Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 22 of 105
Found at i:4532312 original size:18 final size:17
Alignment explanation
Indices: 4532245--4532320 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 17
4532235 AACCCGCAAG
*
4532245 TTTTT-TTTTCTATTTTA
1 TTTTTATTTT-TATTTCA
4532262 TTTTTATTTTATTATTT-A
1 TTTTTA-TTT-TTATTTCA
4532280 TATTTTAAGTTTTTATTTCA
1 T-TTTT-A-TTTTTATTTCA
*
4532300 TTTTTATTATTTAGTTCA
1 TTTTTATT-TTTATTTCA
4532318 TTT
1 TTT
4532321 AGCCAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
17 7 0.14
18 14 0.28
19 22 0.44
20 7 0.14
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTATTTCA
Found at i:4541760 original size:32 final size:32
Alignment explanation
Indices: 4541724--4541785 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
4541714 AAAATCATGG
* *
4541724 TAAACCCTAAAACCAAATCCTAATTCAAACTT
1 TAAACCCTAAAACCAAACCCTAATCCAAACTT
*
4541756 TAAACCCTAAAACTAAACCCTAATCCAAAC
1 TAAACCCTAAAACCAAACCCTAATCCAAAC
4541786 CCTAGAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (32 bp):
TAAACCCTAAAACCAAACCCTAATCCAAACTT
Found at i:4541903 original size:18 final size:16
Alignment explanation
Indices: 4541874--4541925 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 16
4541864 CTAAACCCTA
4541874 CAACCAAAACCCTAAATC
1 CAACC-AAACCCTAAA-C
*
4541892 CTAACCAAACCCTCAAC
1 C-AACCAAACCCTAAAC
4541909 CAACCTCAAACCCTAAA
1 CAA-C-CAAACCCTAAA
4541926 ACAAACCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 2 0.07
17 3 0.10
18 20 0.69
19 4 0.14
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (16 bp):
CAACCAAACCCTAAAC
Found at i:4541976 original size:19 final size:21
Alignment explanation
Indices: 4541954--4542009 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
4541944 AACCACCTCG
4541954 AAATCCTAAACCCTAAAA-T-
1 AAATCCTAAACCCTAAAACTA
*
4541973 AAATCCAAAACCCTAAAACTA
1 AAATCCTAAACCCTAAAACTA
* *
4541994 AAACCCTAAATCCTAA
1 AAATCCTAAACCCTAA
4542010 CCTAAACCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.55
20 1 0.03
21 13 0.42
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATCCTAAACCCTAAAACTA
Found at i:4542017 original size:33 final size:32
Alignment explanation
Indices: 4541980--4542070 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 32
4541970 AATAAATCCA
4541980 AAACCCTAAAACTAAAACCCTAAATCCTAAC-CT
1 AAACCCTAAAACTAAAACCCTAAAT--TAACACT
* ** *
4542013 AAACCTTAAAACCTCCAATCCTAAAATTAACACT
1 AAACCCTAAAA-CTAAAACCCT-AAATTAACACT
* *
4542047 AAACTCTAAAACCAAAACCCTAAA
1 AAACCCTAAAACTAAAACCCTAAA
4542071 CACTAAAACC
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
32 3 0.07
33 20 0.44
34 18 0.40
35 4 0.09
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.19
Consensus pattern (32 bp):
AAACCCTAAAACTAAAACCCTAAATTAACACT
Found at i:4542056 original size:67 final size:66
Alignment explanation
Indices: 4541980--4542173 Score: 164
Period size: 67 Copynumber: 2.9 Consensus size: 66
4541970 AATAAATCCA
* *
4541980 AAACCCTAAAACTAAAACCCTAAATCCTAACCTAAACCTTAAAACCTCCAATCCTAAAAT-TAAC
1 AAACTCTAAAACTAAAACCCTAAATCCTAACCTAAACC-TAAAACCTCCAATCCTAAAATCTAAA
4542044 AC
65 AC
* * * * *
4542046 TAAACTCTAAAACCAAAACCCTAAA-CACTAAAACCAAAACCT-AAACCTTCAAGCCTCAAACTC
1 -AAACTCTAAAACTAAAACCCTAAATC-CT--AACCTAAACCTAAAACCTCCAATCCT-AAAATC
4542109 TAAAAC
61 TAAAAC
* * * * *
4542115 AAACTTTAAACCCT-AAACCCT-AATCCAAACTGTAAACCCTAAAACCTCGAATCCTAAAA
1 AAACTCTAAA-ACTAAAACCCTAAATCCTAAC-CTAAA-CCTAAAACCTCCAATCCTAAAA
4542174 CAAATCATAA
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
65 3 0.03
66 4 0.04
67 45 0.45
68 33 0.33
69 15 0.15
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (66 bp):
AAACTCTAAAACTAAAACCCTAAATCCTAACCTAAACCTAAAACCTCCAATCCTAAAATCTAAAA
C
Found at i:4542071 original size:21 final size:20
Alignment explanation
Indices: 4542045--4542091 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
4542035 AAAATTAACA
*
4542045 CTAAACTCTAAAACCAAAACC
1 CTAAACACTAAAACCAAAA-C
4542066 CTAAACACTAAAACCAAAAC
1 CTAAACACTAAAACCAAAAC
4542086 CTAAAC
1 CTAAAC
4542092 CTTCAAGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (20 bp):
CTAAACACTAAAACCAAAAC
Found at i:4542137 original size:26 final size:26
Alignment explanation
Indices: 4542103--4542157 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4542093 TTCAAGCCTC
* *
4542103 AAACTCTAAAACAAACTTTAAACCCT
1 AAACCCTAAAACAAACTGTAAACCCT
**
4542129 AAACCCTAATCCAAACTGTAAACCCT
1 AAACCCTAAAACAAACTGTAAACCCT
4542155 AAA
1 AAA
4542158 ACCTCGAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (26 bp):
AAACCCTAAAACAAACTGTAAACCCT
Found at i:4544070 original size:21 final size:22
Alignment explanation
Indices: 4544046--4544098 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
4544036 TCCAAAATTA
*
4544046 ATAAAATATTATTTTTT-GAAT
1 ATAAAATATTATTTTTTAAAAT
4544067 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
4544089 ATAAATATAT
1 ATAAA-ATAT
4544099 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 17 0.59
22 8 0.28
23 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:4554365 original size:59 final size:59
Alignment explanation
Indices: 4554218--4554363 Score: 260
Period size: 59 Copynumber: 2.5 Consensus size: 59
4554208 ATTTATATGC
*
4554218 GTAGAGTTTTTTCTACTGAAATATATATAACATGATATTACAGACTTGCCATTTTGGTA
1 GTAGAGTTTTTTCTACTGAAATATATATATCATGATATTACAGACTTGCCATTTTGGTA
4554277 GTAGAGTTTTTTCTACTGAAATATATATATCATGATATTACAGACTTGCCATTTTGGTA
1 GTAGAGTTTTTTCTACTGAAATATATATATCATGATATTACAGACTTGCCATTTTGGTA
*
4554336 GTAGAGTTTTTTC-ACT-ATATATATATAT
1 GTAGAGTTTTTTCTACTGAAATATATATAT
4554364 ATTTTTATTT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 11 0.13
58 3 0.04
59 71 0.84
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (59 bp):
GTAGAGTTTTTTCTACTGAAATATATATATCATGATATTACAGACTTGCCATTTTGGTA
Found at i:4555002 original size:2 final size:2
Alignment explanation
Indices: 4554995--4555021 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4554985 AACTTGAAAT
4554995 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
4555022 GCAAGGAGAT
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:4555277 original size:29 final size:29
Alignment explanation
Indices: 4555236--4555293 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4555226 TAAAAATTTA
4555236 ATAATAATTTAAATTTTTGATATTTTATT
1 ATAATAATTTAAATTTTTGATATTTTATT
* *
4555265 ATAATTAA-TTAAATTTTTTATTTTTTATT
1 ATAA-TAATTTAAATTTTTGATATTTTATT
4555294 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
ATAATAATTTAAATTTTTGATATTTTATT
Found at i:4556489 original size:3 final size:3
Alignment explanation
Indices: 4556481--4556520 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4556471 CAATCCTTTC
4556481 ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4556521 ACAATACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4558475 original size:1 final size:1
Alignment explanation
Indices: 4558469--4558505 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
4558459 TAGTTATGAG
4558469 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4558506 ATGGCTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4559798 original size:32 final size:32
Alignment explanation
Indices: 4559762--4559823 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
4559752 AAAATCATGG
* *
4559762 TAAACCCTAAAACCAAATCCTAATTCAAACTT
1 TAAACCCTAAAACCAAACCCTAATCCAAACTT
*
4559794 TAAACCCTAAAACTAAACCCTAATCCAAAC
1 TAAACCCTAAAACCAAACCCTAATCCAAAC
4559824 CCTAGAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (32 bp):
TAAACCCTAAAACCAAACCCTAATCCAAACTT
Found at i:4559941 original size:18 final size:16
Alignment explanation
Indices: 4559912--4559963 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 16
4559902 CTAAACCCTA
4559912 CAACCAAAACCCTAAATC
1 CAACC-AAACCCTAAA-C
*
4559930 CTAACCAAACCCTCAAC
1 C-AACCAAACCCTAAAC
4559947 CAACCTCAAACCCTAAA
1 CAA-C-CAAACCCTAAA
4559964 ACAAACCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 2 0.07
17 3 0.10
18 20 0.69
19 4 0.14
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (16 bp):
CAACCAAACCCTAAAC
Found at i:4560014 original size:19 final size:21
Alignment explanation
Indices: 4559992--4560046 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 21
4559982 AACCACCTCG
*
4559992 AAATCCTAAACCCTAAAA-T-
1 AAATCCTAAAACCTAAAACTA
4560011 AAATCC-AAAACCTAAAACTA
1 AAATCCTAAAACCTAAAACTA
* *
4560031 AAACCCTAAATCCTAA
1 AAATCCTAAAACCTAA
4560047 CCTAAACCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 10 0.33
19 7 0.23
20 5 0.17
21 8 0.27
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATCCTAAAACCTAAAACTA
Found at i:4560027 original size:7 final size:7
Alignment explanation
Indices: 4559996--4560127 Score: 56
Period size: 6 Copynumber: 19.9 Consensus size: 7
4559986 ACCTCGAAAT
*
4559996 CCTAAAC
1 CCTAAAA
4560003 CCTAAAA
1 CCTAAAA
*
4560010 --TAAAT
1 CCTAAAA
4560015 CC-AAAA
1 CCTAAAA
4560021 CCTAAAA
1 CCTAAAA
4560028 -CTAAAA
1 CCTAAAA
*
4560034 CCCTAAAT
1 -CCTAAAA
4560042 CCT--AA
1 CCTAAAA
4560047 CCT-AAA
1 CCTAAAA
4560053 CCTTAAAA
1 CC-TAAAA
* *
4560061 CCTCCAAT
1 CCT-AAAA
4560069 CCTAAAA
1 CCTAAAA
* *
4560076 -TTAACA
1 CCTAAAA
4560082 -CT-AAA
1 CCTAAAA
4560087 CTCTAAAA
1 C-CTAAAA
4560095 CC-AAAA
1 CCTAAAA
4560101 CCCT-AAA
1 -CCTAAAA
4560108 CACTAAAA
1 C-CTAAAA
4560116 CC-AAAA
1 CCTAAAA
4560122 CCTAAA
1 CCTAAA
4560128 CCTTCAAGCC
Statistics
Matches: 95, Mismatches: 13, Indels: 34
0.67 0.09 0.24
Matches are distributed among these distances:
5 10 0.11
6 31 0.33
7 31 0.33
8 23 0.24
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAA
Found at i:4560042 original size:27 final size:27
Alignment explanation
Indices: 4560010--4560117 Score: 80
Period size: 27 Copynumber: 4.0 Consensus size: 27
4560000 AACCCTAAAA
4560010 TAAATCCAAAACCTAAAACTAAAACCC
1 TAAATCCAAAACCTAAAACTAAAACCC
* *
4560037 TAAATCC-TAACCTAAACCTTAAAA-CC
1 TAAATCCAAAACCTAAAAC-TAAAACCC
* * * *
4560063 TCCAATCCTAAAA-TTAACACT-AAACTC
1 T-AAATCC-AAAACCTAAAACTAAAACCC
*
4560090 TAAAACCAAAACCCTAAACACTAAAACC
1 TAAATCCAAAA-CCTAAA-ACTAAAACC
4560118 AAAACCTAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
25 4 0.07
26 19 0.32
27 23 0.39
28 7 0.12
29 6 0.10
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.19
Consensus pattern (27 bp):
TAAATCCAAAACCTAAAACTAAAACCC
Found at i:4560101 original size:67 final size:66
Alignment explanation
Indices: 4560018--4560210 Score: 171
Period size: 67 Copynumber: 2.9 Consensus size: 66
4560008 AATAAATCCA
* *
4560018 AAAC-CTAAAACTAAAACCCTAAATCCTAACCTAAACCTTAAAACCTCCAATCCTAAAAT-TAAC
1 AAACTCTAAAACCAAAACCCTAAATCCTAACCTAAACC-TAAAACCTCCAATCCTAAAATCTAAA
4560081 AC
65 AC
* * * *
4560083 TAAACTCTAAAACCAAAACCCTAAA-CACTAAAACCAAAACCT-AAACCTTCAAGCCTCAAACTC
1 -AAACTCTAAAACCAAAACCCTAAATC-CT--AACCTAAACCTAAAACCTCCAATCCT-AAAATC
4560146 TAAAAC
61 TAAAAC
* * * * * *
4560152 AAACTTTAAACCCTAAACCCT-AATCCAAACTGTAAACCCTAAAACCTCGAATCCTAAAA
1 AAACTCTAAAACCAAAACCCTAAATCCTAAC-CTAAA-CCTAAAACCTCCAATCCTAAAA
4560211 CAAATCATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
65 3 0.03
66 8 0.08
67 41 0.41
68 35 0.35
69 14 0.14
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (66 bp):
AAACTCTAAAACCAAAACCCTAAATCCTAACCTAAACCTAAAACCTCCAATCCTAAAATCTAAAA
C
Found at i:4560108 original size:21 final size:20
Alignment explanation
Indices: 4560082--4560128 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
4560072 AAAATTAACA
*
4560082 CTAAACTCTAAAACCAAAACC
1 CTAAACACTAAAACCAAAA-C
4560103 CTAAACACTAAAACCAAAAC
1 CTAAACACTAAAACCAAAAC
4560123 CTAAAC
1 CTAAAC
4560129 CTTCAAGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (20 bp):
CTAAACACTAAAACCAAAAC
Found at i:4560174 original size:26 final size:26
Alignment explanation
Indices: 4560140--4560194 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4560130 TTCAAGCCTC
* *
4560140 AAACTCTAAAACAAACTTTAAACCCT
1 AAACCCTAAAACAAACTGTAAACCCT
**
4560166 AAACCCTAATCCAAACTGTAAACCCT
1 AAACCCTAAAACAAACTGTAAACCCT
4560192 AAA
1 AAA
4560195 ACCTCGAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (26 bp):
AAACCCTAAAACAAACTGTAAACCCT
Found at i:4562134 original size:20 final size:20
Alignment explanation
Indices: 4562099--4562151 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
4562089 ATCCAAAATT
4562099 AAATAAAATAATTATTTTTGA
1 AAATAAAAT-ATTATTTTTGA
* *
4562120 ATATAAAATATTATTTTTTA
1 AAATAAAATATTATTTTTGA
4562140 AAATATAAATAT
1 AAATA-AAATAT
4562152 ATATAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATAAAATATTATTTTTGA
Found at i:4562138 original size:21 final size:21
Alignment explanation
Indices: 4562101--4562153 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
4562091 CCAAAATTAA
*
4562101 ATAAAATAATTATTTTT-GAAT
1 ATAAAAT-ATTATTTTTAAAAT
4562122 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
4562144 ATAAATATAT
1 ATAAA-ATAT
4562154 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 12 0.43
22 8 0.29
23 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:4568180 original size:21 final size:21
Alignment explanation
Indices: 4568151--4568195 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4568141 GCTACACTCA
*
4568151 TTTTCAATG-TACTTTTAGAT
1 TTTTCAATGAAACTTTTAGAT
*
4568171 TTTTGCAATGAAATTTTTAGAT
1 TTTT-CAATGAAACTTTTAGAT
4568193 TTT
1 TTT
4568196 CACGTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 12 0.57
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (21 bp):
TTTTCAATGAAACTTTTAGAT
Found at i:4574899 original size:3 final size:3
Alignment explanation
Indices: 4574891--4574916 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4574881 CAATCCTTTC
4574891 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4574917 ACAATACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4585070 original size:17 final size:18
Alignment explanation
Indices: 4585034--4585073 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4585024 TTATTAATGT
*
4585034 TATTTAATATAATAATAA
1 TATTTAATATAATAAGAA
*
4585052 TATTTAA-ATTATAAGAA
1 TATTTAATATAATAAGAA
4585069 TATTT
1 TATTT
4585074 TTTATCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TATTTAATATAATAAGAA
Found at i:4585238 original size:16 final size:16
Alignment explanation
Indices: 4585213--4585243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4585203 CAATATAAAA
*
4585213 TATAACTATTTTATAG
1 TATAAATATTTTATAG
4585229 TATAAATATTTTATA
1 TATAAATATTTTATA
4585244 TTTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
TATAAATATTTTATAG
Found at i:4585255 original size:22 final size:22
Alignment explanation
Indices: 4585210--4585273 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
4585200 TTTCAATATA
* *
4585210 AAATATAACTATTTTATAGT-AT
1 AAATATTACTATTTT-TAATAAT
*
4585232 AAATATT-TTATATTTTAATAAT
1 AAATATTACTAT-TTTTAATAAT
*
4585254 AATTATTACTATTTTTAATA
1 AAATATTACTATTTTTAATA
4585274 TTATTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 6 0.18
22 25 0.74
23 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATATTACTATTTTTAATAAT
Found at i:4585268 original size:21 final size:17
Alignment explanation
Indices: 4585233--4585283 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
4585223 TTATAGTATA
4585233 AATATT-TTATATTTTAAT
1 AATATTATTATATTTT--T
4585251 AATAATTATTACTATTTTT
1 AAT-ATTATTA-TATTTTT
4585270 AATATTATTATATT
1 AATATTATTATATT
4585284 AATAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.13
18 10 0.33
19 7 0.23
20 3 0.10
21 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATATTATTATATTTTT
Found at i:4585493 original size:25 final size:23
Alignment explanation
Indices: 4585439--4585495 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
4585429 ATATTGGATA
4585439 ATTTTAATAATAAATAATTCAAT
1 ATTTTAATAATAAATAATTCAAT
* *
4585462 ATATTAATAATAAATATATTTTAAT
1 ATTTTAATAATAAATA-A-TTCAAT
4585487 ATTTTAATA
1 ATTTTAATA
4585496 GTTATGTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.52
24 1 0.03
25 13 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTAATAATAAATAATTCAAT
Found at i:4586248 original size:15 final size:17
Alignment explanation
Indices: 4586223--4586264 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
4586213 TTGTGGTAAT
*
4586223 TTATAAAATAAAATTA-
1 TTATTAAATAAAATTAC
*
4586239 TT-TTAAATAAATTTAC
1 TTATTAAATAAAATTAC
4586255 TTATTAAATA
1 TTATTAAATA
4586265 TTTAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 11 0.50
16 4 0.18
17 7 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TTATTAAATAAAATTAC
Found at i:4589763 original size:33 final size:34
Alignment explanation
Indices: 4589721--4589807 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 34
4589711 CTTTTGTTCT
*
4589721 TGATACATTTGAGGTGGAGGATATATTTGAGG-A
1 TGATACATTTGAGGTGGAGGATACATTTGAGGAA
* * *
4589754 TGATACATTTGTGGTGGGGGATACATTTGTGGTAAA
1 TGATACATTTGAGGTGGAGGATACATTTGAGG--AA
4589790 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
4589808 TAATAACCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.62
36 17 0.38
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.34
Consensus pattern (34 bp):
TGATACATTTGAGGTGGAGGATACATTTGAGGAA
Found at i:4589794 original size:18 final size:18
Alignment explanation
Indices: 4589753--4589800 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
4589743 ATATTTGAGG
**
4589753 ATGATACATTTGTGGTGG
1 ATGATACATTTGTGGTAA
**
4589771 GGGATACATTTGTGGTAA
1 ATGATACATTTGTGGTAA
4589789 ATGATACATTTG
1 ATGATACATTTG
4589801 AGGTGGATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.38
Consensus pattern (18 bp):
ATGATACATTTGTGGTAA
Found at i:4590223 original size:6 final size:6
Alignment explanation
Indices: 4590174--4590221 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
4590164 AAAATTCCTT
* * *
4590174 CCATCA CCATCA ACATCT CCATCA CCATCA CCATCA CCATCA TCATCA
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA
4590222 TCTGGACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (6 bp):
CCATCA
Found at i:4593773 original size:92 final size:92
Alignment explanation
Indices: 4593616--4593787 Score: 326
Period size: 92 Copynumber: 1.9 Consensus size: 92
4593606 AAAAAAGCCC
4593616 TTTCTCCTCTCTCTAAAAGGTAAGCTCGTTCCACCCCTTCGACGAATTCTTTCGCAGCAGCTTGA
1 TTTCTCCTCTCTCTAAAAGGTAAGCTCGTTCCACCCCTTCGACGAATTCTTTCGCAGCAGCTTGA
*
4593681 ACGGAACCCGATCCCTCAATGTAGCAT
66 ACAGAACCCGATCCCTCAATGTAGCAT
*
4593708 TTTCTCCTCTCTCTAAAAGGTAAGCTCGTTCCACCCCTTCGACGAATTCTTTCGCAGTAGCTTGA
1 TTTCTCCTCTCTCTAAAAGGTAAGCTCGTTCCACCCCTTCGACGAATTCTTTCGCAGCAGCTTGA
4593773 ACAGAACCCGATCCC
66 ACAGAACCCGATCCC
4593788 AGTAGCTTGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (92 bp):
TTTCTCCTCTCTCTAAAAGGTAAGCTCGTTCCACCCCTTCGACGAATTCTTTCGCAGCAGCTTGA
ACAGAACCCGATCCCTCAATGTAGCAT
Found at i:4593796 original size:25 final size:25
Alignment explanation
Indices: 4593762--4593812 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4593752 AATTCTTTCG
4593762 CAGTAGCTTGAACAGAACCCGATCC
1 CAGTAGCTTGAACAGAACCCGATCC
*
4593787 CAGTAGCTTGAATAGAACCCGATCC
1 CAGTAGCTTGAACAGAACCCGATCC
4593812 C
1 C
4593813 TCAACGTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (25 bp):
CAGTAGCTTGAACAGAACCCGATCC
Found at i:4593816 original size:117 final size:117
Alignment explanation
Indices: 4593674--4594021 Score: 570
Period size: 117 Copynumber: 3.0 Consensus size: 117
4593664 CTTTCGCAGC
** * **
4593674 AGCTTGAACGGAACCCGATCCCTCAATGTAGCATTTTCTCCTCTCTCTAAAAGGTAAGCTCGTTC
1 AGCTTGAATAGAACCCGATCCCTCAACGTAGCCCTTTCTCCTCTCTCTAAAAGGTAAGCTCGTTC
4593739 CACCCCTTCGACGAATTCTTTCGCAGTAGCTTGAACAGAACCCGATCCCAGT
66 CACCCCTTCGACGAATTCTTTCGCAGTAGCTTGAACAGAACCCGATCCCAGT
4593791 AGCTTGAATAGAACCCGATCCCTCAACGTAGCCCTTTCTCCTCTCTCTAAAAGGTAAGCTCGTTC
1 AGCTTGAATAGAACCCGATCCCTCAACGTAGCCCTTTCTCCTCTCTCTAAAAGGTAAGCTCGTTC
* *
4593856 CACCCCTTCGATGAATTCTTTCGCAGTAGCTTGAACATAACCCGATCCCAGT
66 CACCCCTTCGACGAATTCTTTCGCAGTAGCTTGAACAGAACCCGATCCCAGT
*
4593908 AGCTTGAATAGAACCCGATCCCTCAACGTAGCCCTTTCTCCTCTCTCTAAAAGGTAAGCTCATTC
1 AGCTTGAATAGAACCCGATCCCTCAACGTAGCCCTTTCTCCTCTCTCTAAAAGGTAAGCTCGTTC
* * * * * *
4593973 AACACCTTCGACAAATTCTTTCACAATAACTTGAACAGAACCCGATCCC
66 CACCCCTTCGACGAATTCTTTCGCAGTAGCTTGAACAGAACCCGATCCC
4594022 TCAATGTGAA
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 215 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (117 bp):
AGCTTGAATAGAACCCGATCCCTCAACGTAGCCCTTTCTCCTCTCTCTAAAAGGTAAGCTCGTTC
CACCCCTTCGACGAATTCTTTCGCAGTAGCTTGAACAGAACCCGATCCCAGT
Found at i:4593913 original size:25 final size:25
Alignment explanation
Indices: 4593879--4593929 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4593869 AATTCTTTCG
*
4593879 CAGTAGCTTGAACATAACCCGATCC
1 CAGTAGCTTGAACAGAACCCGATCC
*
4593904 CAGTAGCTTGAATAGAACCCGATCC
1 CAGTAGCTTGAACAGAACCCGATCC
4593929 C
1 C
4593930 TCAACGTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (25 bp):
CAGTAGCTTGAACAGAACCCGATCC
Found at i:4594334 original size:25 final size:25
Alignment explanation
Indices: 4594306--4594359 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
4594296 GTTTAAATAA
4594306 GAATGCCTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
*
4594331 GAATGCTTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
4594356 GAAT
1 GAAT
4594360 ATTTTGGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCCTTAT
Found at i:4598025 original size:15 final size:15
Alignment explanation
Indices: 4598005--4598046 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
4597995 ATTATTAATG
4598005 TGTTGTTGTTATTAT
1 TGTTGTTGTTATTAT
*
4598020 TGTTGTTGCTATTAT
1 TGTTGTTGTTATTAT
* *
4598035 TATTGTTATTAT
1 TGTTGTTGTTAT
4598047 CTTAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.64
Consensus pattern (15 bp):
TGTTGTTGTTATTAT
Found at i:4598034 original size:18 final size:18
Alignment explanation
Indices: 4597994--4598041 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4597984 TGTAAGTTTT
* *
4597994 TATTATTAATG-TGTTGT
1 TATTATTATTGTTGTTGC
*
4598011 TGTTATTATTGTTGTTGC
1 TATTATTATTGTTGTTGC
4598029 TATTATTATTGTT
1 TATTATTATTGTT
4598042 ATTATCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.62
Consensus pattern (18 bp):
TATTATTATTGTTGTTGC
Found at i:4598150 original size:24 final size:24
Alignment explanation
Indices: 4598107--4598171 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
4598097 CTCGAGCTCG
*
4598107 AGTACAAATAATCGAG-TTTTTTTT
1 AGTATAAA-AATCGAGCTTTTTTTT
4598131 AGTATAAAAATCGAGCTTTTTTTT
1 AGTATAAAAATCGAGCTTTTTTTT
**
4598155 A-TATATTAATCGAGCTT
1 AGTATAAAAATCGAGCTT
4598172 AATCGAGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.57
24 16 0.43
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (24 bp):
AGTATAAAAATCGAGCTTTTTTTT
Found at i:4611563 original size:9 final size:9
Alignment explanation
Indices: 4611560--4611611 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
4611550 AAAAAAAAGC
*
4611560 AAAAGCAAA
1 AAAAACAAA
4611569 AAAAACAAA
1 AAAAACAAA
*
4611578 AAAAATAAA
1 AAAAACAAA
*
4611587 AAAAAGATGAA
1 AAAAACA--AA
*
4611598 AAAAATAAA
1 AAAAACAAA
4611607 AAAAA
1 AAAAA
4611612 TCCCTTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 29 0.78
11 8 0.22
ACGTcount: A:0.85, C:0.04, G:0.06, T:0.06
Consensus pattern (9 bp):
AAAAACAAA
Found at i:4611589 original size:20 final size:20
Alignment explanation
Indices: 4611566--4611611 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4611556 AAGCAAAAGC
4611566 AAAAAAAACAAAAAAAATAA
1 AAAAAAAACAAAAAAAATAA
* **
4611586 AAAAAAGATGAAAAAAATAA
1 AAAAAAAACAAAAAAAATAA
4611606 AAAAAA
1 AAAAAA
4611612 TCCCTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.87, C:0.02, G:0.04, T:0.07
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAATAA
Found at i:4611612 original size:9 final size:9
Alignment explanation
Indices: 4611566--4611612 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
4611556 AAGCAAAAGC
*
4611566 AAAAAAAAC
1 AAAAAAAAT
4611575 AAAAAAAAT
1 AAAAAAAAT
4611584 AAAAAAAAGAT
1 -AAAAAAA-AT
*
4611595 GAAAAAAAT
1 AAAAAAAAT
4611604 AAAAAAAAT
1 AAAAAAAAT
4611613 CCCTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 18 0.55
10 13 0.39
11 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:4613173 original size:24 final size:25
Alignment explanation
Indices: 4613118--4613175 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
4613108 ATTGCATCAC
* * * *
4613118 TTGCATTTGCACTTGTATAAGACAT
1 TTGCATTTGCACTCGTAGAAAAAAT
4613143 TTGCATTTGCAC-CGTAGAAAAAAT
1 TTGCATTTGCACTCGTAGAAAAAAT
4613167 TTGCATTTG
1 TTGCATTTG
4613176 TATCATGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (25 bp):
TTGCATTTGCACTCGTAGAAAAAAT
Found at i:4613766 original size:95 final size:97
Alignment explanation
Indices: 4613582--4613786 Score: 231
Period size: 95 Copynumber: 2.1 Consensus size: 97
4613572 ATTTTAAAAT
* * * *
4613582 TTTTAAAGTTTCATAGTCTCTGATTAGAGGAGCATTAAAAATTTTTTACAATTTTTAAAACCTCT
1 TTTTAAAGTTTCATAGCCTCTGATTAGAGGAGCATTAAAAATATTTTACAATTTTCAAAACCTCG
*
4613647 AGGCACAATTTTTAAAACTACTGGGCAAAACA
66 AGGCACAATCTTTAAAACTACTGGGCAAAACA
* * * *
4613679 TTTTAAAG-TTCATTGCCTTTGATTAGAGGTGCATTAAAAA-ATTTTA-AGATTTTCAAGACCTC
1 TTTTAAAGTTTCATAGCCTCTGATTAGAGGAGCATTAAAAATATTTTACA-ATTTTCAAAACCT-
* * *
4613741 CGA-GCATAATCTTTAAGACCT-CTGGGCAAAAGA
64 CGAGGCACAATCTTTAA-AACTACTGGGCAAAACA
*
4613774 TTTTAAATTTTCA
1 TTTTAAAGTTTCA
4613787 AAGTGTCTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
94 1 0.01
95 45 0.49
96 37 0.41
97 8 0.09
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (97 bp):
TTTTAAAGTTTCATAGCCTCTGATTAGAGGAGCATTAAAAATATTTTACAATTTTCAAAACCTCG
AGGCACAATCTTTAAAACTACTGGGCAAAACA
Found at i:4613951 original size:126 final size:126
Alignment explanation
Indices: 4613744--4613976 Score: 305
Period size: 126 Copynumber: 1.8 Consensus size: 126
4613734 AGACCTCCGA
4613744 GCATAATCTTTAAGACCTCTGGGCAAAAGATTTTAAATTTTCAAAGTGTCTATGCCTCTGATTAG
1 GCATAATCTTTAAGACCTCTGGGCAAAAGATTTTAAATTTTCAAAGTGTCTATGCCTCTGATTAG
* *
4613809 AAGAGCATTCAAAAATTTTA-AGATTTTTAAGACTTCCAAGCATAATTTCTAAGATCTTCGG
66 AAGAGCATTAAAAAATTTTACA-ATTTTTAAGACCTCCAAGCATAATTTCTAAGATCTTCGG
* * * * * *
4613870 GCATAAT-TTTCAAGACTTTTGGGTAAAATATTTTAAATTTTTAAAGT-TTTATGGCCTCT-ATT
1 GCATAATCTTT-AAGACCTCTGGGCAAAAGATTTTAAATTTTCAAAGTGTCTAT-GCCTCTGA-T
*
4613932 TA-AAGGAGCATTAAAAAATTTTACAATTTTTAAGACCTCCGAGCA
63 TAGAA-GAGCATTAAAAAATTTTACAATTTTTAAGACCTCCAAGCA
4613977 AAACATTTTA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
125 10 0.11
126 82 0.88
127 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (126 bp):
GCATAATCTTTAAGACCTCTGGGCAAAAGATTTTAAATTTTCAAAGTGTCTATGCCTCTGATTAG
AAGAGCATTAAAAAATTTTACAATTTTTAAGACCTCCAAGCATAATTTCTAAGATCTTCGG
Found at i:4614299 original size:22 final size:22
Alignment explanation
Indices: 4614268--4614348 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
4614258 AAGATTTTGA
* * *
4614268 AATTTTTAAGACCTCTGGGCAT
1 AATTTCTAAGACCTCTAGACAT
*
4614290 AATTTCTAAGATCTCTAGACAT
1 AATTTCTAAGACCTCTAGACAT
* * *
4614312 AATTTCTAAAACCTCCAAACAT
1 AATTTCTAAGACCTCTAGACAT
4614334 AATCTT-TAAGACCTC
1 AAT-TTCTAAGACCTC
4614349 CGAGCTAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 47 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (22 bp):
AATTTCTAAGACCTCTAGACAT
Found at i:4614313 original size:119 final size:118
Alignment explanation
Indices: 4613956--4614326 Score: 432
Period size: 119 Copynumber: 3.1 Consensus size: 118
4613946 AAAATTTTAC
* * *
4613956 AATTTTTAAGACCTC-CGAGCAAAACATTTTAAAGTTTCATGACCTTTGATTA-GAGGAGCATTA
1 AATTTTTAAGACCTCTAG-GCAAAACATTTTAAAGTTTCATGACCTCTGATTAGGAGGAGCATTC
* * * *
4614019 AAAAATTTT-ACAATTTTTAAGACCTCTAGGCACAATCTT-TAAGATCTTTGAACAC
65 AAAGATTTTGA-AATTTTTAAGACCTCTGGGCACAAT-TTCTAAGATCTTAG-ACAT
* * * * *
4614074 AATTTTCAAGGCCT-TCAGGGAAAACATTTTAAAGTTTCATTG-CCTCTAATTAGGAAGAGCATT
1 AATTTTTAAGACCTCT-AGGCAAAACATTTTAAAGTTTCA-TGACCTCTGATTAGGAGGAGCATT
* * * * *
4614137 CAAAGATTTTGAAATTTGTAAGACCTCCGAGCACAATCTCTAAGA-CTTTCAGGCAT
64 CAAAGATTTTGAAATTTTTAAGACCTCTGGGCACAATTTCTAAGATC-TT-AGACAT
4614193 AATTTTTAAGACCTCTAGGCAAAACATTTTAAAGTTTCATGACCTCTGATTAGGAGGAGCATTCA
1 AATTTTTAAGACCTCTAGGCAAAACATTTTAAAGTTTCATGACCTCTGATTAGGAGGAGCATTCA
*
4614258 AAGATTTTGAAATTTTTAAGACCTCTGGGCATAATTTCTAAGATCTCTAGACAT
66 AAGATTTTGAAATTTTTAAGACCTCTGGGCACAATTTCTAAGATCT-TAGACAT
* *
4614312 AATTTCTAAAACCTC
1 AATTTTTAAGACCTC
4614327 CAAACATAAT
Statistics
Matches: 211, Mismatches: 30, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
118 44 0.21
119 162 0.77
120 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (118 bp):
AATTTTTAAGACCTCTAGGCAAAACATTTTAAAGTTTCATGACCTCTGATTAGGAGGAGCATTCA
AAGATTTTGAAATTTTTAAGACCTCTGGGCACAATTTCTAAGATCTTAGACAT
Found at i:4614416 original size:22 final size:22
Alignment explanation
Indices: 4614388--4614567 Score: 121
Period size: 22 Copynumber: 8.0 Consensus size: 22
4614378 TAATCGATTC
4614388 TTTAAGACCTCTAGGCATAATT
1 TTTAAGACCTCTAGGCATAATT
* * *
4614410 TTTAAGACCT-TCGAGCAAAATC
1 TTTAAGACCTCTAG-GCATAATT
* *
4614432 TCTAAGATCTCTAGGCATAATT
1 TTTAAGACCTCTAGGCATAATT
*
4614454 TTCTAAGACCTCTAAGCATAATT
1 TT-TAAGACCTCTAGGCATAATT
* * *
4614477 TTTAAGACCT-TCGGACAAAATC
1 TTTAAGACCTCTAGG-CATAATT
* * * *
4614499 TCTAACATCTCTGGGCATAATTTT
1 TTTAAGACCTCTAGGCATAA--TT
* * **
4614523 TTTAAGACCTTTAAGTGTAATT
1 TTTAAGACCTCTAGGCATAATT
* * *
4614545 TTCAAGACTTTTAGGCATAATT
1 TTTAAGACCTCTAGGCATAATT
4614567 T
1 T
4614568 CGACTTGCGG
Statistics
Matches: 117, Mismatches: 34, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
21 4 0.03
22 75 0.64
23 25 0.21
24 13 0.11
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (22 bp):
TTTAAGACCTCTAGGCATAATT
Found at i:4614478 original size:67 final size:68
Alignment explanation
Indices: 4614390--4614552 Score: 231
Period size: 67 Copynumber: 2.4 Consensus size: 68
4614380 ATCGATTCTT
* *
4614390 TAAGACCTCTAGGCATAATTTTTAAGACCTTC-GAGCAAAATCTCTAAGATCTCTAGGCATAA-T
1 TAAGACCTCTAAGCATAATTTTTAAGACCTTCGGA-CAAAATCTCTAACATCTCTAGGCATAATT
4614453 TTTC
65 TTTC
*
4614457 TAAGACCTCTAAGCATAATTTTTAAGACCTTCGGACAAAATCTCTAACATCTCTGGGCATAATTT
1 TAAGACCTCTAAGCATAATTTTTAAGACCTTCGGACAAAATCTCTAACATCTCTAGGCATAATTT
*
4614522 TTT
66 TTC
* ** *
4614525 TAAGACCTTTAAGTGTAATTTTCAAGAC
1 TAAGACCTCTAAGCATAATTTTTAAGAC
4614553 TTTTAGGCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
67 56 0.65
68 30 0.35
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (68 bp):
TAAGACCTCTAAGCATAATTTTTAAGACCTTCGGACAAAATCTCTAACATCTCTAGGCATAATTT
TTC
Found at i:4614646 original size:36 final size:36
Alignment explanation
Indices: 4614565--4614691 Score: 132
Period size: 37 Copynumber: 3.5 Consensus size: 36
4614555 TTAGGCATAA
* * *
4614565 TTTCGACTTGCGGTGTTGTCCTAGTTGATTCTTTATCT
1 TTTCGACTTGCGGTGTTGT-CTTGATAATTCTTTA-CT
* *
4614603 TTT-GACTTGTGGTGTTGTCTTGATCATTCTTTACT
1 TTTCGACTTGCGGTGTTGTCTTGATAATTCTTTACT
* *
4614638 TTTCGACTTGCGATGTTGTCATGATTAATTCTTTA-T
1 TTTCGACTTGCGGTGTTGTCTTGA-TAATTCTTTACT
*
4614674 TTCTCGACTTGTGGTGTT
1 TT-TCGACTTGCGGTGTT
4614692 ATCCCGGTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
35 5 0.07
36 32 0.42
37 36 0.47
38 3 0.04
ACGTcount: A:0.13, C:0.16, G:0.20, T:0.51
Consensus pattern (36 bp):
TTTCGACTTGCGGTGTTGTCTTGATAATTCTTTACT
Found at i:4614771 original size:16 final size:16
Alignment explanation
Indices: 4614733--4614775 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4614723 GGTTTAATCC
*
4614733 CAAAACAAAAAAAAATG
1 CAAAA-AAAAAAAAATA
* *
4614750 CCAAAAAATAAAAATA
1 CAAAAAAAAAAAAATA
4614766 CAAAAAAAAA
1 CAAAAAAAAA
4614776 CTTTTGAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.79, C:0.12, G:0.02, T:0.07
Consensus pattern (16 bp):
CAAAAAAAAAAAAATA
Found at i:4615051 original size:20 final size:20
Alignment explanation
Indices: 4615012--4615054 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4615002 AATATTATTT
* *
4615012 ATTAATTAAACATTAAAAAA
1 ATTAATTAAAAAATAAAAAA
4615032 ATTAATTAAAAAATACAAAAA
1 ATTAATTAAAAAATA-AAAAA
4615053 AT
1 AT
4615055 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATTAATTAAAAAATAAAAAA
Found at i:4615052 original size:10 final size:9
Alignment explanation
Indices: 4615025--4615097 Score: 65
Period size: 9 Copynumber: 7.4 Consensus size: 9
4615015 AATTAAACAT
*
4615025 TAAAAAAAT
1 TAAAAAAAA
4615034 TAATTAAAAAA
1 TAA--AAAAAA
*
4615045 TACAAAAAA
1 TAAAAAAAA
4615054 TACAAAAAAA
1 TA-AAAAAAA
4615064 GTAATAAAAAA
1 -TAA-AAAAAA
4615075 TAAAAATAAA
1 TAAAAA-AAA
*
4615085 TAAGAAAAA
1 TAAAAAAAA
4615094 TAAA
1 TAAA
4615098 CAAGTAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
9 20 0.38
10 18 0.34
11 15 0.28
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:4615062 original size:20 final size:18
Alignment explanation
Indices: 4615025--4615097 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 18
4615015 AATTAAACAT
*
4615025 TAAAAAAATTAATTAAAAAA
1 TAAAAAAA-TAA-AAAAAAA
*
4615045 TACAAAAAATACAAAAAAAG
1 TA-AAAAAATA-AAAAAAAA
*
4615065 TAATAAAAAATAAAAATAAA
1 T-A-AAAAAATAAAAAAAAA
4615085 TAAGAAAAATAAA
1 TAA-AAAAATAAA
4615098 CAAGTAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
18 1 0.02
19 10 0.23
20 17 0.39
21 16 0.36
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (18 bp):
TAAAAAAATAAAAAAAAA
Found at i:4615079 original size:17 final size:17
Alignment explanation
Indices: 4615059--4615108 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
4615049 AAAAATACAA
4615059 AAAAAGTAATAAAAAAT
1 AAAAAGTAATAAAAAAT
4615076 AAAAA-TAAATAAGAAAAAT
1 AAAAAGT-AAT-A-AAAAAT
4615095 AAACAAGTAA-AAAA
1 AAA-AAGTAATAAAA
4615109 GAAAAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 2 0.07
19 9 0.32
20 4 0.14
21 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAAGTAATAAAAAAT
Found at i:4615093 original size:31 final size:31
Alignment explanation
Indices: 4615026--4615086 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4615016 ATTAAACATT
* *
4615026 AAAAAAATTAATTAAAAAATACAAAAAATAC
1 AAAAAAAGTAATTAAAAAATAAAAAAAATAC
4615057 AAAAAAAGTAA-TAAAAAATAAAAATAAATA
1 AAAAAAAGTAATTAAAAAATAAAAA-AAATA
4615087 AGAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (31 bp):
AAAAAAAGTAATTAAAAAATAAAAAAAATAC
Found at i:4615110 original size:21 final size:19
Alignment explanation
Indices: 4615070--4615113 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
4615060 AAAAGTAATA
4615070 AAAAATAAAAATAAATAAG
1 AAAAATAAAAATAAATAAG
*
4615089 AAAAATAAACAAGTAAAAAAG
1 AAAAATAAA-AA-TAAATAAG
4615110 AAAA
1 AAAA
4615114 GAAAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAATAAAAATAAATAAG
Found at i:4616289 original size:119 final size:119
Alignment explanation
Indices: 4616092--4616352 Score: 335
Period size: 119 Copynumber: 2.2 Consensus size: 119
4616082 TTAAACATTT
* ** *
4616092 TCTAAGACCTTTGAACATAATTTTCAAGGCCTTTAGGCAAAACATTTTAAAGTTTCATTACCTCT
1 TCTAAGACCTTTGAACATAATTTTCAAGACCTCAAGGCAAAACATTTTAAAGTTTCATGACCTCT
*
4616157 AATTACGAAGAGCATTCAAAGATTTTGAAATTTGTAAGACCTCCGAACATAATC
66 AATTACGAAGAGCATTCAAAGATTTTGAAATTTCTAAGACCTCCGAACATAATC
* * * *
4616211 TCTAAGA-CTTTCGGACATAATTTTTAAGACCTCAAGGCAAAACATTTTAAAGTTTCATGGCTTC
1 TCTAAGACCTTT-GAACATAATTTTCAAGACCTCAAGGCAAAACATTTTAAAGTTTCATGACCTC
* * * * ** *
4616275 TGATTAGGAGGAGCATTCAAAGATTTTGAAATTTCTAAGACCTCTGGGCATAATT
65 TAATTACGAAGAGCATTCAAAGATTTTGAAATTTCTAAGACCTCCGAACATAATC
* * *
4616330 TCTAAGATCTCTAAACATAATTT
1 TCTAAGACCTTTGAACATAATTT
4616353 CTAAAACCTC
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
118 4 0.03
119 114 0.94
120 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (119 bp):
TCTAAGACCTTTGAACATAATTTTCAAGACCTCAAGGCAAAACATTTTAAAGTTTCATGACCTCT
AATTACGAAGAGCATTCAAAGATTTTGAAATTTCTAAGACCTCCGAACATAATC
Found at i:4616332 original size:22 final size:22
Alignment explanation
Indices: 4616304--4616384 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
4616294 AAGATTTTGA
***
4616304 AATTTCTAAGACCTCTGGGCAT
1 AATTTCTAAGACCTCTAAACAT
*
4616326 AATTTCTAAGATCTCTAAACAT
1 AATTTCTAAGACCTCTAAACAT
* *
4616348 AATTTCTAAAACCTCCAAACAT
1 AATTTCTAAGACCTCTAAACAT
4616370 AATCTT-TAAGACCTC
1 AAT-TTCTAAGACCTC
4616385 CTAGCTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
22 48 0.96
23 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (22 bp):
AATTTCTAAGACCTCTAAACAT
Found at i:4617498 original size:14 final size:14
Alignment explanation
Indices: 4617476--4617615 Score: 52
Period size: 14 Copynumber: 9.7 Consensus size: 14
4617466 CGTTTTTTTT
*
4617476 AAACTCTAAAATCC
1 AAACCCTAAAATCC
* *
4617490 AAACCCTAAATTTCA
1 AAACCCTAAA-ATCC
* **
4617505 AAATCCTAAAATTG
1 AAACCCTAAAATCC
4617519 AAACCCT-AAATCTC
1 AAACCCTAAAATC-C
*
4617533 TAAACCC--AAACCC
1 -AAACCCTAAAATCC
*
4617546 TTAAAACCCTAAAATCA
1 ---AAACCCTAAAATCC
* *
4617563 AAACTCTAAAACTAC
1 AAACCCTAAAA-TCC
* *
4617578 AAACCCTAAACTTC
1 AAACCCTAAAATCC
* ** *
4617592 GAACATTAAAATCA
1 AAACCCTAAAATCC
4617606 AAACCCTAAA
1 AAACCCTAAA
4617616 CCTGAAATCC
Statistics
Matches: 89, Mismatches: 29, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
13 5 0.06
14 47 0.53
15 33 0.37
17 4 0.04
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.21
Consensus pattern (14 bp):
AAACCCTAAAATCC
Found at i:4617564 original size:22 final size:21
Alignment explanation
Indices: 4617504--4617574 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 21
4617494 CCTAAATTTC
* *
4617504 AAAATCCTAAAATTGAAACCCT
1 AAAACCCTAAAA-TCAAACCCT
* * **
4617526 AAATCTCTAAACCCAAACCCTT
1 AAAACCCTAAAATCAAACCC-T
*
4617548 AAAACCCTAAAATCAAAACTCT
1 AAAACCCTAAAATC-AAACCCT
4617570 AAAAC
1 AAAAC
4617575 TACAAACCCT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
21 6 0.17
22 25 0.69
23 5 0.14
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.20
Consensus pattern (21 bp):
AAAACCCTAAAATCAAACCCT
Found at i:4617616 original size:28 final size:27
Alignment explanation
Indices: 4617578--4617676 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 27
4617568 CTAAAACTAC
*
4617578 AAACCCTAAACTTCGAACAT-TAAAATCA
1 AAACCCTAAACCT-GAA-ATCTAAAATCA
*
4617606 AAACCCTAAACCTGAAATCCTAATATCA
1 AAACCCTAAACCTGAAAT-CTAAAATCA
* * *
4617634 AAACCCTAAATCCTCCAAACCATAAAACCA
1 AAACCCTAAA-CCT-GAAATC-TAAAATCA
*
4617664 AAACCTTAAACCT
1 AAACCCTAAACCT
4617677 TTTAAACCCT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.03
27 3 0.05
28 29 0.49
29 7 0.12
30 18 0.31
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.19
Consensus pattern (27 bp):
AAACCCTAAACCTGAAATCTAAAATCA
Found at i:4617725 original size:88 final size:88
Alignment explanation
Indices: 4617598--4617771 Score: 215
Period size: 88 Copynumber: 2.0 Consensus size: 88
4617588 CTTCGAACAT
* * * * * * *
4617598 TAAAATCAAAACCCTAAACCTGAAATCCTAATATCAAAACCCTAAATCCTCCAAACCATAAAACC
1 TAAAATAAAAAACCTAAACCTAAAACCCTAAAAT-AAAAACCTAAACCCTCCAAACCATAAAACC
*
4617663 AAAACCT-TAAACCTTTTAAACCC
65 AAAACCTCTAAACCTTTCAAACCC
* ** * *
4617686 TAAAATAAAAAACCTAACCCTAAAACCCTAAAATAAAAACCTAAACCCTTTAAACCTTATAACCA
1 TAAAATAAAAAACCTAAACCTAAAACCCTAAAATAAAAACCTAAACCCTCCAAACCATAAAACCA
4617751 AAACCTCTAAACCTTTCAAAC
66 AAACCTCTAAACCTTTCAAAC
4617772 TTTAAAAGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 31 0.43
88 41 0.57
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (88 bp):
TAAAATAAAAAACCTAAACCTAAAACCCTAAAATAAAAACCTAAACCCTCCAAACCATAAAACCA
AAACCTCTAAACCTTTCAAACCC
Found at i:4617753 original size:29 final size:29
Alignment explanation
Indices: 4617598--4617756 Score: 101
Period size: 28 Copynumber: 5.5 Consensus size: 29
4617588 CTTCGAACAT
* * *
4617598 TAAAATCAAAACCCTAAA-CC-TGAAATCC
1 TAAAACCAAAA-CCTAAACCCTTTAAACCC
* * * ** *
4617626 TAATATCAAAACCCTAAATCCTCCAAACCA
1 TAAAACCAAAA-CCTAAACCCTTTAAACCC
*
4617656 TAAAACCAAAACCTTAAACCTTTTAAACCC
1 TAAAACCAAAACC-TAAACCCTTTAAACCC
** *
4617686 TAAAATAAAAAACCT-AACCC-TAAAACCC
1 TAAAA-CCAAAACCTAAACCCTTTAAACCC
** *
4617714 TAAAATAAAAACCTAAACCCTTTAAACCT
1 TAAAACCAAAACCTAAACCCTTTAAACCC
*
4617743 TATAACCAAAACCT
1 TAAAACCAAAACCT
4617757 CTAAACCTTT
Statistics
Matches: 103, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
27 8 0.08
28 34 0.33
29 25 0.24
30 30 0.29
31 6 0.06
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (29 bp):
TAAAACCAAAACCTAAACCCTTTAAACCC
Found at i:4617823 original size:29 final size:29
Alignment explanation
Indices: 4617790--4617847 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4617780 TTCGAAACCC
4617790 TAAAATCCAAAACCTAAAACCCTAAATTT
1 TAAAATCCAAAACCTAAAACCCTAAATTT
* *
4617819 TAAAATTCAAAACTTAAAACCCTAAATTT
1 TAAAATCCAAAACCTAAAACCCTAAATTT
4617848 GGTACACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (29 bp):
TAAAATCCAAAACCTAAAACCCTAAATTT
Found at i:4619502 original size:18 final size:20
Alignment explanation
Indices: 4619479--4619520 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
4619469 TATTTTATTT
*
4619479 TATAAAAATT-TTAAAAA-A
1 TATAAAAATTAATAAAAATA
4619497 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
4619517 TATA
1 TATA
4619521 TTCCATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:4619511 original size:10 final size:9
Alignment explanation
Indices: 4619478--4619520 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
4619468 TTATTTTATT
4619478 TTATAAAAA
1 TTATAAAAA
*
4619487 TTTTAAAAA
1 TTATAAAAA
*
4619496 ATATAAAAA
1 TTATAAAAA
4619505 TTAATAAAAA
1 TT-ATAAAAA
4619515 TATATA
1 T-TATA
4619521 TTCCATTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 16 0.57
10 11 0.39
11 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:4620358 original size:30 final size:31
Alignment explanation
Indices: 4620322--4620402 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
4620312 AGAAACTTTT
4620322 TTTTGTATTTAAATAAATTTTTAAT-TTTAA
1 TTTTGTATTTAAATAAATTTTTAATCTTTAA
*
4620352 TTTTGTATTTAAATAAAATTTTAATCTTTAA
1 TTTTGTATTTAAATAAATTTTTAATCTTTAA
* * *
4620383 -TTTATATATGAATAAATTTT
1 TTTTGTATTTAAATAAATTTT
4620403 AACATAAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
30 40 0.89
31 5 0.11
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (31 bp):
TTTTGTATTTAAATAAATTTTTAATCTTTAA
Found at i:4623007 original size:25 final size:25
Alignment explanation
Indices: 4622979--4623052 Score: 139
Period size: 25 Copynumber: 3.0 Consensus size: 25
4622969 AGAAATTTAC
4622979 CATTTGAAATTTCTAACAATTCCAT
1 CATTTGAAATTTCTAACAATTCCAT
4623004 CATTTGAAATTTCTAACAATTCCAT
1 CATTTGAAATTTCTAACAATTCCAT
*
4623029 CATTTGAAATTTCTAAAAATTCCA
1 CATTTGAAATTTCTAACAATTCCA
4623053 CTATTGGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (25 bp):
CATTTGAAATTTCTAACAATTCCAT
Found at i:4623974 original size:43 final size:43
Alignment explanation
Indices: 4623920--4624242 Score: 320
Period size: 43 Copynumber: 7.5 Consensus size: 43
4623910 CTTTATGACT
* *
4623920 TTTGAAAAATAAATATA-GCTCTTTTAAACAGAGACTCAACAAC
1 TTTGAAAAATAAATA-AGGCTCTTCTAAACAGAGACTCAACGAC
* * * *
4623963 TTTGAAAAATAAATAATGCT-TCTCTAAACAGAGGCTCAATGAT
1 TTTGAAAAATAAATAAGGCTCT-TCTAAACAGAGACTCAACGAC
* ** *
4624006 TTCTAAAAAATAAATAAACCTCTTCTAAACA-AAAGCTCAACGAC
1 TT-TGAAAAATAAATAAGGCTCTTCTAAACAGAGA-CTCAACGAC
* *
4624050 TTTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAC
1 -TTTGAAAAATAAATAAGGCTCTTCTAAACAGAGACTCAACGAC
* * *
4624094 TTTGAGAAATAAATAAGGCTACTT-TAAATAGAG-CTTAACGAC
1 TTTGAAAAATAAATAAGGCT-CTTCTAAACAGAGACTCAACGAC
* **
4624136 TTTGAAAAATAAATAAGGC-CTTCTAAATAGAGGTTCAACGAC
1 TTTGAAAAATAAATAAGGCTCTTCTAAACAGAGACTCAACGAC
*
4624178 TTT-ATAAAATAAATAAGGCT-TCTCTAAACAGAGACTCAATGAC
1 TTTGA-AAAATAAATAAGGCTCT-TCTAAACAGAGACTCAACGAC
* *
4624221 TATTGAAAAGTAAATAAAGCTC
1 T-TTGAAAAATAAATAAGGCTC
4624243 CTTGATAAAC
Statistics
Matches: 233, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
40 3 0.01
41 10 0.04
42 53 0.23
43 82 0.35
44 80 0.34
45 5 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.27
Consensus pattern (43 bp):
TTTGAAAAATAAATAAGGCTCTTCTAAACAGAGACTCAACGAC
Found at i:4624057 original size:131 final size:128
Alignment explanation
Indices: 4623916--4624237 Score: 364
Period size: 131 Copynumber: 2.5 Consensus size: 128
4623906 GAGACTTTAT
* * *
4623916 GACTTTTGAAAAATAAATATA-GCTCTTTTAAACAGAGACTCAACAACTTTGAAAAATAAATAAT
1 GACTTTTGAAAAATAAATA-AGGCTCTTCTAAACAGAGACTCAACGACTTTGAAAAATAAATAAG
* * *
4623980 GCTTCTCTAAACAGAGGCTCAATGATTTCTAAAAAATAAATAAACCTCTTCTAAACAAAAGCTCA
65 GCTACTCTAAACAGA-GCTCAACGACTT-TAAAAAATAAATAAACC-CTTCTAAACAAAAGCTCA
4624045 AC
127 AC
* * *
4624047 GACTTTTGAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAATAAATAAGG
1 GACTTTTGAAAAATAAATAAGGCTCTTCTAAACAGAGACTCAACGACTTTGAAAAATAAATAAGG
* * * * ** * * * *
4624112 CTACTTTAAATAGAGCTTAACGACTTTGAAAAATAAATAAGGCCTTCTAAATAGAGGTTCAAC
66 CTACTCTAAACAGAGCTCAACGACTTTAAAAAATAAATAAACCCTTCTAAACAAAAGCTCAAC
* *
4624175 GAC-TTT-ATAAAATAAATAAGGCT-TCTCTAAACAGAGACTCAATGACTATTGAAAAGTAAATA
1 GACTTTTGA-AAAATAAATAAGGCTCT-TCTAAACAGAGACTCAACGACT-TTGAAAAATAAATA
4624237 A
63 A
4624238 AGCTCCTTGA
Statistics
Matches: 163, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
126 1 0.01
127 38 0.23
128 32 0.20
129 14 0.09
130 10 0.06
131 68 0.42
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.27
Consensus pattern (128 bp):
GACTTTTGAAAAATAAATAAGGCTCTTCTAAACAGAGACTCAACGACTTTGAAAAATAAATAAGG
CTACTCTAAACAGAGCTCAACGACTTTAAAAAATAAATAAACCCTTCTAAACAAAAGCTCAAC
Found at i:4624563 original size:33 final size:33
Alignment explanation
Indices: 4624520--4624590 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
4624510 TCTTGAATTC
*** * *
4624520 ATGCACTAGACATTCTCAAATGCGATGCATGTT
1 ATGCACTAGACATTAAAAAATACAATGCATGTT
*
4624553 ATGCATTAGACATTAAAAAATACAATGCATGTT
1 ATGCACTAGACATTAAAAAATACAATGCATGTT
4624586 ATGCA
1 ATGCA
4624591 AATGTCAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGCACTAGACATTAAAAAATACAATGCATGTT
Found at i:4635880 original size:16 final size:16
Alignment explanation
Indices: 4635848--4635878 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4635838 CATCCTTGAA
4635848 ATTTATTTTTTATTTT
1 ATTTATTTTTTATTTT
4635864 ATTTA-TTTTTATTTT
1 ATTTATTTTTTATTTT
4635879 TAAAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTATTTTTTATTTT
Found at i:4636427 original size:24 final size:25
Alignment explanation
Indices: 4636400--4636464 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
4636390 AAGAATTTTA
4636400 TAAAAATTT-ACCATTTGAAAATTT
1 TAAAAATTTCACCATTTGAAAATTT
* *
4636424 TAAAAATTTCATCATTTGAAATTTT
1 TAAAAATTTCACCATTTGAAAATTT
*
4636449 TAAAAATTTCATCATT
1 TAAAAATTTCACCATT
4636465 GGATAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 9 0.24
25 29 0.76
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (25 bp):
TAAAAATTTCACCATTTGAAAATTT
Found at i:4636883 original size:21 final size:21
Alignment explanation
Indices: 4636842--4636883 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4636832 TTCTCAAATT
* *
4636842 TTTTCTCTCTCTTCTTTTCTC
1 TTTTCTCTCCCTTCTTCTCTC
4636863 TTTTCTCTCCCTT-TCTCTCTC
1 TTTTCTCTCCCTTCT-TCTCTC
4636884 AGATGAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTCTCTCCCTTCTTCTCTC
Found at i:4637544 original size:16 final size:16
Alignment explanation
Indices: 4637523--4637563 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4637513 ATATTATCTC
4637523 ATTATTTCAATTAAAA-
1 ATTATTTCAA-TAAAAT
*
4637539 ATTATTACAATAAAAT
1 ATTATTTCAATAAAAT
4637555 ATTATTTCA
1 ATTATTTCA
4637564 TGTGTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATTTCAATAAAAT
Found at i:4637667 original size:3 final size:3
Alignment explanation
Indices: 4637659--4637705 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4637649 ATCATTTAAG
4637659 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4637706 TGTAATCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4637896 original size:30 final size:30
Alignment explanation
Indices: 4637846--4637904 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
4637836 GAAAGTATAT
* *
4637846 ATTTAAGAGTTCGTTTGATTTGAAATAAAAG
1 ATTTAAGACTTCGATTGATTT-AAATAAAAG
*
4637877 ATTTAAGACTT-GATTGATTTTAATAAAA
1 ATTTAAGACTTCGATTGATTTAAATAAAA
4637905 TATTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 8 0.32
31 10 0.40
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (30 bp):
ATTTAAGACTTCGATTGATTTAAATAAAAG
Found at i:4638491 original size:27 final size:26
Alignment explanation
Indices: 4638461--4638513 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
4638451 AAAAAATAAT
4638461 AAAAATTTATTTGCA-TATAAATAAAAA
1 AAAAATTTATTTG-AGTAT-AATAAAAA
*
4638488 AAAATTTTATTTGAGTATAATAAAAA
1 AAAAATTTATTTGAGTATAATAAAAA
4638514 TATAAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (26 bp):
AAAAATTTATTTGAGTATAATAAAAA
Found at i:4638509 original size:26 final size:26
Alignment explanation
Indices: 4638461--4638513 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
4638451 AAAAAATAAT
4638461 AAAAATTTATTTGCATATAAATAAAA
1 AAAAATTTATTTGCATATAAATAAAA
4638487 AAAAATTTTATTTG-AGTAT-AATAAAA
1 AAAAA-TTTATTTGCA-TATAAATAAAA
4638513 A
1 A
4638514 TATAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (26 bp):
AAAAATTTATTTGCATATAAATAAAA
Found at i:4639387 original size:28 final size:27
Alignment explanation
Indices: 4639337--4639405 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
4639327 TCAATTAAGG
4639337 ATTTAATTAATTTAAATAAATATTAAA
1 ATTTAATTAATTTAAATAAATATTAAA
*
4639364 ATTTGATTAA-TTATAATAACATATTAAA
1 ATTTAATTAATTTA-AATAA-ATATTAAA
*
4639392 ATTTTAAATAATTT
1 A-TTTAATTAATTT
4639406 TTTAATCGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.09
27 14 0.40
28 9 0.26
29 7 0.20
30 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
ATTTAATTAATTTAAATAAATATTAAA
Found at i:4644073 original size:24 final size:26
Alignment explanation
Indices: 4644031--4644102 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 26
4644021 AAAAACCACA
*
4644031 TTATTATT-TCTATATTTTTA-ATA-T
1 TTATTATTATATATA-TTTTAGATATT
4644055 TTATTATTATATATATTTTAGATATT
1 TTATTATTATATATATTTTAGATATT
4644081 TTAATTATTTATAATATATTTT
1 TT-ATTA-TTAT-ATATATTTT
4644103 TACAGTAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
24 13 0.32
25 8 0.20
26 3 0.07
27 4 0.10
28 4 0.10
29 9 0.22
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (26 bp):
TTATTATTATATATATTTTAGATATT
Found at i:4644672 original size:133 final size:133
Alignment explanation
Indices: 4644420--4644659 Score: 322
Period size: 133 Copynumber: 1.8 Consensus size: 133
4644410 TTTGAGACGC
* * * * * *
4644420 CGCTACTTTAGAGGCCTTTGAATATGAAAATGGCTCAATATTAGCGGTGTTTGTATCTTTTAGTC
1 CGCTACTTTAAAGGCATTTGAATATGAAAATGCCTCAATATTAACGGCGTTTGTATCTTTAAGTC
* * *
4644485 GTCGCTAATTCAATGACATTTTTATGAGAAAAACGTCATTGCATTGACGGCATTTGTAACATAAA
66 GTCGCTAATTCAATGACACTGTTATGAGAAAAACGACATTGCATTGACGGCATTTGTAACATAAA
4644550 ATG
131 ATG
*
4644553 CGCTACTTTAAAGGCATTTGAATCTGAAAATGCCTCAATATTAACGGCGTTTGTATCTTGTAAGT
1 CGCTACTTTAAAGGCATTTGAATATGAAAATGCCTCAATATTAACGGCGTTTGTATCTT-TAAGT
* * * *
4644618 -G-CTGCTAATTCAGTGGCGCTGTTATGAGAAAAACGACGTTGC
65 CGTC-GCTAATTCAATGACACTGTTATGAGAAAAACGACATTGC
4644660 TTTAGTGGCA
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
132 1 0.01
133 86 0.95
134 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (133 bp):
CGCTACTTTAAAGGCATTTGAATATGAAAATGCCTCAATATTAACGGCGTTTGTATCTTTAAGTC
GTCGCTAATTCAATGACACTGTTATGAGAAAAACGACATTGCATTGACGGCATTTGTAACATAAA
ATG
Found at i:4652182 original size:23 final size:23
Alignment explanation
Indices: 4652156--4652200 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4652146 TCCTATCACA
*
4652156 ATTTGTAGATAATTAGTGAAGGC
1 ATTTGCAGATAATTAGTGAAGGC
4652179 ATTTGCAGATAATTAGTGAAGG
1 ATTTGCAGATAATTAGTGAAGG
4652201 TGTTTTCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (23 bp):
ATTTGCAGATAATTAGTGAAGGC
Found at i:4652844 original size:355 final size:355
Alignment explanation
Indices: 4652214--4653346 Score: 1446
Period size: 355 Copynumber: 3.2 Consensus size: 355
4652204 TTTCTACATT
* * * * * *
4652214 AACGGCTTCAATAATTTGCTTAACAAAAGTTTTTCGGATTATTAAAGATGTATTTTATTATGAAA
1 AACGCCTTCAATAATTTTCTTAAAAAAATTTTTTC-GATTATTAAAGGTGTCTTTTATTATGAAA
* * * *
4652279 TGCCTTCAATATACCACGATGATTATGGAAGGCGTTTATTCAAAAAGGCACATTCAATATACCTT
65 TGCCTTCAATATACCACGATGGTTATGAAAGGCGTTTATTTAAAAAGGCACCTTCAATATACCTT
* * * * *
4652344 TAAACTTAGTAATCCATTACCAAAGGCATTTGTTAATAACAGACACCTTCAGAATTTTTTCACTA
130 TAAACTTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTA
* * *
4652409 AAAATTTTGGGAATCATTAAAGGCATCTTCTACTGT-AAATGCATTCTATATACCGTCATATAAA
195 AAAATTTTGGGAATCATTAAAGGCGTCTTCTACTGTAAAATGCATTCTATATACCG-CACACAAA
*
4652473 TTTTAACATGATTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCCTATCACAATTT
259 TTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCCTATCACAATTT
* * * *
4652538 GAAGATAATTAGTAAAGGCAATTGCAGATAAT
324 GTAGATAATTAGTGAAGGCGATTGCAGATAAC
*
4652570 AATGCCTTCAATAATTTTCTTAAAAAAATTTATTTCGATTATTAAAGGTGTCTTTTATTATGAAA
1 AACGCCTTCAATAATTTTCTTAAAAAAATTT-TTTCGATTATTAAAGGTGTCTTTTATTATGAAA
** * * *
4652635 CACCTTCAATATACCACGATGGTTATGAAAGGTGTTTATTTGAAAATGC-CCTTCAATATACCTT
65 TGCCTTCAATATACCACGATGGTTATGAAAGGCGTTTATTTAAAAAGGCACCTTCAATATACCTT
*
4652699 TAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTA
130 TAAACTTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTA
* * * *
4652764 AAAATTTTGGGAATCATTAAAGGTGTCTTCTACTGTAAAATGCGTTCAATATGCCGCACACAAAT
195 AAAATTTTGGGAATCATTAAAGGCGTCTTCTACTGTAAAATGCATTCTATATACCGCACACAAAT
* * * *
4652829 TTTAACACAATTATTGAAGGCGTATATCCAAGAAAGACACCTTTAATAATTCCTATCATAGTTTG
260 TTTAACACGATTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCCTATCACAATTTG
* *
4652894 TATATAATTAGTGAAGGCGGTTGCAGATAAC
325 TAGATAATTAGTGAAGGCGATTGCAGATAAC
* * * * *
4652925 AACACCTTCAATAATATTTC-TAAAATAATTTTTTAGATTATTAAATGTGTCTTTTATTATGACA
1 AACGCCTTCAATAAT-TTTCTTAAAAAAATTTTTTCGATTATTAAAGGTGTCTTTTATTATGAAA
* * * * *
4652989 TGCCTTCAATATACCACGATAGTTATTAAAGGCATTTATTCAAAAGGGCACCTTCAATATACCTT
65 TGCCTTCAATATACCACGATGGTTATGAAAGGCGTTTATTTAAAAAGGCACCTTCAATATACCTT
*** *
4653054 TAAACTTAGTAATCCATTA-TCAAATATGTTTGTTAATAACAGACGCCTTCAAAATTTTCCCACT
130 TAAACTTAGTAATCCATTACT-AAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACT
*** * * * *
4653118 -AAAATTTTTAAAATTATTAAAGGCGTCTTCTACTGTAAAATACCTTTTATATACCG--C-C-AA
194 AAAAATTTTGGGAATCATTAAAGGCGTCTTCTACTGTAAAATGCATTCTATATACCGCACACAAA
* * * * ** *
4653178 --CTAACACGATTATTGAAGTCGTATATCCAAGAAAAATGCCTTTAATAATTTTTATCACAGTTT
259 TTTTAACACGATTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCCTATCACA-ATT
* *
4653241 TGTAGATAATTAGTGAAGGTGTTTGCAGATAAC
323 TGTAGATAATTAGTGAAGGCGATTGCAGATAAC
* * * *
4653274 AACGCCTTCAATAATTTT-TCAAAAAAAAATTTTTGGATTATTAAA-GTGTCTTTTATTATAAAA
1 AACGCCTTCAATAATTTTCT-TAAAAAAATTTTTTCGATTATTAAAGGTGTCTTTTATTATGAAA
4653337 TGCCTTCAAT
65 TGCCTTCAAT
4653347 CATTTGTTAT
Statistics
Matches: 678, Mismatches: 91, Indels: 24
0.85 0.11 0.03
Matches are distributed among these distances:
348 79 0.12
349 67 0.10
350 2 0.00
351 1 0.00
352 1 0.00
354 116 0.17
355 294 0.43
356 114 0.17
357 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (355 bp):
AACGCCTTCAATAATTTTCTTAAAAAAATTTTTTCGATTATTAAAGGTGTCTTTTATTATGAAAT
GCCTTCAATATACCACGATGGTTATGAAAGGCGTTTATTTAAAAAGGCACCTTCAATATACCTTT
AAACTTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAA
AAATTTTGGGAATCATTAAAGGCGTCTTCTACTGTAAAATGCATTCTATATACCGCACACAAATT
TTAACACGATTATTGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTCCTATCACAATTTGT
AGATAATTAGTGAAGGCGATTGCAGATAAC
Found at i:4655657 original size:21 final size:21
Alignment explanation
Indices: 4655618--4655657 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4655608 CAGCAACAAA
*
4655618 TTAATGACCAAGAGTAAAGCT
1 TTAATGACCAAGAGCAAAGCT
*
4655639 TTAATGACCAATAGCAAAG
1 TTAATGACCAAGAGCAAAG
4655658 ACTCGCTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (21 bp):
TTAATGACCAAGAGCAAAGCT
Found at i:4657434 original size:35 final size:35
Alignment explanation
Indices: 4657372--4657439 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
4657362 ATATATAAAC
*
4657372 CAAATATTTTCTGGGCATAAATATACAACTGACAA
1 CAAATATTTTCTGGGCATAAACATACAACTGACAA
* * *
4657407 CAAATATTTTTTGGGCATAAACCTACAAGTGAC
1 CAAATATTTTCTGGGCATAAACATACAACTGAC
4657440 TTCATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (35 bp):
CAAATATTTTCTGGGCATAAACATACAACTGACAA
Found at i:4658708 original size:29 final size:28
Alignment explanation
Indices: 4658676--4658742 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
4658666 TTAAGTATTC
4658676 AATTAATTTCAATAAAATATTAAAAATTT
1 AATTAATTT-AATAAAATATTAAAAATTT
4658705 AATTAATTGTAATAAAATATTAAAAATTT
1 AATTAATT-TAATAAAATATTAAAAATTT
*
4658734 AAATAATTT
1 AATTAATTT
4658743 TTTACTCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 1 0.03
29 34 0.94
30 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
AATTAATTTAATAAAATATTAAAAATTT
Found at i:4660174 original size:15 final size:16
Alignment explanation
Indices: 4660154--4660186 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
4660144 TGTACAAAGG
4660154 AAATTTTTTT-TCTTC
1 AAATTTTTTTATCTTC
4660169 AAATTTTTTTATCTTC
1 AAATTTTTTTATCTTC
4660185 AA
1 AA
4660187 TCTTTGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (16 bp):
AAATTTTTTTATCTTC
Found at i:4664094 original size:26 final size:26
Alignment explanation
Indices: 4664065--4664116 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
4664055 TTTTCTTTTG
4664065 CTTTCGAAAA-TAAGAAATACCAAAAA
1 CTTTCGAAAATTAAGAAAT-CCAAAAA
** *
4664091 CTTTTTAAAATTAATAAATCCAAAAA
1 CTTTCGAAAATTAAGAAATCCAAAAA
4664117 AATTGCATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (26 bp):
CTTTCGAAAATTAAGAAATCCAAAAA
Found at i:4664999 original size:9 final size:9
Alignment explanation
Indices: 4664923--4665001 Score: 50
Period size: 9 Copynumber: 8.0 Consensus size: 9
4664913 GCTGAGAGAG
4664923 AAGAAAAAA
1 AAGAAAAAA
*
4664932 AAGTGAAAAGA
1 AA--GAAAAAA
4664943 AAGAAAGAAA
1 AAGAAA-AAA
4664953 AAGAAAGAAGTA
1 AAGAAA-AA--A
4664965 TAAGAAAAAA
1 -AAGAAAAAA
* * *
4664975 GACAAGAAA
1 AAGAAAAAA
4664984 AAGAAAAAA
1 AAGAAAAAA
*
4664993 AATAAAAAA
1 AAGAAAAAA
4665002 GAAAGGATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 26 0.47
10 12 0.22
11 8 0.15
12 3 0.05
13 6 0.11
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:4664999 original size:27 final size:26
Alignment explanation
Indices: 4664923--4665006 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 26
4664913 GCTGAGAGAG
4664923 AAGAAAAAAAAGTGAAAAGAAAGAAAGAAA
1 AAGAAAAAAAA-T--AAA-AAAGAAAGAAA
*
4664953 AAGAAAGAAGTATAAGAAAAAAGACAAGAAA
1 AAGAAA-AA--A-AATAAAAAAGA-AAGAAA
4664984 AAGAAAAAAAATAAAAAAGAAAG
1 AAGAAAAAAAATAAAAAAGAAAG
4665007 GATAAGAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
26 3 0.06
27 10 0.21
28 1 0.02
30 13 0.28
31 17 0.36
33 1 0.02
34 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (26 bp):
AAGAAAAAAAATAAAAAAGAAAGAAA
Found at i:4673842 original size:87 final size:87
Alignment explanation
Indices: 4673684--4673851 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
4673674 TTTAGAGGAA
* * * *
4673684 CCTTATATATTTATTAAAGTCGTGAGCCTATGTTTAAAGAAGCCTTATTTATTTTTTTCAAAGTC
1 CCTTATATATTTATTAAAGTCGTAAGCCTATGTTTAAAGAAGACTTATTTATTTTTCTCAAAATC
*
4673749 AATGAGCTTCTATTTATTGGAG
66 AATGAGCCTCTATTTATTGGAG
* * * * *
4673771 CCTTATTTATTTTTTTAAAGTCGTTAAGCCTTTGTTTAGAGAAGATTTATTT-TTTTTCT-AAAA
1 CCTTATATA-TTTATTAAAGTCG-TAAGCCTATGTTTAAAGAAGACTTATTTATTTTTCTCAAAA
*
4673834 TCATTGAGCCTCTATTTA
64 TCAATGAGCCTCTATTTA
4673852 AAACGCTTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 27 0.40
88 18 0.26
89 23 0.34
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (87 bp):
CCTTATATATTTATTAAAGTCGTAAGCCTATGTTTAAAGAAGACTTATTTATTTTTCTCAAAATC
AATGAGCCTCTATTTATTGGAG
Found at i:4674038 original size:90 final size:88
Alignment explanation
Indices: 4673904--4674078 Score: 206
Period size: 90 Copynumber: 2.0 Consensus size: 88
4673894 AGCTTTTCTA
* *
4673904 TTTTTTAAAGTTGTAAGCATCTATTTAAAATAGCCTTATTTATTTTTCCAAAGCCAGGGAGCTTC
1 TTTTTTAAAGTTGTAAGCATCTATTTAAAAGAGCCTTATTTATTTTTCCAAAGCCAGGGAGCCTC
*
4673969 TATTTAGAGAAGCCTTATTTATT
66 CATTTAGAGAAGCCTTATTTATT
* * * * * * * **
4673992 TTTTTTCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAGTCATTGAGCC
1 TTTTTT-AAAGTTG-TAAGCATCTATTTAAAAGAGCCTTATTTATTTTTCCAAAGCCAGGGAGCC
* *
4674057 TCCATTTAGAGGAGCTTTATTT
64 TCCATTTAGAGAAGCCTTATTT
4674079 TTCAAAGTCG
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 6 0.08
89 7 0.10
90 58 0.82
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (88 bp):
TTTTTTAAAGTTGTAAGCATCTATTTAAAAGAGCCTTATTTATTTTTCCAAAGCCAGGGAGCCTC
CATTTAGAGAAGCCTTATTTATT
Found at i:4674057 original size:44 final size:44
Alignment explanation
Indices: 4673698--4674159 Score: 257
Period size: 44 Copynumber: 10.8 Consensus size: 44
4673688 ATATATTTAT
* * * * * *
4673698 TAAAGTC-GTGAGCCTATGTTTAAAGAAGCCTTATTTATTTTTT
1 TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
* * ** * * *
4673741 TCAAAGTCAATGAGCTTCTATTTATTGGAGCCTTATTTATTTTTT
1 T-AAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
* * * * *
4673786 TAAAGTCGTTAAGCCTTTGTTTAGAGAAGATTTATTT-TTTTTC
1 TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
*
4673829 TAAAATCATTGAGCCTCTATTTA-A-AACGC----TTTA-TTTTC
1 TAAAGTCATTGAGCCTCTATTTAGAGAA-GCTTTATTTATTTTTC
* * * *
4673867 TAAAGTCATTGAGCCTTTGTTGAGAGAAGCTTT-TCTATTTTT-
1 TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
* * * *
4673909 TAAAGT--TGTAAGCATCTATTTA-AAATAGCCTTATTTATTTTTC
1 TAAAGTCAT-TGAGCCTCTATTTAGAGA-AGCTTTATTTATTTTTC
* * ** * * *
4673952 CAAAGCCAGGGAGCTTCTATTTAGAGAAGCCTTATTTATTTTTTT
1 TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTA-TTTTTC
** * * *
4673997 TCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTC
1 T-AAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
* *
4674042 TAAAGTCATTGAGCCTCCATTTAGAGGAGC----TTTATTTTTC
1 TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
* * * * * * *
4674082 -AAAGTCGTTAAGCCTTTGTTGA-AAAGAGCTTT-TCTATTTTTC
1 TAAAGTCATTGAGCCTCTATTTAGAGA-AGCTTTATTTATTTTTC
* *
4674124 -AAAGTCATTGAGCCTTTATTTAGATAAGCTTTATTT
1 TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTT
4674160 TTCAAAACCA
Statistics
Matches: 316, Mismatches: 78, Indels: 50
0.71 0.18 0.11
Matches are distributed among these distances:
38 28 0.09
39 22 0.07
40 15 0.05
41 16 0.05
42 52 0.16
43 36 0.11
44 77 0.24
45 43 0.14
46 27 0.09
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (44 bp):
TAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTATTTTTC
Found at i:4674096 original size:39 final size:39
Alignment explanation
Indices: 4673993--4674204 Score: 172
Period size: 39 Copynumber: 5.2 Consensus size: 39
4673983 TTATTTATTT
**
4673993 TTTTTCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATTTA
1 TTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGC----TTTA
* **
4674036 TTTTTCTAAAGTCATTGAGCCTCCATTTAGAGGAGCTTTA
1 TTTTTC-AAAGTCATTAAGCCTCTGTTTAGAGGAGCTTTA
* * * * *
4674076 TTTTTCAAAGTCGTTAAGCCTTTGTTGAAAAGAGCTTTTCTA
1 TTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGC--TT-TA
* * * **
4674118 TTTTTCAAAGTCATTGAGCCTTTATTTAGATAAGCTTTA
1 TTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGCTTTA
** * **
4674157 TTTTTCAAAACCATTAAGCCTCCGTTTAGATAAGCTTTA
1 TTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGCTTTA
4674196 TTTTTCAAA
1 TTTTTCAAA
4674205 ACCGTTAAAC
Statistics
Matches: 139, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
39 65 0.47
40 12 0.09
41 2 0.01
42 30 0.22
43 6 0.04
44 24 0.17
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (39 bp):
TTTTTCAAAGTCATTAAGCCTCTGTTTAGAGGAGCTTTA
Found at i:4674116 original size:214 final size:211
Alignment explanation
Indices: 4673716--4674128 Score: 557
Period size: 214 Copynumber: 1.9 Consensus size: 211
4673706 TGAGCCTATG
* * * ** *
4673716 TTTAAAGAAGCCTTATTTATTTTTTTCAAAGTCAATGAGCTTCTATTTATTGGAGCCTTATTTAT
1 TTTAAAGAAGCCTTATTTATTTTTTCCAAAGCCAAGGAGCTTCTATTTAGAGAAGCCTTATTTAT
*
4673781 TTTTTTAAAGTCGTTAAGCCTTTGTTTAGAGAAGATTTATTTTTTTTCTAAAATCATTGAGCCTC
66 TTTTTTAAAGTCGTTAAGCCTCTGTTTAGAGAAGATTTATTTTTTTTCTAAAATCATTGAGCCTC
* * * *
4673846 TATTTAAAACGCTTTATTTTCTAAAGTCATTGAGCCTTTGTTGAGAGAAGCTTTTCTATTTTTTA
131 CATTTAAAACGCTTTATTTTCTAAAGTCATTAAGCCTTTGTTGAAAGAAGCTTTTCTATTTTTCA
4673911 AAGTTGTAAGCATCTA
196 AAGTTGTAAGCATCTA
*
4673927 TTTAAA-ATAGCCTTATTTA-TTTTTCCAAAGCCAGGGAGCTTCTATTTAGAGAAGCCTTATTTA
1 TTTAAAGA-AGCCTTATTTATTTTTTCCAAAGCCAAGGAGCTTCTATTTAGAGAAGCCTTATTTA
* * * *
4673990 TTTTTTTTCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAGTCATTGAG
65 -TTTTTTT-AAAGTCGTTAAGCCTCTGTTTAGAGAAGATTTATTT-TTTTTCTAAAATCATTGAG
* *
4674055 CCTCCATTTAGAGGA-GCTTTATTTT-TCAAAGTCGTTAAGCCTTTGTTGAAA-AGAGCTTTTCT
127 CCTCCATTTA-A-AACGCTTTATTTTCT-AAAGTCATTAAGCCTTTGTTGAAAGA-AGCTTTTCT
4674117 ATTTTTCAAAGT
188 ATTTTTCAAAGT
4674129 CATTGAGCCT
Statistics
Matches: 176, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
210 38 0.22
211 24 0.14
212 32 0.18
213 29 0.16
214 52 0.30
215 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (211 bp):
TTTAAAGAAGCCTTATTTATTTTTTCCAAAGCCAAGGAGCTTCTATTTAGAGAAGCCTTATTTAT
TTTTTTAAAGTCGTTAAGCCTCTGTTTAGAGAAGATTTATTTTTTTTCTAAAATCATTGAGCCTC
CATTTAAAACGCTTTATTTTCTAAAGTCATTAAGCCTTTGTTGAAAGAAGCTTTTCTATTTTTCA
AAGTTGTAAGCATCTA
Found at i:4674154 original size:81 final size:83
Alignment explanation
Indices: 4673993--4674165 Score: 242
Period size: 81 Copynumber: 2.1 Consensus size: 83
4673983 TTATTTATTT
* * * * *
4673993 TTTTTCAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAGTCATTGAGCCT
1 TTTTTCAAAGTCGTTAAGCCTCTGTTGAAAAGAGCTTTATCTATTTTTCTAAAGTCATTGAGCCT
*
4674058 CCATTTAGAGGAGCTTTA
66 CCATTTAGAGAAGCTTTA
*
4674076 TTTTTCAAAGTCGTTAAGCCTTTGTTGAAAAGAGCTTT-TCTATTTTTC-AAAGTCATTGAGCCT
1 TTTTTCAAAGTCGTTAAGCCTCTGTTGAAAAGAGCTTTATCTATTTTTCTAAAGTCATTGAGCCT
** *
4674139 TTATTTAGATAAGCTTTA
66 CCATTTAGAGAAGCTTTA
4674157 TTTTTCAAA
1 TTTTTCAAA
4674166 ACCATTAAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 38 0.47
82 9 0.11
83 33 0.41
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (83 bp):
TTTTTCAAAGTCGTTAAGCCTCTGTTGAAAAGAGCTTTATCTATTTTTCTAAAGTCATTGAGCCT
CCATTTAGAGAAGCTTTA
Found at i:4674193 original size:81 final size:83
Alignment explanation
Indices: 4674006--4674196 Score: 226
Period size: 81 Copynumber: 2.3 Consensus size: 83
4673996 TTCAAAGTTG
** * *
4674006 TTAAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAGTCATTGAGCCTCCATTTAGAGGAG
1 TTAAGCCTCTGTTTAGAAAAGCTTTATCTATTTTTCTAAAGTCATTGAGCCTCCATTTAGAGAAG
** *
4674071 CTTTATTTTTCAAAGTCG
66 CTTTATTTTTCAAAACCA
* * ** *
4674089 TTAAGCCTTTGTTGA-AAAGAGCTTT-TCTATTTTTC-AAAGTCATTGAGCCTTTATTTAGATAA
1 TTAAGCCTCTGTTTAGAAA-AGCTTTATCTATTTTTCTAAAGTCATTGAGCCTCCATTTAGAGAA
4674151 GCTTTATTTTTCAAAACCA
65 GCTTTATTTTTCAAAACCA
* *
4674170 TTAAGCCTCCGTTTAGATAAGCTTTAT
1 TTAAGCCTCTGTTTAGAAAAGCTTTAT
4674197 TTTTCAAAAC
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
81 57 0.64
82 13 0.15
83 19 0.21
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (83 bp):
TTAAGCCTCTGTTTAGAAAAGCTTTATCTATTTTTCTAAAGTCATTGAGCCTCCATTTAGAGAAG
CTTTATTTTTCAAAACCA
Found at i:4674205 original size:39 final size:39
Alignment explanation
Indices: 4674142--4674217 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
4674132 TGAGCCTTTA
*
4674142 TTTAGATAAGCTTTATTTTTCAAAACCATTAAGCCTCCG
1 TTTAGATAAGCTTTATTTTTCAAAACCATTAAACCTCCG
*
4674181 TTTAGATAAGCTTTATTTTTCAAAACCGTTAAACCTC
1 TTTAGATAAGCTTTATTTTTCAAAACCATTAAACCTC
4674218 TACTTAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (39 bp):
TTTAGATAAGCTTTATTTTTCAAAACCATTAAACCTCCG
Found at i:4674225 original size:39 final size:39
Alignment explanation
Indices: 4674143--4674237 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
4674133 GAGCCTTTAT
* **
4674143 TTAGATAAGCTTTATTTTTCAAAACCATTAAGCCTCCGT
1 TTAGATAAGCTTTATTTTTCAAAACCATTAAACCTCCAC
* *
4674182 TTAGATAAGCTTTATTTTTCAAAACCGTTAAACCTCTAC
1 TTAGATAAGCTTTATTTTTCAAAACCATTAAACCTCCAC
* *
4674221 TTAGAAAAGCCTTATTT
1 TTAGATAAGCTTTATTT
4674238 GCTTTTTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (39 bp):
TTAGATAAGCTTTATTTTTCAAAACCATTAAACCTCCAC
Found at i:4675363 original size:20 final size:20
Alignment explanation
Indices: 4675327--4675364 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4675317 TAAATTTTGG
4675327 AAAAAAATAGAAAAAAATTT
1 AAAAAAATAGAAAAAAATTT
*
4675347 AAAAATATA-AAACAAAAT
1 AAAAAAATAGAAA-AAAAT
4675365 AAAACATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAAAATAGAAAAAAATTT
Found at i:4675435 original size:25 final size:26
Alignment explanation
Indices: 4675407--4675455 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
4675397 CTAATTATCC
4675407 AATACTGAAA-TTTT-TAAAATTTTCA
1 AATACT-AAATTTTTATAAAATTTTCA
*
4675432 AATAGTAAATTTTTATAAAATTTT
1 AATACTAAATTTTTATAAAATTTT
4675456 TAGATGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 9 0.43
26 9 0.43
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AATACTAAATTTTTATAAAATTTTCA
Found at i:4675467 original size:26 final size:24
Alignment explanation
Indices: 4675413--4675471 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
4675403 ATCCAATACT
4675413 GAAA-TTTTTAAAATTTTCAAATA
1 GAAATTTTTTAAAATTTTCAAATA
* *
4675436 GTAAATTTTTATAAAATTTTTAGATGA
1 G-AAATTTTT-TAAAATTTTCAAAT-A
4675463 GAAATTTTT
1 GAAATTTTT
4675472 CTATATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 4 0.13
26 20 0.67
27 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (24 bp):
GAAATTTTTTAAAATTTTCAAATA
Found at i:4676070 original size:48 final size:49
Alignment explanation
Indices: 4675953--4676102 Score: 171
Period size: 48 Copynumber: 3.0 Consensus size: 49
4675943 CAAGAGTTTT
* * *
4675953 TTTTTTAAATAGACCCAAATGGTGAAAAATTTAGAAACAAACTTAAAGAAAA
1 TTTTCTAAATAGAGCCAAATGGTGAAAAATTTAGAAATAAA---AAAGAAAA
* *
4676005 -TTTCTAAATAGATCCAAATAGTGAAAAATTTAGAAATAAAAAAGAAAA
1 TTTTCTAAATAGAGCCAAATGGTGAAAAATTTAGAAATAAAAAAGAAAA
* *
4676053 TTTTC-AAATAGGGCCAAATGGTGAAAATTTTAGAAATGAAAATAA-AAAA
1 TTTTCTAAATAGAGCCAAATGGTGAAAAATTTAGAAAT-AAAA-AAGAAAA
4676102 T
1 T
4676103 AAAAATAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
48 36 0.41
49 13 0.15
50 2 0.02
51 36 0.41
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (49 bp):
TTTTCTAAATAGAGCCAAATGGTGAAAAATTTAGAAATAAAAAAGAAAA
Found at i:4679132 original size:20 final size:21
Alignment explanation
Indices: 4679093--4679136 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
4679083 CAATGAAACC
4679093 TTCAAATATGAATGAAAATGAT
1 TTCAAATATGAA-GAAAATGAT
4679115 TTCAAATATGAA-AAAATGAT
1 TTCAAATATGAAGAAAATGAT
4679135 TT
1 TT
4679137 TAAGGCGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (21 bp):
TTCAAATATGAAGAAAATGAT
Found at i:4684901 original size:17 final size:16
Alignment explanation
Indices: 4684879--4684912 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4684869 TTGGAAAGTA
4684879 AGAAAATAAAAGTGCAG
1 AGAAAAT-AAAGTGCAG
*
4684896 AGAAAATGAAGTGCAG
1 AGAAAATAAAGTGCAG
4684912 A
1 A
4684913 AATTTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.26, T:0.12
Consensus pattern (16 bp):
AGAAAATAAAGTGCAG
Found at i:4688517 original size:34 final size:33
Alignment explanation
Indices: 4688479--4688600 Score: 93
Period size: 34 Copynumber: 3.6 Consensus size: 33
4688469 AAAATGTCGC
** *
4688479 TATATTAACGGTGTTTGTATCTAAAAGACATCGT
1 TATATTAACGGCATTTGTATATAAAA-ACATCGT
**
4688513 TATATTAGTGGCATTTGTATATGAAAAACA-CTGT
1 TATATTAACGGCATTTGTATAT-AAAAACATC-GT
** * * *
4688547 TATATTAGTGGCGTTTGTATTTAGAAAACGTCGT
1 TATATTAACGGCATTTGTATATA-AAAACATCGT
* *
4688581 TATTTTAACGGTATTTGTAT
1 TATATTAACGGCATTTGTAT
4688601 TTTGAGATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
33 2 0.03
34 64 0.90
35 5 0.07
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (33 bp):
TATATTAACGGCATTTGTATATAAAAACATCGT
Found at i:4694630 original size:21 final size:21
Alignment explanation
Indices: 4694606--4694650 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4694596 CTTCATCACT
*
4694606 TTGAATATCAAG-GTCACCAAC
1 TTGAATATC-AGTATCACCAAC
*
4694627 TTGAGTATCAGTATCACCAAC
1 TTGAATATCAGTATCACCAAC
4694648 TTG
1 TTG
4694651 CATAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (21 bp):
TTGAATATCAGTATCACCAAC
Found at i:4695275 original size:826 final size:829
Alignment explanation
Indices: 4693623--4695280 Score: 2176
Period size: 828 Copynumber: 2.0 Consensus size: 829
4693613 AATTGTCCCG
* * * *
4693623 ATAAAATTTTTGTAAATATTTTTCTCTATGTATATCAAATCAAGGTTATAGCATAATAAATTATA
1 ATAAAATTTTCGTAAACATTCTTCTCTATGTACATCAAATCAAGGTTATAGCATAATAAATTATA
* * * *
4693688 TTCTCAATAAGGTAACTCAAAAAAGATATTTCTTTTTTTTTACAACTCAAACTTATTGGGGTCAT
66 TTCTCAATAAGGCAACTCAAAAAAGATA--TCTTTTTTTCTACAACTCAAACTCATTAGGGTCAT
* * * * * * * *
4693753 TTTTTTCATCGTCTTCTTTATCACTTTGAACATCAAAATCATCAACTTGAGTATTAGTATCACTA
129 CTTCTTCATCATCCTCTTCATCACTTTGAACATCAAAATCACCAACTTGAGTATCAGTATCACCA
* * * *
4693818 ACTTGCATAATATGGGCCCAGGCACTTTTAAAGATGTCCCTTACTCTTTTCTTTGATGGAGTCAT
194 ACTTGCATAATATGGGCCCAGACACCTTTAAAGATGTCCCTCACTCTTTTCTTTAATGGAGTCAT
* * * *
4693883 GTTTTCATAAGTGAAATTGATATCTTTTAACTTTGATAAGATATTAGACCCACTGATTGGTAAAA
259 GTTTTCATAAGTGAAATTGATATATTTTAACTTTGACAAGATATTAGACCCAATAATTGGTAAAA
* *
4693948 TCGATCTTCTCAACTATTCAGTTCCATCAAAGAGATATTTTTAGAATCTAAATCGTTGATTATCA
324 GCGATCTTCTCAACTATTCAGTTCCATCAAAGAGATATTTTTAGAATCTAAATCGATGATTATCA
* * * *
4694013 TCTAACCATCAATGATGTCCCCTGTAACAAAACTTCTTACCATTAGGTAACCACTTCGAACATGT
389 TCTAACCATCAACGATGTCCCATATAACAAAACTTCTTACCATTAGGTAACCACTTCGAACATAT
* * * * * *
4694078 ATGTATAGCATAATATGGACAAGCATAATGAGCTTTTATACTCTAACCAGATAAATTCATATAAG
454 ATATACACCACAATATGGACAACCATAATGACCTTTTATACTCTAACCAGATAAATTCATATAAG
* * * *
4694143 CAAAAAAATCATTAATAGTCCATAATAAAGCAGCACACATATTGAAGTTTTCTTTTTTTTTATGC
519 CAAAAAAATCATTAATAATCCATAATAAAGCAACACACATATTGAAATTCTCTTTTTTTTTATGC
* * * * * *
4694208 ATCATAAGTTTTAACTCATTCCTATAATTATTTTAACTCTTTAATAAGAGGTTGTAAGTAGATGT
584 ATCATAAGTCTCAACTCATTCCTATAATTACTTTAACTCTTTAATAAAAAGTTGTAAATAGATGT
* *
4694273 TTATATCATTACTCAGACCTTTTATTTTAAATTATCATAGACTATATAAATGATTGTTATTTCAT
649 CTATATCATTACTCAGACCTTTTATTTTAAATTATCATAGACAATATAAATGATTGTTATTTCAT
* * * * *
4694338 AGCAATCCATGATGATACATTGTAAAGAATCAATACAATTGGCCAAGTATTATAAGAAGTACTCA
714 AGCAATCCATGATGATAAATTGTAAAGAATCAATAAAACTGGCCAAGTACTAAAAGAAGTACTCA
* * *
4694403 TCATTTTGAATGGATTGAATCCATCAAATGCTAGTTCAAGCATAACATTTC
779 TCATTTTGAACGGATTGAACCCATCAAATGCTAGTCCAAGCATAACATTTC
* * * *
4694454 ATAATATTTTCGTAAACATTCTTCTCTATGTGCATCAAA-CTAAGGTTATGGCATAATAAGTTAT
1 ATAAAATTTTCGTAAACATTCTTCTCTATGTACATCAAATC-AAGGTTATAGCATAATAAATTAT
*
4694518 ATTCTCAATAAGGCAACTCAAAAAAGATA-CTTTTTTTCTACAACTCAGACTCATTAGGGTCATC
65 ATTCTCAATAAGGCAACTCAAAAAAGATATCTTTTTTTCTACAACTCAAACTCATTAGGGTCATC
* **
4694582 TTCTTCATCATCCTCTTCATCACTTTGAATATCAAGGTCACCAACTTGAGTATCAGTATCACCAA
130 TTCTTCATCATCCTCTTCATCACTTTGAACATCAAAATCACCAACTTGAGTATCAGTATCACCAA
*
4694647 CTTGCATAATATGAGG-CCAGACACCTTTAAAGATGTCCGTCACTCTTTT-TCTTAATGGAGTCA
195 CTTGCATAATATG-GGCCCAGACACCTTTAAAGATGTCCCTCACTCTTTTCT-TTAATGGAGTCA
* * * *
4694710 TTTTTTCATAAGTGAAATTGGTATATTTTAACTTTGACATGATATTAGATCCAATAATTGGT-AA
258 TGTTTTCATAAGTGAAATTGATATATTTTAACTTTGACAAGATATTAGACCCAATAATTGGTAAA
* * * * * *
4694774 AGCGATC-TCTTCAACTTTTCAGTTTCATCAAA-ATGATTTTTTTGGAATTTAAATTGATGATTA
323 AGCGATCTTC-TCAACTATTCAGTTCCATCAAAGA-GATATTTTTAGAATCTAAATCGATGATTA
** * * * *
4694837 TCATCTAACCATTGACGATGTCCTATATAACATAACTT-TCTACCATTAGGTAACCACTTTGAAT
386 TCATCTAACCATCAACGATGTCCCATATAACAAAACTTCT-TACCATTAGGTAACCACTTCGAAC
* *
4694901 ATATCTATACACCACAATATGGACAACCATAATGACCTTTTATACT-TCAACCAGATAAATTCGT
450 ATATATATACACCACAATATGGACAACCATAATGACCTTTTATACTCT-AACCAGATAAATTCAT
* **
4694965 ATAAGC-ATAAAATCATTAATAATCCATAATAAAGCAACATGCATATTGAAATTCTC-TTTTTTT
514 ATAAGCAAAAAAATCATTAATAATCCATAATAAAGCAACACACATATTGAAATTCTCTTTTTTTT
* * ** *
4695028 TATGTATCATAGGTCTCAACTTC-TTTTTATAATTGCTTTAACTCTTTAATAAAAAGTTGTAAAT
579 TATGCATCATAAGTCTCAAC-TCATTCCTATAATTACTTTAACTCTTTAATAAAAAGTTGTAAAT
* * * *
4695092 AGATGTCTATGTCATTAC-CTGA-CTTTTTTTTCTAAGAATTATCATAGACAATATAAATTATTG
643 AGATGTCTATATCATTACTCAGACCTTTTATTT-T-A-AATTATCATAGACAATATAAATGATTG
* * *
4695155 TTACTTT-ATAGTAATCTATGGTGATAAATTGTAAAGAATCAATAAAACTGGCCAAGTACTAAAA
705 TTA-TTTCATAGCAATCCATGATGATAAATTGTAAAGAATCAATAAAACTGGCCAAGTACTAAAA
* * *
4695219 GAAGTACTCATCATTTTGAACGGGTTGAACCCATTAGATGCTAGTCCAAGCATAACATTTC
769 GAAGTACTCATCATTTTGAACGGATTGAACCCATCAAATGCTAGTCCAAGCATAACATTTC
4695280 A
1 A
4695281 AAGATCAAAC
Statistics
Matches: 714, Mismatches: 101, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
823 8 0.01
824 4 0.01
825 74 0.10
826 183 0.26
827 168 0.24
828 192 0.27
829 2 0.00
830 1 0.00
831 82 0.11
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (829 bp):
ATAAAATTTTCGTAAACATTCTTCTCTATGTACATCAAATCAAGGTTATAGCATAATAAATTATA
TTCTCAATAAGGCAACTCAAAAAAGATATCTTTTTTTCTACAACTCAAACTCATTAGGGTCATCT
TCTTCATCATCCTCTTCATCACTTTGAACATCAAAATCACCAACTTGAGTATCAGTATCACCAAC
TTGCATAATATGGGCCCAGACACCTTTAAAGATGTCCCTCACTCTTTTCTTTAATGGAGTCATGT
TTTCATAAGTGAAATTGATATATTTTAACTTTGACAAGATATTAGACCCAATAATTGGTAAAAGC
GATCTTCTCAACTATTCAGTTCCATCAAAGAGATATTTTTAGAATCTAAATCGATGATTATCATC
TAACCATCAACGATGTCCCATATAACAAAACTTCTTACCATTAGGTAACCACTTCGAACATATAT
ATACACCACAATATGGACAACCATAATGACCTTTTATACTCTAACCAGATAAATTCATATAAGCA
AAAAAATCATTAATAATCCATAATAAAGCAACACACATATTGAAATTCTCTTTTTTTTTATGCAT
CATAAGTCTCAACTCATTCCTATAATTACTTTAACTCTTTAATAAAAAGTTGTAAATAGATGTCT
ATATCATTACTCAGACCTTTTATTTTAAATTATCATAGACAATATAAATGATTGTTATTTCATAG
CAATCCATGATGATAAATTGTAAAGAATCAATAAAACTGGCCAAGTACTAAAAGAAGTACTCATC
ATTTTGAACGGATTGAACCCATCAAATGCTAGTCCAAGCATAACATTTC
Found at i:4696108 original size:19 final size:19
Alignment explanation
Indices: 4696084--4696124 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4696074 TGGAAGACCT
4696084 TGACGGTACAAACTCTTCA
1 TGACGGTACAAACTCTTCA
4696103 TGACGGTACAAACTCTTCA
1 TGACGGTACAAACTCTTCA
4696122 TGA
1 TGA
4696125 AATAAATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (19 bp):
TGACGGTACAAACTCTTCA
Found at i:4696586 original size:15 final size:14
Alignment explanation
Indices: 4696568--4696603 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
4696558 AAATAGATAC
4696568 AAAAAAAATCAAAAA
1 AAAAAAAAT-AAAAA
4696583 AAAAAAAATAAAAA
1 AAAAAAAATAAAAA
4696597 AGAAAAA
1 A-AAAAA
4696604 GAAGTGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.89, C:0.03, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAAAATAAAAA
Found at i:4697186 original size:16 final size:17
Alignment explanation
Indices: 4697154--4697186 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4697144 GGGAATTATT
4697154 AAAAACGTCTTCTAATG
1 AAAAACGTCTTCTAATG
4697171 AAAAACGTCTTC-AATG
1 AAAAACGTCTTCTAATG
4697187 TTCTACTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAAACGTCTTCTAATG
Found at i:4697729 original size:187 final size:187
Alignment explanation
Indices: 4697148--4698630 Score: 1547
Period size: 187 Copynumber: 7.9 Consensus size: 187
4697138 TTTTAAGGGA
* * * * * *
4697148 ATTATTAAAAACGTCTTCTAATGAAAAACGTCTTCAAT-GTTCTACTACTCAAATTTTAAGATGG
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTC-AGTACTCAAATTTTAAGATAG
* * * * * * * * * * *
4697212 TCATTGAAAGCATTTATTCCAAAAAAAATACTTTCACT-ATTTCCTTTTAATCTTTGTACAAAAA
65 TTAGTGAAGGCGTTTATT-CTAGAAAAATACCTTCAATAATTT-CTTTTAATTTTTGTACATAAT
* * *
4697276 TATT-AACAGCAG-TTTTTGAGAACAAACGCCTTTAATAATTTTCTTTTAAAAA-TTTTATGG
128 TATTGAA-GGC-GTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTA-GG
* * * * * * * * *
4697336 ATTATTAAAGGCATATTCTAGTAAAAAACACATTCAATATTCCATTACTCAAATTTTGAA-ATGG
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTCAGTACTCAAATTTT-AAGATAG
* * *
4697400 TTAATGAAGGTGTTTATTCTAG-AAAATACATTCAATAATTTCTTTTAATTTTTGTACATAATTA
65 TTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTA
* * *
4697464 TTGAAGGCG-TTTTTGATAACAAACGCCTTCAATAATTTTCTTTCAAAAATTTTT-GAG
130 TTGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAG-G
* * * * *
4697521 ATTATTAAAAGCGTATTCTAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAATACAGT
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTCAGTACTCAAATTTTAAGATAGT
* * * **
4697586 TAGTCAAGGCGTTTATTCTAGAAAAATGCCAT-AACT-ATTTCCTTTTAATTTTTGTATGTAATT
66 TAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAA-TAATTT-CTTTTAATTTTTGTACATAATT
* * *
4697649 ATTGAAGGTGTTTTTTTAGAACAAACACCTTCAATAATTTTTTTTTAAAAA-TTTTATGG
129 ATTGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTA-GG
* *
4697708 ATTATTAAATGCGTCTTCTAGTGAAAAACGCCTTCAAT-TTTCTAGTACTCAAATTTTAAGACAG
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTC-AGTACTCAAATTTTAAGATAG
* * *
4697772 TTAGTGAAGGTGTTTATTCTAAAAAAATACCTTCAATAATTTTTTTTAATTTTTGTACATAATTA
65 TTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTA
* * * * *
4697837 TTGAAGGC-ATTTTTAAAAACAAACACCTTCAATAATTTTCTTTCAAAAATTTTTAAG
130 TTGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGG
* ** * * * *
4697894 ATTATTAAAGGTATCTTCTAGTGAAAAACGCCTTTAATATTTCACTACTCAAATTTTAAAATGGT
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTCAGTACTCAAATTTTAAGATAGT
* * * * *
4697959 TAGTGAATGCATTTATTCTAGAAAAATGCCTTCACT-ATTTCCTTTTAATTTTTGTATATAATTA
66 TAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAATAATTT-CTTTTAATTTTTGTACATAATTA
* * * *
4698023 TTGAAGACATTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGGG
130 TTGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGG
* * * * * * *
4698081 ATT-TTTAAAGATGTATTCTAGTGAAAAACACTTTCAATA-TACTAGTACTTAAATTTTAAGAT-
1 ATTATTAAAAG-CGTCTTCTAGTGAAAAACGCCTTCAATATTTC-AGTACTCAAATTTTAAGATA
* * * *
4698143 GATTAGTGAAGGTGTTTATT-AAAACAAAATGCCTTCAATAATTTCTTTTAATTTTTGTACATAA
64 G-TTAGTGAAGGCGTTTATTCTAGA-AAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAA
* * * * * *
4698207 TTATTAAAGGTGTTTTTAGAGAACAAACGCATTCAATAA-TTTCTTTTTAAAAATTTTTGGG
127 TTATTGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTC-TTTTAAAAATTTTTAGG
* *
4698268 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATA-TTCTAGTACTGAAATTTTAAGATGG
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTC-AGTACTCAAATTTTAAGATAG
* * * *
4698332 TTAGTGAAGGCATTTATTCCAGAAAAATACCTTCAATAATTTTTTTTAATTTTTGTGCATAATTA
65 TTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTA
* *
4698397 TTGAAGGTGTTTTTTTTTG-GAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGA
130 TTGAAGGCG---TTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGG
* * * *
4698457 ATTATTAAAAGCATCTTCTAGTGAAACACGCCTTCAATATTTCATTATTCAAATTTTAAGATAGT
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTCAGTACTCAAATTTTAAGATAGT
* * * *
4698522 TAGTCAAGGCGTTTATTCTAAAAAAATACCTT-AACTAA-TTCTTTTTAATTTTTGTAAAAAATT
66 TAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAA-TAATTTC-TTTTAATTTTTGTACATAATT
* * * * * * * *
4698585 ATTAAAGGCATTTTCTAAAAATAAATACCTTCAATAATTTTTTTTT
129 ATTGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTT
4698631 TTGGATTAGT
Statistics
Matches: 1096, Mismatches: 162, Indels: 75
0.82 0.12 0.06
Matches are distributed among these distances:
184 3 0.00
185 121 0.11
186 251 0.23
187 478 0.44
188 83 0.08
189 147 0.13
190 13 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (187 bp):
ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTTCAGTACTCAAATTTTAAGATAGT
TAGTGAAGGCGTTTATTCTAGAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTAT
TGAAGGCGTTTTTTGAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGG
Found at i:4697844 original size:373 final size:372
Alignment explanation
Indices: 4697148--4698625 Score: 1732
Period size: 373 Copynumber: 4.0 Consensus size: 372
4697138 TTTTAAGGGA
* * * * * *
4697148 ATTATTAAAAACGTCTTCTAATGAAAAACGTCTTCAAT-GTTCTACTACTCAAATTTTAAGATGG
1 ATTATTAAAAGCGTATTCTAGTGAAAAACGCCTTCAATATTTC-ACTACTCAAATTTTAAAATGG
* * * * * * * * * * * *
4697212 TCATTGAAAGCATTTATTCCAAAAAAAATACTTTCACTATTTCCTTTTAATCTTTGTACAAAAAT
65 TTAGTGAAGGCATTTATT-CTAGAAAAATGCCTTAACTATTTCCTTTTAATTTTTGTATATAATT
* ** * * *
4697277 ATTAACAGCAG-TTTTTGAGAACAAACGCCTTTAATAATTTTCTTTTAAAAA-TTTTATGGATTA
129 ATTGA-AGGTGTTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTA-GGATTA
* * * * * *
4697340 TTAAAGGCATATTCTAGTAAAAAACACATTCAATATTCCATTACTCAAATTTTGAA-ATGGTTAA
192 TTAAA-GCATATTCTAGTGAAAAACACCTTCAATATTCTAGTACTCAAATTTT-AAGATAGTTAG
* * *
4697404 TGAAGGTGTTTATTCT-AGAAAATACATTCAATAATTTCTTTTAATTTTTGTACATAATTATTGA
255 TGAAGGTGTTTATTCTAAAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTATTAA
* * * *
4697468 AGGCGTTTTTGATAACAAACGCCTTCAATAATTTTCTTTCAAAAATTTTTGAG
320 AGGCATTTTTAAAAACAAACACCTTCAATAATTTTCTTTCAAAAATTTTTGAG
* * **
4697521 ATTATTAAAAGCGTATTCTAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAATACAGT
1 ATTATTAAAAGCGTATTCTAGTGAAAAACGCCTTCAATATTTCACTACTCAAATTTTAAAATGGT
* * * *
4697586 TAGTCAAGGCGTTTATTCTAGAAAAATGCCATAACTATTTCCTTTTAATTTTTGTATGTAATTAT
66 TAGTGAAGGCATTTATTCTAGAAAAATGCCTTAACTATTTCCTTTTAATTTTTGTATATAATTAT
*
4697651 TGAAGGTGTTTTTTTAGAACAAACACCTTCAATAATTTTTTTTTAAAAA-TTTTATGGATTATTA
131 TGAAGGTGTTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTA-GGATTATTA
* * * * *
4697715 AATGCGTCTTCTAGTGAAAAACGCCTTCAATTTTCTAGTACTCAAATTTTAAGACAGTTAGTGAA
195 AA-GCATATTCTAGTGAAAAACACCTTCAATATTCTAGTACTCAAATTTTAAGATAGTTAGTGAA
* *
4697780 GGTGTTTATTCTAAAAAAATACCTTCAATAATTTTTTTTAATTTTTGTACATAATTATTGAAGGC
259 GGTGTTTATTCTAAAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTATTAAAGGC
*
4697845 ATTTTTAAAAACAAACACCTTCAATAATTTTCTTTCAAAAATTTTTAAG
324 ATTTTTAAAAACAAACACCTTCAATAATTTTCTTTCAAAAATTTTTGAG
*
4697894 ATTATT-AAAG-GTATCTTCTAGTGAAAAACGCCTTTAATATTTCACTACTCAAATTTTAAAATG
1 ATTATTAAAAGCGTA--TTCTAGTGAAAAACGCCTTCAATATTTCACTACTCAAATTTTAAAATG
* *
4697957 GTTAGTGAATGCATTTATTCTAGAAAAATGCCTTCACTATTTCCTTTTAATTTTTGTATATAATT
64 GTTAGTGAAGGCATTTATTCTAGAAAAATGCCTTAACTATTTCCTTTTAATTTTTGTATATAATT
*** * *
4698022 ATTGAAGACATTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGGGATTTTT
129 ATTGAAGGTGTTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGGATTATT
* * *
4698087 AAAG-ATGTATTCTAGTGAAAAACACTTTCAATATACTAGTACTTAAATTTTAAGAT-GATTAGT
194 AAAGCA--TATTCTAGTGAAAAACACCTTCAATATTCTAGTACTCAAATTTTAAGATAG-TTAGT
* *
4698150 GAAGGTGTTTATT-AAAACAAAATGCCTTCAATAATTTCTTTTAATTTTTGTACATAATTATTAA
256 GAAGGTGTTTATTCTAAA-AAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTATTAA
** * * * * *
4698214 AGGTGTTTTTAGAGAACAAACGCATTCAATAA-TTTCTTTTTAAAAATTTTTGGG
320 AGGCATTTTTA-AAAACAAACACCTTCAATAATTTTC-TTTCAAAAATTTTTGAG
* * * *
4698268 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATA-TTCTAGTACTGAAATTTTAAGATGG
1 ATTATTAAAAGCGTATTCTAGTGAAAAACGCCTTCAATATTTC-ACTACTCAAATTTTAAAATGG
* * * **
4698332 TTAGTGAAGGCATTTATTCCAGAAAAATACCTTCAA-TAATTT-TTTTTAATTTTTGTGCATAAT
65 TTAGTGAAGGCATTTATTCTAGAAAAATGCCTT-AACT-ATTTCCTTTTAATTTTTGTATATAAT
* *
4698395 TATTGAAGGTGTTTTTTTTTGGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGAATT
128 TATTGAAGGTG--TTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGGATT
* * * * *
4698460 ATTAAAAGCATCTTCTAGTGAAACACGCCTTCAATATT-TCATTATTCAAATTTTAAGATAGTTA
191 ATT-AAAGCATATTCTAGTGAAAAACACCTTCAATATTCT-AGTACTCAAATTTTAAGATAGTTA
* * * *
4698524 GTCAAGGCGTTTATTCTAAAAAAATACCTT-AACTAA-TTCTTTTTAATTTTTGTAAAAAATTAT
254 GTGAAGGTGTTTATTCTAAAAAAATACCTTCAA-TAATTTC-TTTTAATTTTTGTACATAATTAT
* *
4698587 TAAAGGCATTTTCTAAAAATAAATACCTTCAATAATTTT
317 TAAAGGCATTTT-TAAAAACAAACACCTTCAATAATTTT
4698626 TTTTTTTGGA
Statistics
Matches: 947, Mismatches: 129, Indels: 54
0.84 0.11 0.05
Matches are distributed among these distances:
371 8 0.01
372 161 0.17
373 441 0.47
374 142 0.15
375 15 0.02
376 166 0.18
377 13 0.01
378 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (372 bp):
ATTATTAAAAGCGTATTCTAGTGAAAAACGCCTTCAATATTTCACTACTCAAATTTTAAAATGGT
TAGTGAAGGCATTTATTCTAGAAAAATGCCTTAACTATTTCCTTTTAATTTTTGTATATAATTAT
TGAAGGTGTTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAGGATTATTAA
AGCATATTCTAGTGAAAAACACCTTCAATATTCTAGTACTCAAATTTTAAGATAGTTAGTGAAGG
TGTTTATTCTAAAAAAATACCTTCAATAATTTCTTTTAATTTTTGTACATAATTATTAAAGGCAT
TTTTAAAAACAAACACCTTCAATAATTTTCTTTCAAAAATTTTTGAG
Found at i:4698210 original size:560 final size:561
Alignment explanation
Indices: 4697148--4698630 Score: 1817
Period size: 560 Copynumber: 2.6 Consensus size: 561
4697138 TTTTAAGGGA
* * * * *
4697148 ATTATTAAAAACGTCTTCTAATGAAAAACGTCTTCAATGTTCTACTACTCAAATTTTAAGATGGT
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTCTAGTACTCAAATTTTAAGATGGT
* * * * * * * * *
4697213 CATTGAAAGCATTTATTCCAAAAAAAATACTTTCACT-ATTTCCTTTTAATCTTTGTACAAAAAT
66 TAGTGAAGGCATTTATT-CAAAAAAAATACCTTCAATAATTT-TTTTTAATTTTTGTACATAATT
* * * * *
4697277 ATT-AACAGCAGTTTTTGAGAACAAACGCCTTTAATAATTTTCTTTTAAAAA-TTTTATGGATTA
129 ATTGAACGGCA-TTTTTAAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTA-AGATTA
* * * * * * *
4697340 TTAAAGGCATATTCTAGTAAAAAACACATTCAATATTCCATTACTCAAATTTTGAAATGGTTAAT
192 TTAAAGGCATCTTCTAGTGAAAAACGCCTTCAATATTTCATTACTCAAATTTTAAAATGGTTAGT
* * * *
4697405 GAAGGTGTTTATTCTAG-AAAATACATTCAATAATTT-CTTTTAATTTTTGTACATAATTATTGA
257 GAAGGCGTTTATTCTAGAAAAATACCTTCACT-ATTTCCTTTTAATTTTTGTAAATAATTATTGA
* * * * *
4697468 AGGC-GTTTTTGATAACAAACGCCTTCAATAATTTTCTTTCAAAAATTTTTGAGATTATTAAAAG
321 AGGCATTTTTTAAAAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAAG
* *
4697532 CGTATTCTAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAATACAGTTAGTCAAGGCG
386 CGTATTCTAGTGAAAAACACCTTCAATATCTCACTACTCAAATTTTAAGACAGTTAGTCAAGGCG
* * ** *
4697597 TTTATTCTAGAAAAATGCCATAACTATTTCCTTTTAATTTTTGTATGTAATTATTGAAGGTGTTT
451 TTTATTCAAAAAAAATGCCATAACTATTTCCTTTTAATTTTTGTACATAATTATTAAAGGTGTTT
** * *
4697662 TTTTAGAACAAACACCTTCAATAATTTTTTTTTAAAAATTTTAT-GG
516 TTAGAGAACAAACACATTCAATAATTTCTTTTTAAAAATTTT-TGGG
* * **
4697708 ATTATTAAATGCGTCTTCTAGTGAAAAACGCCTTCAATTTTCTAGTACTCAAATTTTAAGACAGT
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTCTAGTACTCAAATTTTAAGATGGT
** *
4697773 TAGTGAAGGTGTTTATTCTAAAAAAATACCTTCAATAATTTTTTTTAATTTTTGTACATAATTAT
66 TAGTGAAGGCATTTATTCAAAAAAAATACCTTCAATAATTTTTTTTAATTTTTGTACATAATTAT
* *
4697838 TGAA-GGCATTTTTAAAAACAAACACCTTCAATAATTTTCTTTCAAAAATTTTTAAGATTATTAA
131 TGAACGGCATTTTTAAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAAGATTATTAA
* * * *
4697902 AGGTATCTTCTAGTGAAAAACGCCTTTAATATTTCACTACTCAAATTTTAAAATGGTTAGTGAAT
196 AGGCATCTTCTAGTGAAAAACGCCTTCAATATTTCATTACTCAAATTTTAAAATGGTTAGTGAAG
* * * *
4697967 GCATTTATTCTAGAAAAATGCCTTCACTATTTCCTTTTAATTTTTGTATATAATTATTGAAGACA
261 GCGTTTATTCTAGAAAAATACCTTCACTATTTCCTTTTAATTTTTGTAAATAATTATTGAAGGCA
* * * * *
4698032 TTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGGGATT-TTTAAAGATGTA
326 TTTTTTAAAAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAAG-CGTA
* * * * * *
4698096 TTCTAGTGAAAAACACTTTCAATATACT-AGTACTTAAATTTTAAGA-TGATTAGTGAAGGTGTT
390 TTCTAGTGAAAAACACCTTCAATAT-CTCACTACTCAAATTTTAAGACAG-TTAGTCAAGGCGTT
*
4698159 TATT-AAAACAAAATGCCTTCAA-TAATTT-CTTTTAATTTTTGTACATAATTATTAAAGGTGTT
453 TATTCAAAA-AAAATGCCAT-AACT-ATTTCCTTTTAATTTTTGTACATAATTATTAAAGGTGTT
*
4698221 TTTAGAGAACAAACGCATTCAATAATTTCTTTTTAAAAATTTTTGGG
515 TTTAGAGAACAAACACATTCAATAATTTCTTTTTAAAAATTTTTGGG
*
4698268 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTCTAGTACTGAAATTTTAAGATGGT
1 ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTCTAGTACTCAAATTTTAAGATGGT
* * *
4698333 TAGTGAAGGCATTTATTCCAGAAAAATACCTTCAATAATTTTTTTTAATTTTTGTGCATAATTAT
66 TAGTGAAGGCATTTATTCAAAAAAAATACCTTCAATAATTTTTTTTAATTTTTGTACATAATTAT
* ** **
4698398 TGAAGGTGTTTTTTTTTGGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTT-AGAATTAT
131 TGAACG-G-CATTTTTAAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAAG-ATTAT
* * * * * *
4698462 TAAAAGCATCTTCTAGTGAAACACGCCTTCAATATTTCATTATTCAAATTTTAAGATAGTTAGTC
193 TAAAGGCATCTTCTAGTGAAAAACGCCTTCAATATTTCATTACTCAAATTTTAAAATGGTTAGTG
* * * * * *
4698527 AAGGCGTTTATTCTAAAAAAATACCTTAACTAATTCTTTTTAATTTTTGTAAAAAATTATTAAAG
258 AAGGCGTTTATTCTAGAAAAATACCTTCACTATTTCCTTTTAATTTTTGTAAATAATTATTGAAG
* * * *
4698592 GCATTTTCTAAAAATAAATACCTTCAATAATTTTTTTTT
323 GCATTTTTTAAAAACAAACACCTTCAATAATTTTCTTTT
4698631 TTGGATTAGT
Statistics
Matches: 792, Mismatches: 114, Indels: 31
0.85 0.12 0.03
Matches are distributed among these distances:
558 113 0.14
559 95 0.12
560 384 0.48
561 8 0.01
562 3 0.00
563 189 0.24
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (561 bp):
ATTATTAAAAGCGTCTTCTAGTGAAAAACGCCTTCAATATTCTAGTACTCAAATTTTAAGATGGT
TAGTGAAGGCATTTATTCAAAAAAAATACCTTCAATAATTTTTTTTAATTTTTGTACATAATTAT
TGAACGGCATTTTTAAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTAAGATTATTAA
AGGCATCTTCTAGTGAAAAACGCCTTCAATATTTCATTACTCAAATTTTAAAATGGTTAGTGAAG
GCGTTTATTCTAGAAAAATACCTTCACTATTTCCTTTTAATTTTTGTAAATAATTATTGAAGGCA
TTTTTTAAAAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAAGCGTAT
TCTAGTGAAAAACACCTTCAATATCTCACTACTCAAATTTTAAGACAGTTAGTCAAGGCGTTTAT
TCAAAAAAAATGCCATAACTATTTCCTTTTAATTTTTGTACATAATTATTAAAGGTGTTTTTAGA
GAACAAACACATTCAATAATTTCTTTTTAAAAATTTTTGGG
Done.