771221 TATATAAATATAAAATA
1 TATA-AAATATAAAATA
4771238 TATAAAATATAATAATA
1 TATAAAATATAA-AATA
4771255 TA-AAAATTATAAA
1 TATAAAA-TATAAA
4771268 TTTAATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.10
16 20 0.38
17 23 0.44
18 4 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TATAAAATATAAAATA
Found at i:4773720 original size:12 final size:12
Alignment explanation
Indices: 4773703--4773739 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4773693 ATTAAAATTT
4773703 TAATAATATAAA
1 TAATAATATAAA
*
4773715 TAATAATTTAAA
1 TAATAATATAAA
4773727 T-ATAA-ATAAA
1 TAATAATATAAA
4773737 TAA
1 TAA
4773740 ATTCAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 5 0.23
11 5 0.23
12 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAATAATATAAA
Found at i:4773722 original size:27 final size:26
Alignment explanation
Indices: 4773687--4773741 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
4773677 TTTAAAATGT
* *
4773687 ATAAAAATTAAAATTTTAATAATATAA
1 ATAAAAATTAAAATATAAATAA-ATAA
* *
4773714 ATAATAATTTAAATATAAATAAATAA
1 ATAAAAATTAAAATATAAATAAATAA
4773740 AT
1 AT
4773742 TCAAATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAAAAATTAAAATATAAATAAATAA
Found at i:4774621 original size:13 final size:13
Alignment explanation
Indices: 4774585--4774628 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4774575 TAATTAATTT
*
4774585 ATATTATTTTAAA
1 ATATAATTTTAAA
* *
4774598 ATTTAAATTTTTAA
1 ATAT-AATTTTAAA
4774612 ATATAATTTTAAA
1 ATATAATTTTAAA
4774625 ATAT
1 ATAT
4774629 TCACGTCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATAATTTTAAA
Found at i:4777228 original size:2 final size:2
Alignment explanation
Indices: 4777221--4777246 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4777211 CAGGTTTGCA
4777221 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4777247 CAAATGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4778320 original size:13 final size:13
Alignment explanation
Indices: 4778302--4778339 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4778292 CACCTTTACT
*
4778302 ATTATTTGATTTA
1 ATTATTTAATTTA
4778315 ATTATTTAATTTA
1 ATTATTTAATTTA
4778328 ATTATTTAATTT
1 ATTATTTAATTT
4778340 TCAAATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
ATTATTTAATTTA
Found at i:4778888 original size:2 final size:2
Alignment explanation
Indices: 4778842--4778880 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4778832 CCTCTCTCTT
4778842 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4778881 CGTATATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4779711 original size:13 final size:14
Alignment explanation
Indices: 4779695--4779729 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4779685 ATCTTGCCTT
4779695 TTTTTCTTTTT-TC
1 TTTTTCTTTTTCTC
4779708 TTTTT-TTTTTCTC
1 TTTTTCTTTTTCTC
4779721 TTTTTCTTT
1 TTTTTCTTT
4779730 GTGTGTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 12 0.60
14 3 0.15
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTTTCTC
Found at i:4779717 original size:19 final size:19
Alignment explanation
Indices: 4779693--4779729 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4779683 TTATCTTGCC
4779693 TTTTTTTCT-TTTTTCTTT
1 TTTTTTTCTCTTTTTCTTT
4779711 TTTTTTTCTCTTTTTCTTT
1 TTTTTTTCTCTTTTTCTTT
4779730 GTGTGTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTCTTT
Found at i:4780226 original size:15 final size:15
Alignment explanation
Indices: 4780208--4780237 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4780198 AAATTAATCA
4780208 ATCCACAATTCAAAG
1 ATCCACAATTCAAAG
4780223 ATCCACAATTCAAAG
1 ATCCACAATTCAAAG
4780238 TTCAATGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (15 bp):
ATCCACAATTCAAAG
Found at i:4785523 original size:2 final size:2
Alignment explanation
Indices: 4785502--4785553 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
4785492 TTTTATATTA
* * *
4785502 AT AT AA AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4785544 AT AT AT AT AT
1 AT AT AT AT AT
4785554 TTGATCCGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4786476 original size:23 final size:23
Alignment explanation
Indices: 4786450--4786504 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
4786440 AATAATTAAT
*
4786450 AAAAGAAATGAAAGAAAAGGAAA
1 AAAAGAAATGAAAGAAAAAGAAA
**
4786473 AAAAGGAAA-GTTAGAAAAAGAAA
1 AAAA-GAAATGAAAGAAAAAGAAA
4786496 AAAA-AAATG
1 AAAAGAAATG
4786505 TATTTCTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.11
22 1 0.04
23 19 0.70
24 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (23 bp):
AAAAGAAATGAAAGAAAAAGAAA
Found at i:4787176 original size:2 final size:2
Alignment explanation
Indices: 4787169--4787207 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4787159 AGCCTTGAAT
4787169 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4787208 ATCAGTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4788447 original size:2 final size:2
Alignment explanation
Indices: 4788434--4788468 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4788424 GCATTTGTTT
*
4788434 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4788469 GATTAACCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4790740 original size:2 final size:2
Alignment explanation
Indices: 4790728--4790768 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
4790718 AAAGAAAGTG
*
4790728 AT AT CAT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4790769 GTTCATGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4797613 original size:11 final size:10
Alignment explanation
Indices: 4797586--4797611 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4797576 GCTGATTCTT
4797586 AAAAAAGAAA
1 AAAAAAGAAA
4797596 AAAAAAGAAA
1 AAAAAAGAAA
4797606 AAAAAA
1 AAAAAA
4797612 AGGCCTCGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:4798764 original size:2 final size:2
Alignment explanation
Indices: 4798757--4798795 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4798747 TTTCATCCCT
4798757 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4798796 TTTCCCCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4803777 original size:2 final size:2
Alignment explanation
Indices: 4803770--4803807 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4803760 TGAACTGAGA
4803770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4803808 GCAGCTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4804712 original size:57 final size:56
Alignment explanation
Indices: 4804598--4804712 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 56
4804588 AATCATTGAA
* * *
4804598 TCAATTTATGAACACAAAAAGTCATCGTCTTACACCTTTACCTTTGAATATCATAT
1 TCAATTCATGAACACAAAAAGTCAGCGTCTTACACCTTTACCTTTGAATACCATAT
* *
4804654 TCAATTCATGAACACAAAAAAGTCAGCGTCTTACACCTTTACCTTTGACTACCCTAT
1 TCAATTCATGAACAC-AAAAAGTCAGCGTCTTACACCTTTACCTTTGAATACCATAT
4804711 TC
1 TC
4804713 TTATCCTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 14 0.26
57 39 0.74
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (56 bp):
TCAATTCATGAACACAAAAAGTCAGCGTCTTACACCTTTACCTTTGAATACCATAT
Found at i:4805954 original size:16 final size:16
Alignment explanation
Indices: 4805933--4805969 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4805923 CAGATCATAT
*
4805933 AAATTCCACTAAAATA
1 AAATTCCACCAAAATA
4805949 AAATTCCACCAAAATA
1 AAATTCCACCAAAATA
4805965 AAATT
1 AAATT
4805970 TGCATGCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTCCACCAAAATA
Found at i:4809546 original size:2 final size:2
Alignment explanation
Indices: 4809539--4809576 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4809529 TTGGCTGTGA
4809539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4809577 CATGGTCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4810205 original size:4 final size:4
Alignment explanation
Indices: 4810196--4810221 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4810186 ATGCAATAAT
4810196 TAGA TAGA TAGA TAGA TAGA TAGA TA
1 TAGA TAGA TAGA TAGA TAGA TAGA TA
4810222 TAGTATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
TAGA
Found at i:4811726 original size:25 final size:24
Alignment explanation
Indices: 4811692--4811764 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
4811682 ATTATGTTTG
4811692 AAATAT-TTTATTATTTAATTAATAA
1 AAATATATTTA-TATTT-ATTAATAA
* *
4811717 AAAT-TATTTAAATTTATTTATAA
1 AAATATATTTATATTTATTAATAA
4811740 AAATAATATTTATATTT-TTAGATAA
1 AAAT-ATATTTATATTTATTA-ATAA
4811765 TAAAATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 11 0.28
24 7 0.17
25 22 0.55
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
AAATATATTTATATTTATTAATAA
Found at i:4811820 original size:20 final size:20
Alignment explanation
Indices: 4811795--4811834 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4811785 AATTTAAATT
4811795 AAATTTAAATAAAAATATAA
1 AAATTTAAATAAAAATATAA
*
4811815 AAATTTAAATAATAATATAA
1 AAATTTAAATAAAAATATAA
4811835 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTTAAATAAAAATATAA
Found at i:4815865 original size:22 final size:22
Alignment explanation
Indices: 4815840--4815884 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4815830 ATTTTATAGT
* *
4815840 ATAAAATAAAAAATTTTAAAAA
1 ATAAAACAAAAAATTATAAAAA
*
4815862 ATAAAACAATAAATTATAAAAA
1 ATAAAACAAAAAATTATAAAAA
4815884 A
1 A
4815885 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAACAAAAAATTATAAAAA
Found at i:4815986 original size:15 final size:13
Alignment explanation
Indices: 4815947--4816047 Score: 70
Period size: 13 Copynumber: 7.9 Consensus size: 13
4815937 AGTATTAAAA
*
4815947 TAAATATAATTTT
1 TAAAAATAATTTT
4815960 T-AAAAT--TTTT
1 TAAAAATAATTTT
4815970 TAAAGATATAATTTT
1 TAAA-A-ATAATTTT
*
4815985 TAAAAATAATTAT
1 TAAAAATAATTTT
*
4815998 T--AAATAATTAT
1 TAAAAATAATTTT
4816009 T-AAAATAATTTTT
1 TAAAAATAA-TTTT
***
4816022 TATCTTATAATTTT
1 TA-AAAATAATTTT
4816036 TAAAAATAATTT
1 TAAAAATAATTT
4816048 GATATTTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
10 5 0.07
11 13 0.19
12 11 0.16
13 22 0.31
14 7 0.10
15 12 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (13 bp):
TAAAAATAATTTT
Found at i:4816004 original size:11 final size:12
Alignment explanation
Indices: 4815977--4816018 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
4815967 TTTTAAAGAT
*
4815977 ATAATTTTTAAAA
1 ATAATTATT-AAA
4815990 ATAATTATT-AA
1 ATAATTATTAAA
4816001 ATAATTATTAAA
1 ATAATTATTAAA
4816013 ATAATT
1 ATAATT
4816019 TTTTATCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.41
12 8 0.30
13 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAATTATTAAA
Found at i:4816699 original size:28 final size:31
Alignment explanation
Indices: 4816651--4816734 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 31
4816641 TTATTCATTT
*
4816651 TTTTAA-TTTTA-ATTAATTTAAAAT-TTTA
1 TTTTAATTTTTATATTAATTTAAAATATTAA
4816679 TTTTAATTTTTATATT-A-TTAAAATATTAA
1 TTTTAATTTTTATATTAATTTAAAATATTAA
4816708 TATTTATATTTTTATAATTAAATTTAA
1 T-TTTA-ATTTTTAT-ATT-AATTTAA
4816735 TTAAATTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
28 13 0.28
29 10 0.22
30 7 0.15
31 8 0.17
32 3 0.07
34 1 0.02
35 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTAATTTTTATATTAATTTAAAATATTAA
Found at i:4824115 original size:20 final size:20
Alignment explanation
Indices: 4824090--4824152 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
4824080 AATTTAATAA
4824090 TTTATATATTTATATATATT
1 TTTATATATTTATATATATT
*
4824110 TTTATAT-TATA-ATATATTT
1 TTTATATATTTATATATA-TT
*
4824129 ATTTATATTATTTATTTATATT
1 -TTTATA-TATTTATATATATT
4824151 TT
1 TT
4824153 ATTATATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 13 0.37
21 3 0.09
22 5 0.14
23 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATATATTTATATATATT
Found at i:4824155 original size:28 final size:28
Alignment explanation
Indices: 4824093--4824148 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
4824083 TTAATAATTT
4824093 ATATATTTATATATATTTTTATATTATA
1 ATATATTTATATATATTTTTATATTATA
*
4824121 ATATATTTATTTATATTATTTAT-TTATA
1 ATATATTTATATATATT-TTTATATTATA
4824149 TTTTATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATATTTATATATATTTTTATATTATA
Found at i:4824157 original size:10 final size:11
Alignment explanation
Indices: 4824091--4824159 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 11
4824081 ATTTAATAAT
4824091 TTATATATTTA
1 TTATATATTTA
4824102 -TATATA-TT-
1 TTATATATTTA
4824110 TT-TATA-TTA
1 TTATATATTTA
*
4824119 TAATATATTTA
1 TTATATATTTA
4824130 TTTATATTATTTA
1 -TTATA-TATTTA
4824143 TT-TATATTTTA
1 TTATATA-TTTA
4824154 TTATAT
1 TTATAT
4824160 CAAATAATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
8 6 0.12
9 4 0.08
10 12 0.25
11 11 0.23
12 9 0.19
13 6 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATATTTA
Found at i:4824157 original size:18 final size:18
Alignment explanation
Indices: 4824089--4824159 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 18
4824079 AAATTTAATA
4824089 ATTTATATATTTA-TATAT
1 ATTTATAT-TTTATTATAT
* * *
4824107 ATTTTTATATTATAATAT
1 ATTTATATTTTATTATAT
* *
4824125 ATTTAT-TTATATTATTT
1 ATTTATATTTTATTATAT
4824142 ATTTATATTTTATTATAT
1 ATTTATATTTTATTATAT
4824160 CAAATAATAC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 16 0.39
18 25 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATATTTTATTATAT
Found at i:4833966 original size:22 final size:23
Alignment explanation
Indices: 4833926--4833968 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4833916 ATGATTAAAA
**
4833926 AATAATTTTTTTTATAAAATATG
1 AATAATTTTTTAGATAAAATATG
4833949 AATAATTTTTTAGA-AAAATA
1 AATAATTTTTTAGATAAAATA
4833969 AAAGAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
AATAATTTTTTAGATAAAATATG
Found at i:4834454 original size:3 final size:3
Alignment explanation
Indices: 4834446--4834475 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4834436 AATTTAACTC
4834446 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4834476 TTAATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4837069 original size:2 final size:2
Alignment explanation
Indices: 4837062--4837097 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4837052 TAAGTCAAAG
**
4837062 AT AT AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4837098 TTTAAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4840371 original size:22 final size:22
Alignment explanation
Indices: 4840287--4840371 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 22
4840277 TAGTTACAAA
**
4840287 TAAATATTAAATTTAAATTTAT
1 TAAATATTAAATTTAAATAAAT
**
4840309 TAAATATTATTTTTAAA-AAA-
1 TAAATATTAAATTTAAATAAAT
* *
4840329 T-AATTTTATGAA-TTAATTAAAT
1 TAAATATTA--AATTTAAATAAAT
*
4840351 TAAATTTTAAATTTAAATAAA
1 TAAATATTAAATTTAAATAAA
4840372 ATATTATTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 6 0.12
20 5 0.10
21 6 0.12
22 24 0.50
23 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (22 bp):
TAAATATTAAATTTAAATAAAT
Found at i:4842727 original size:2 final size:2
Alignment explanation
Indices: 4842720--4842766 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4842710 GACTTGCAAC
4842720 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4842762 TA TA T
1 TA TA T
4842767 CTGGGTATCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4844189 original size:25 final size:25
Alignment explanation
Indices: 4844161--4844212 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
4844151 TTTGATGTAA
*
4844161 TTGGACTTCAAACTCTTGTCAAGCT
1 TTGGACTTCAAACTCTTATCAAGCT
4844186 TTGGACTTCAAACTCTTATCAAGCT
1 TTGGACTTCAAACTCTTATCAAGCT
4844211 TT
1 TT
4844213 CTTCAGCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (25 bp):
TTGGACTTCAAACTCTTATCAAGCT
Found at i:4845428 original size:2 final size:2
Alignment explanation
Indices: 4845415--4845459 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
4845405 CCTAAAAGGA
*
4845415 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4845457 AT A
1 AT A
4845460 GTTGGAAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4852032 original size:2 final size:2
Alignment explanation
Indices: 4852025--4852051 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4852015 AAATCAATGT
4852025 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4852052 GAATATAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4856066 original size:2 final size:2
Alignment explanation
Indices: 4856061--4856085 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4856051 ATATTATATA
4856061 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
4856086 TAAATTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4856457 original size:2 final size:2
Alignment explanation
Indices: 4856450--4856476 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4856440 TATTTTAGTG
4856450 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4856477 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4858634 original size:2 final size:2
Alignment explanation
Indices: 4858627--4858651 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4858617 GGCTGAATTA
4858627 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4858652 AGGCTATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4859019 original size:14 final size:13
Alignment explanation
Indices: 4858990--4859023 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
4858980 AATAAAAATA
*
4858990 TATTTTTTATTTT
1 TATTTTTTATTAT
4859003 TATTTTATTATTAT
1 TATTTT-TTATTAT
4859017 TATTTTT
1 TATTTTT
4859024 AAATTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTATTAT
Found at i:4862885 original size:2 final size:2
Alignment explanation
Indices: 4862878--4862908 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4862868 TTTTAAGGTT
4862878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4862909 TAATTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4865006 original size:8 final size:8
Alignment explanation
Indices: 4864972--4865041 Score: 58
Period size: 8 Copynumber: 8.9 Consensus size: 8
4864962 AAAATACGAT
4864972 TAAA-ATA
1 TAAATATA
4864979 T-AATATA
1 TAAATATA
*
4864986 -AAAAATA
1 TAAATATA
4864993 TAAATATA
1 TAAATATA
* *
4865001 TGAATATT
1 TAAATATA
4865009 TAAAATTTATA
1 T-AAA--TATA
4865020 TAAATATA
1 TAAATATA
4865028 -AAATATA
1 TAAATATA
4865035 TAAATAT
1 TAAATAT
4865042 GATATAAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
6 2 0.04
7 16 0.32
8 23 0.46
9 2 0.04
10 3 0.06
11 4 0.08
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
TAAATATA
Found at i:4865036 original size:15 final size:15
Alignment explanation
Indices: 4864974--4865041 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
4864964 AATACGATTA
* *
4864974 AAATATAATATA-AA
1 AAATATAAAATATAT
4864988 AAATAT-AAATATAT
1 AAATATAAAATATAT
*
4865002 GAATATTTAAAATTTATAT
1 -AA-ATATAAAA--TATAT
4865021 AAATATAAAATATAT
1 AAATATAAAATATAT
4865036 AAATAT
1 AAATAT
4865042 GATATAAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 13 0.30
16 3 0.07
17 10 0.23
18 2 0.05
19 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (15 bp):
AAATATAAAATATAT
Found at i:4865046 original size:26 final size:27
Alignment explanation
Indices: 4864990--4865049 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
4864980 AATATAAAAA
* * *
4864990 ATATAAATATATGAATATTTAAAATTT
1 ATATAAATATATAAATATATAAAATTG
4865017 ATATAAATATA-AAATATAT-AAATATG
1 ATATAAATATATAAATATATAAAAT-TG
4865043 ATATAAA
1 ATATAAA
4865050 CAGATGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 14 0.48
27 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
ATATAAATATATAAATATATAAAATTG
Found at i:4865048 original size:11 final size:9
Alignment explanation
Indices: 4864981--4865049 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 9
4864971 TTAAAATATA
*
4864981 ATATAAAAA
1 ATATAAAAT
4864990 ATAT-AAAT
1 ATATAAAAT
*
4864998 ATAT-GAAT
1 ATATAAAAT
*
4865006 ATTTAAAAT
1 ATATAAAAT
* *
4865015 TTATATAA-
1 ATATAAAAT
4865023 ATATAAAAT
1 ATATAAAAT
4865032 ATATAAATAT
1 ATATAAA-AT
4865042 GATATAAA
1 -ATATAAA
4865050 CAGATGATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
8 19 0.40
9 19 0.40
10 2 0.04
11 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (9 bp):
ATATAAAAT
Found at i:4866839 original size:2 final size:2
Alignment explanation
Indices: 4866832--4866866 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4866822 AGAGATGGTA
4866832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4866867 GAAAAAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4870409 original size:13 final size:13
Alignment explanation
Indices: 4870393--4870420 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4870383 AAAAGAGTTG
4870393 TAAATTATAAATT
1 TAAATTATAAATT
4870406 TAAATTATAAATT
1 TAAATTATAAATT
4870419 TA
1 TA
4870421 TTTGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTATAAATT
Found at i:4872088 original size:2 final size:2
Alignment explanation
Indices: 4872083--4872114 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4872073 ATTGTGTGTG
*
4872083 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4872115 ACAAGTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4872677 original size:2 final size:2
Alignment explanation
Indices: 4872664--4872700 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4872654 TATTTCTTTG
*
4872664 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4872701 TGCTATCCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4873173 original size:3 final size:3
Alignment explanation
Indices: 4873165--4873194 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4873155 GAACAAAGTA
4873165 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4873195 GATGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4873199 original size:3 final size:3
Alignment explanation
Indices: 4873193--4873237 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
4873183 AATAATAATA
* *
4873193 ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG CTG AT- ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
4873238 GGACGATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:4873992 original size:3 final size:3
Alignment explanation
Indices: 4873979--4874027 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
4873969 TAATTATTGC
4873979 ATT AGTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4874025 ATT
1 ATT
4874028 GTGGCAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4874689 original size:25 final size:25
Alignment explanation
Indices: 4874642--4874689 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4874632 TATATTTTTA
*
4874642 TATAATATGATAATAATTTATATCG
1 TATAATATGATAATAATTAATATCG
*
4874667 TATAA-ATTATAATATATTAATAT
1 TATAATATGATAATA-ATTAATAT
4874690 ATTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
TATAATATGATAATAATTAATATCG
Found at i:4875004 original size:3 final size:3
Alignment explanation
Indices: 4874996--4875053 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
4874986 CGTATATTTG
4874996 ATA ATA ATA A-A CATA ATA ATA ATA ATA AT- ATA ATAA ATA ATTA A-A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA A-TA ATA
4875041 AT- ATA ATA TATA A
1 ATA ATA ATA -ATA A
4875054 ATATTTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
2 7 0.15
3 30 0.64
4 10 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4875043 original size:18 final size:18
Alignment explanation
Indices: 4874996--4875053 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
4874986 CGTATATTTG
*
4874996 ATAATAATAAACATAAT-A
1 ATAATAAT-AATATAATAA
4875014 ATAATAATAATATAATAA
1 ATAATAATAATATAATAA
*
4875032 ATAATTAA-AATATAATAT
1 ATAA-TAATAATATAATAA
4875050 ATAA
1 ATAA
4875054 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.19
18 26 0.72
19 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATAATAATATAATAA
Found at i:4875046 original size:23 final size:23
Alignment explanation
Indices: 4874996--4875065 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
4874986 CGTATATTTG
* *
4874996 ATAATA-ATAAACATAATAATAAT
1 ATAATATATAAATATATTAA-AAT
4875019 AATAATATAATAAATA-ATTAAAAT
1 -ATAATAT-ATAAATATATTAAAAT
*
4875043 ATAATATATAAATATTTTAAAAT
1 ATAATATATAAATATATTAAAAT
4875066 TTTTAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.17
23 14 0.35
24 9 0.22
25 4 0.10
26 6 0.15
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAATATATAAATATATTAAAAT
Found at i:4875076 original size:30 final size:30
Alignment explanation
Indices: 4875040--4875145 Score: 82
Period size: 30 Copynumber: 3.7 Consensus size: 30
4875030 AAATAATTAA
*
4875040 AATAT-AATATATAAATATTTTAAAATTTTT
1 AATATAAAT-TATAAATATATTAAAATTTTT
* *
4875070 AATATAAATTATTAATATATTAAAATTTAT
1 AATATAAATTATAAATATATTAAAATTTTT
* * *
4875100 -ATA-AATATTTTAAATA-ATTATAA--TAT
1 AATATAA-ATTATAAATATATTAAAATTTTT
4875126 AATA-AAATATATAAATATAT
1 AATATAAAT-TATAAATATAT
4875146 AAATTCTACG
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
26 5 0.08
27 12 0.19
28 10 0.16
29 11 0.17
30 23 0.36
31 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AATATAAATTATAAATATATTAAAATTTTT
Found at i:4875089 original size:38 final size:37
Alignment explanation
Indices: 4875042--4875143 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 37
4875032 ATAATTAAAA
4875042 TATAATATATAAATATTT-TA-AAAT-TTTTAATATAAAT
1 TATAATATATAAA-ATTTATATAAATATTTTAA-AT-AAT
4875079 TATTAATATATTAAAATTTATATAAATATTTTAAATAAT
1 TA-TAATATA-TAAAATTTATATAAATATTTTAAATAAT
4875118 TATAATATAATAAAA--TATATAAATAT
1 TATAATAT-ATAAAATTTATATAAATAT
4875144 ATAAATTCTA
Statistics
Matches: 59, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
36 11 0.19
37 2 0.03
38 22 0.37
39 12 0.20
40 6 0.10
41 6 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (37 bp):
TATAATATATAAAATTTATATAAATATTTTAAATAAT
Found at i:4875142 original size:18 final size:18
Alignment explanation
Indices: 4875069--4875148 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
4875059 TTAAAATTTT
*
4875069 TAATATAAAT-TATTAATA
1 TAATA-AAATATATAAATA
*
4875087 TATTAAAATTTATATAAATA
1 TAATAAAA--TATATAAATA
* *
4875107 T-TTTAAATA-ATTATAATA
1 TAATAAAATATA-TA-AATA
4875125 TAATAAAATATATAAATA
1 TAATAAAATATATAAATA
4875143 T-ATAAA
1 TAATAAA
4875149 TTCTACGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 12 0.24
18 14 0.28
19 14 0.28
20 9 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAAATATATAAATA
Found at i:4875392 original size:58 final size:58
Alignment explanation
Indices: 4875301--4875412 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
4875291 CCAACTCATG
*
4875301 CCACATACGAAACCCCACGTGGCTTTCTCTAAACTTTTTTGCCCACTTGTTCTTTGTA
1 CCACATACGAAACCCCACGTGGCTTTCTCTAAACTTCTTTGCCCACTTGTTCTTTGTA
* * *
4875359 CCACATCCGAAACCCCACGTGGCTTTCTGTAAACTTCTTTGCCGACTTGTTCTT
1 CCACATACGAAACCCCACGTGGCTTTCTCTAAACTTCTTTGCCCACTTGTTCTT
4875413 ATTTACGAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (58 bp):
CCACATACGAAACCCCACGTGGCTTTCTCTAAACTTCTTTGCCCACTTGTTCTTTGTA
Found at i:4881572 original size:2 final size:2
Alignment explanation
Indices: 4881565--4881597 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4881555 TACATCAATT
4881565 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4881598 AATGTGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4884545 original size:2 final size:2
Alignment explanation
Indices: 4884538--4884564 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4884528 AGCTTATTTT
4884538 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
4884565 TATATTGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4885955 original size:14 final size:14
Alignment explanation
Indices: 4885936--4885964 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4885926 TATAACACTT
4885936 AACTTCAAATTGCA
1 AACTTCAAATTGCA
4885950 AACTTCAAATTGCA
1 AACTTCAAATTGCA
4885964 A
1 A
4885965 CAGCGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (14 bp):
AACTTCAAATTGCA
Found at i:4892867 original size:3 final size:3
Alignment explanation
Indices: 4892859--4892897 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4892849 AAGTGTTCAT
4892859 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4892898 CGTACTAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4903721 original size:23 final size:22
Alignment explanation
Indices: 4903688--4903731 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4903678 TTATTTTATT
*
4903688 TATTATTTATATAATAAAAATTA
1 TATTATATATA-AATAAAAATTA
*
4903711 TATTATATATAAATATAAATT
1 TATTATATATAAATAAAAATT
4903732 TAATACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTATATATAAATAAAAATTA
Found at i:4903722 original size:18 final size:18
Alignment explanation
Indices: 4903689--4903723 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4903679 TATTTTATTT
4903689 ATTATTTATATAATAAAA
1 ATTATTTATATAATAAAA
4903707 ATTATATTATAT-ATAAA
1 ATTAT-TTATATAATAAA
4903724 TATAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTATATAATAAAA
Found at i:4904583 original size:11 final size:11
Alignment explanation
Indices: 4904568--4904606 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
4904558 TAAATTTATT
4904568 TTAAAATT-AA
1 TTAAAATTAAA
4904578 TATAAAATTAAA
1 T-TAAAATTAAA
4904590 TTAAAATTAAA
1 TTAAAATTAAA
4904601 TTAAAA
1 TTAAAA
4904607 ATATTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 1 0.04
11 23 0.85
12 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAAATTAAA
Found at i:4904592 original size:16 final size:16
Alignment explanation
Indices: 4904571--4904605 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4904561 ATTTATTTTA
*
4904571 AAATTAATATAAAATT
1 AAATTAAAATAAAATT
*
4904587 AAATTAAAATTAAATT
1 AAATTAAAATAAAATT
4904603 AAA
1 AAA
4904606 AATATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAAATAAAATT
Found at i:4904869 original size:29 final size:28
Alignment explanation
Indices: 4904810--4904913 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 28
4904800 ATAACTTTTT
* **
4904810 AAAAATAAATATATTTTTGATCAAATTTAA
1 AAAAATAAATATATTTTTTAT-AAAAAT-A
* *
4904840 AAAAATAAAAAGTATTTTTTA-AATAATA
1 AAAAATAAATA-TATTTTTTATAAAAATA
4904868 AAAAATAAATATATTTTTTATAAAAATTA
1 AAAAATAAATATATTTTTTATAAAAA-TA
4904897 AAAAATAAATATATTTT
1 AAAAATAAATATATTTT
4904914 ATTTTTAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.14
28 15 0.23
29 22 0.34
30 10 0.16
31 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAAATAAATATATTTTTTATAAAAATA
Found at i:4911101 original size:39 final size:39
Alignment explanation
Indices: 4911045--4911123 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
4911035 TCTATCCACA
* *
4911045 AGCACAATTATATTCATAGGTTAGCATATAGACAGAACT
1 AGCACAATTATAGTCATAGGCTAGCATATAGACAGAACT
*
4911084 AGCACAATTATAGTCATAGGCTAGTATATAGACAGAACT
1 AGCACAATTATAGTCATAGGCTAGCATATAGACAGAACT
4911123 A
1 A
4911124 ACTGTCAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (39 bp):
AGCACAATTATAGTCATAGGCTAGCATATAGACAGAACT
Found at i:4916731 original size:2 final size:2
Alignment explanation
Indices: 4916726--4916751 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4916716 TTATACACAC
4916726 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4916752 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4919687 original size:3 final size:3
Alignment explanation
Indices: 4919679--4919717 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4919669 CATACAGGTG
4919679 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4919718 TTTGTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4924003 original size:18 final size:17
Alignment explanation
Indices: 4923969--4924007 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
4923959 GAATAATATA
* *
4923969 ATATAATATTTTTATTT
1 ATATAATATTATAATTT
4923986 ATATATATATTATAATTT
1 ATATA-ATATTATAATTT
4924004 ATAT
1 ATAT
4924008 CATAAACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATAATATTATAATTT
Found at i:4924676 original size:2 final size:2
Alignment explanation
Indices: 4924664--4924697 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4924654 AAAAGTGCAC
*
4924664 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4924698 AACTATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4926313 original size:7 final size:7
Alignment explanation
Indices: 4926301--4926352 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
4926291 TGTAATTATT
4926301 TTTAAAA
1 TTTAAAA
4926308 TTT-AAA
1 TTTAAAA
*
4926314 TTTATTTAA
1 TTTA--AAA
*
4926323 TTT-ATA
1 TTTAAAA
4926329 TTTAAAA
1 TTTAAAA
4926336 TTTAAAA
1 TTTAAAA
4926343 TTTAAAA
1 TTTAAAA
4926350 TTT
1 TTT
4926353 TTTATTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 10 0.27
7 22 0.59
9 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTAAAA
Found at i:4926359 original size:21 final size:21
Alignment explanation
Indices: 4926336--4926376 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4926326 ATATTTAAAA
4926336 TTTAAAATTTAAAATTTTTTAT
1 TTTAAAA-TTAAAATTTTTTAT
* *
4926358 TTTTAAATTATAATTTTTT
1 TTTAAAATTAAAATTTTTT
4926377 TAAAAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAAAATTAAAATTTTTTAT
Found at i:4926359 original size:28 final size:27
Alignment explanation
Indices: 4926296--4926352 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
4926286 TTTTGTGTAA
* *
4926296 TTATTTTTAAAATTTAAATTTATTTAAT
1 TTATATTTAAAATTTAAATTTA-TAAAT
4926324 TTATATTTAAAATTTAAAATTTA-AAAT
1 TTATATTTAAAATTT-AAATTTATAAAT
4926351 TT
1 TT
4926353 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 14 0.54
29 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATATTTAAAATTTAAATTTATAAAT
Found at i:4926373 original size:35 final size:35
Alignment explanation
Indices: 4926303--4926373 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
4926293 TAATTATTTT
*
4926303 TAAAATTTAAATTTATTTAATTTATATTTAAAATT
1 TAAAATTTAAATTTATTTAATTTATAATTAAAATT
* *
4926338 TAAAATTTAAAATTT-TTT-ATTTTTAAATTATAATT
1 TAAAATTT-AAATTTATTTAATTTAT-AATTAAAATT
4926373 T
1 T
4926374 TTTTAAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 5 0.16
35 20 0.65
36 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
TAAAATTTAAATTTATTTAATTTATAATTAAAATT
Found at i:4937605 original size:15 final size:15
Alignment explanation
Indices: 4937564--4937658 Score: 67
Period size: 15 Copynumber: 6.5 Consensus size: 15
4937554 TATAATTTTT
4937564 ATAATTATTAATATA
1 ATAATTATTAATATA
*
4937579 ATAAATATTAATATA
1 ATAATTATTAATATA
*
4937594 ATTAATTA-TAATAAA
1 A-TAATTATTAATATA
*
4937609 AT-ATTAATTAAAAT-
1 ATAATT-ATTAATATA
* *
4937623 ATCAATAATAAAT-TA
1 AT-AATTATTAATATA
*
4937638 A-AATT-TTAAAATA
1 ATAATTATTAATATA
4937651 ATAATTAT
1 ATAATTAT
4937659 AACGATGCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
12 3 0.05
13 9 0.15
14 9 0.15
15 32 0.53
16 7 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATTATTAATATA
Found at i:4937763 original size:22 final size:22
Alignment explanation
Indices: 4937738--4937799 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
4937728 TATCATAATT
*
4937738 TTTAATAATATAATTTATTATA
1 TTTAATAATATAATTTATTACA
*
4937760 TTT-ATAATTATAATAAATATTACA
1 TTTAATAA-TATAAT--TTATTACA
4937784 TTTAA-AATAT-ATTTAT
1 TTTAATAATATAATTTAT
4937800 AATTACAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
20 3 0.09
21 4 0.12
22 11 0.33
23 3 0.09
24 11 0.33
25 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATAATATAATTTATTACA
Found at i:4939132 original size:23 final size:21
Alignment explanation
Indices: 4939089--4939133 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
4939079 AATGTAATTA
**
4939089 TAATTTTTTATATTTTTAAAT
1 TAATTTTTTATATTTAAAAAT
4939110 TAATTTATTTGATATTTAAAAAT
1 TAATTT-TTT-ATATTTAAAAAT
4939133 T
1 T
4939134 TTAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATTTTTTATATTTAAAAAT
Found at i:4939710 original size:13 final size:14
Alignment explanation
Indices: 4939694--4939728 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4939684 TTAAATTTAT
4939694 AAATTTTTA-ATCA
1 AAATTTTTATATCA
4939707 AAATATTTTATATCA
1 AAAT-TTTTATATCA
4939722 AAATTTT
1 AAATTTT
4939729 AAAAATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATTTTTATATCA
Found at i:4939714 original size:15 final size:15
Alignment explanation
Indices: 4939694--4939725 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4939684 TTAAATTTAT
4939694 AAAT-TTTTA-ATCA
1 AAATATTTTATATCA
4939707 AAATATTTTATATCA
1 AAATATTTTATATCA
4939722 AAAT
1 AAAT
4939726 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 5 0.29
15 8 0.47
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTTATATCA
Done.