Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 243 of 292
Found at i:70615262 original size:25 final size:25
Alignment explanation
Indices: 70615234--70615281 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
70615224 TTTATACAGT
70615234 ACGATTTTAAATTTATATAACTACA
1 ACGATTTTAAATTTATATAACTACA
70615259 ACGATTTTAAATTTATATAACTA
1 ACGATTTTAAATTTATATAACTA
70615282 TACACATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (25 bp):
ACGATTTTAAATTTATATAACTACA
Found at i:70615294 original size:25 final size:25
Alignment explanation
Indices: 70615241--70615294 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
70615231 AGTACGATTT
**
70615241 TAAATTTATATAACTACAACGATTT
1 TAAATTTATATAACTACAACGATGA
*
70615266 TAAATTTATATAACTATACAC-ATGA
1 TAAATTTATATAACTACA-ACGATGA
70615291 TAAA
1 TAAA
70615295 ATTTGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (25 bp):
TAAATTTATATAACTACAACGATGA
Found at i:70620107 original size:13 final size:14
Alignment explanation
Indices: 70620087--70620120 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
70620077 AATTATAGAG
70620087 CCAG-TTTATATTA
1 CCAGATTTATATTA
70620100 CCA-ATTTATATTA
1 CCAGATTTATATTA
70620113 CCAGATTT
1 CCAGATTT
70620121 CAGCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (14 bp):
CCAGATTTATATTA
Found at i:70622890 original size:6 final size:6
Alignment explanation
Indices: 70622875--70622914 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
70622865 TTTTTTTATT
*
70622875 AAAAAA AAAAAG AAAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAA
70622915 GAAAAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:70622892 original size:12 final size:12
Alignment explanation
Indices: 70622875--70622925 Score: 66
Period size: 12 Copynumber: 4.0 Consensus size: 12
70622865 TTTTTTTATT
70622875 AAAAAAAAAAAG
1 AAAAAAAAAAAG
70622887 AAAAAAGAAAAAG
1 AAAAAA-AAAAAG
*
70622900 AAAAAGAAAAAG
1 AAAAAAAAAAAG
70622912 AAAGAAAAGAAAAG
1 AAA-AAAA-AAAAG
70622926 TGACTTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 15 0.44
13 14 0.41
14 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:70623578 original size:25 final size:25
Alignment explanation
Indices: 70623549--70623600 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
70623539 AAATGGAAAA
70623549 TCCCAGAAACGCTAGTTCAAAATTT
1 TCCCAGAAACGCTAGTTCAAAATTT
70623574 TCCCAGAAACGCTAGTTCAAAATTT
1 TCCCAGAAACGCTAGTTCAAAATTT
70623599 TC
1 TC
70623601 TTTTGTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (25 bp):
TCCCAGAAACGCTAGTTCAAAATTT
Found at i:70625423 original size:32 final size:33
Alignment explanation
Indices: 70625382--70625443 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
70625372 CAATACATGA
*
70625382 AATACATT-AAAA-ACATTAAAATAATATTTCTC
1 AATAAATTAAAAATACATTAAAA-AATATTTCTC
*
70625414 AATAAATTAAAAATACATTAAGAAATATTT
1 AATAAATTAAAAATACATTAAAAAATATTT
70625444 ATACTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 7 0.27
33 11 0.42
34 8 0.31
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (33 bp):
AATAAATTAAAAATACATTAAAAAATATTTCTC
Found at i:70630622 original size:17 final size:18
Alignment explanation
Indices: 70630586--70630625 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
70630576 TTATAAATTT
70630586 AAATGAAAATAAAAACTG
1 AAATGAAAATAAAAACTG
*
70630604 AAATGAAAA-AAAAAGTG
1 AAATGAAAATAAAAACTG
70630621 AAATG
1 AAATG
70630626 CTAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (18 bp):
AAATGAAAATAAAAACTG
Found at i:70630690 original size:12 final size:12
Alignment explanation
Indices: 70630645--70630700 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
70630635 TAAATAAATA
*
70630645 AAATGAAAAATTT
1 AAAT-AAAAATGT
**
70630658 AAATTTAAATG-
1 AAATAAAAATGT
70630669 AAAT-AAAATGT
1 AAATAAAAATGT
*
70630680 AAATAAAAATGA
1 AAATAAAAATGT
70630692 AAATAAAAA
1 AAATAAAAA
70630701 AAAATTGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.14
11 8 0.22
12 19 0.53
13 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (12 bp):
AAATAAAAATGT
Found at i:70633880 original size:18 final size:18
Alignment explanation
Indices: 70633857--70633891 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70633847 TTTGGTGTGA
*
70633857 TTTCCTGGTAATTCTTTC
1 TTTCCTGATAATTCTTTC
*
70633875 TTTCCTGATGATTCTTT
1 TTTCCTGATAATTCTTT
70633892 TCTCTTTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTCCTGATAATTCTTTC
Found at i:70639123 original size:39 final size:38
Alignment explanation
Indices: 70639069--70639147 Score: 140
Period size: 39 Copynumber: 2.1 Consensus size: 38
70639059 TGAGTAAGAA
70639069 TTTAAGCTTATTTGAGTAGAATATACAACGTTTCCAGAT
1 TTTAAGCTTATTTGAGTAGAATATAC-ACGTTTCCAGAT
*
70639108 TTTAAGCTTATTTGAGTAGAATATACATGTTTCCAGAT
1 TTTAAGCTTATTTGAGTAGAATATACACGTTTCCAGAT
70639146 TT
1 TT
70639148 ACTCCCTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 13 0.33
39 26 0.67
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (38 bp):
TTTAAGCTTATTTGAGTAGAATATACACGTTTCCAGAT
Found at i:70639795 original size:30 final size:30
Alignment explanation
Indices: 70639761--70639819 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
70639751 CTTAACAAGC
*
70639761 AAATGCCTCTAAATTAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
*
70639791 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
70639820 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:70641338 original size:29 final size:29
Alignment explanation
Indices: 70641306--70641361 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
70641296 TCATTGAACA
*
70641306 TTAACAAATTA-TTATTTTTAATTAAATGG
1 TTAA-AAATTAGTAATTTTTAATTAAATGG
* *
70641335 TTAAATATTAGTAATTTTTTATTAAAT
1 TTAAAAATTAGTAATTTTTAATTAAAT
70641362 CCTAAGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
TTAAAAATTAGTAATTTTTAATTAAATGG
Found at i:70641924 original size:6 final size:6
Alignment explanation
Indices: 70641913--70641937 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
70641903 ACAACTAATT
70641913 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
70641938 CGTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:70643439 original size:23 final size:24
Alignment explanation
Indices: 70643409--70643456 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
70643399 GAGGTGTATT
70643409 TTAAAATTTAAAAAATAAAA-AAA
1 TTAAAATTTAAAAAATAAAACAAA
70643432 TTAAAATTTAAAAAATAAAACAAA
1 TTAAAATTTAAAAAATAAAACAAA
70643456 T
1 T
70643457 GTTTTGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
TTAAAATTTAAAAAATAAAACAAA
Found at i:70647165 original size:18 final size:19
Alignment explanation
Indices: 70647128--70647166 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
70647118 AAATCATATT
70647128 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
70647147 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
70647165 TA
1 TA
70647167 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:70652851 original size:22 final size:23
Alignment explanation
Indices: 70652826--70652878 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
70652816 TGTTATAATT
70652826 TACAATTCTATAA-TACTTAT-TA
1 TACAATTC-ATAATTACTTATATA
70652848 TAC-ATTCATAATTTACTTATATA
1 TACAATTCATAA-TTACTTATATA
70652871 TAACAATT
1 T-ACAATT
70652879 GATATGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 4 0.15
22 10 0.38
23 3 0.12
24 2 0.08
25 3 0.12
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (23 bp):
TACAATTCATAATTACTTATATA
Found at i:70655068 original size:10 final size:10
Alignment explanation
Indices: 70655053--70655091 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
70655043 AGCAAATAAC
70655053 TAAAAAATAT
1 TAAAAAATAT
70655063 T-AAAAATAT
1 TAAAAAATAT
70655072 TAAAAAATA-
1 TAAAAAATAT
70655081 TAAAACAATAT
1 TAAAA-AATAT
70655092 AATATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:70655077 original size:19 final size:20
Alignment explanation
Indices: 70655053--70655091 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
70655043 AGCAAATAAC
*
70655053 TAAAAAATATTAAA-AATAT
1 TAAAAAATATAAAACAATAT
70655072 TAAAAAATATAAAACAATAT
1 TAAAAAATATAAAACAATAT
70655092 AATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAATATAAAACAATAT
Found at i:70655092 original size:10 final size:9
Alignment explanation
Indices: 70655053--70655093 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
70655043 AGCAAATAAC
70655053 TAAAAAATA
1 TAAAAAATA
*
70655062 TTAAAAATA
1 TAAAAAATA
70655071 TTAAAAAATA
1 -TAAAAAATA
70655081 TAAAACAATA
1 TAAAA-AATA
70655091 TAA
1 TAA
70655094 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:70656320 original size:33 final size:34
Alignment explanation
Indices: 70656278--70656347 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 34
70656268 AGCCATAAAA
* *
70656278 TCTTCCGAACTAGTAATTAACTCTTGTGTCAATC
1 TCTTCCGAACTAGTAATGAACTCTCGTGTCAATC
70656312 TCTT-CGAACTAGTAATGAACTCTCGTGTCAATC
1 TCTTCCGAACTAGTAATGAACTCTCGTGTCAATC
70656345 TCT
1 TCT
70656348 ATTTTGATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTTCCGAACTAGTAATGAACTCTCGTGTCAATC
Found at i:70657119 original size:27 final size:27
Alignment explanation
Indices: 70657083--70657134 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
70657073 CACTTGACTG
*
70657083 TGTCATTTCATAG-TTCATTTCGCAGTT
1 TGTCACTTCA-AGATTCATTTCGCAGTT
*
70657110 TGTCACTTCACGATTCATTTCGCAG
1 TGTCACTTCAAGATTCATTTCGCAG
70657135 CTTATCACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (27 bp):
TGTCACTTCAAGATTCATTTCGCAGTT
Found at i:70657153 original size:27 final size:27
Alignment explanation
Indices: 70657095--70657154 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
70657085 TCATTTCATA
* *
70657095 GTTCATTTCGCAGTTTGTCACTTCACG
1 GTTCATTTCGCAGCTTATCACTTCACG
*
70657122 ATTCATTTCGCAGCTTATCACCTT-ACG
1 GTTCATTTCGCAGCTTATCA-CTTCACG
70657149 GTTCAT
1 GTTCAT
70657155 CATGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (27 bp):
GTTCATTTCGCAGCTTATCACTTCACG
Found at i:70662890 original size:30 final size:30
Alignment explanation
Indices: 70662854--70662911 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
70662844 TGTTAATGTA
70662854 ATTAATATAAATTATTATTTT-AATAAAATT
1 ATTAATATAAATT-TTATTTTAAATAAAATT
70662884 ATTAATATAAATTTTATTTTAAATAAAA
1 ATTAATATAAATTTTATTTTAAATAAAA
70662912 ATATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTAATATAAATTTTATTTTAAATAAAATT
Found at i:70662905 original size:17 final size:17
Alignment explanation
Indices: 70662855--70662910 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
70662845 GTTAATGTAA
70662855 TTAATATAAATTATTATT
1 TTAATATAAATT-TTATT
70662873 TTAATA-AAA--TTA--
1 TTAATATAAATTTTATT
70662885 TTAATATAAATTTTATT
1 TTAATATAAATTTTATT
70662902 TTAA-ATAAA
1 TTAATATAAA
70662911 AATATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 6 0.18
13 3 0.09
14 3 0.09
15 3 0.09
16 5 0.15
17 7 0.21
18 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATATAAATTTTATT
Found at i:70663068 original size:23 final size:23
Alignment explanation
Indices: 70663021--70663065 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
70663011 ATATTTAGTA
* *
70663021 ATAAATATTTTATAGTATAAAAT
1 ATAAATATTTAATAATATAAAAT
70663044 ATAAATATTTAAATAATATAAA
1 ATAAATATTT-AATAATATAAA
70663066 TATGAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAATATTTAATAATATAAAAT
Found at i:70663330 original size:13 final size:13
Alignment explanation
Indices: 70663309--70663348 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
70663299 TGTTTCACTG
* *
70663309 AAAACAAATTTTA
1 AAAAAAAATTTCA
70663322 AAAAAAAATTTC-
1 AAAAAAAATTTCA
70663334 AAAAAAAATTTCA
1 AAAAAAAATTTCA
70663347 AA
1 AA
70663349 CAATGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAAAATTTCA
Found at i:70663849 original size:5 final size:5
Alignment explanation
Indices: 70663839--70663864 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
70663829 TAATTATATA
70663839 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
70663865 TTAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:70665254 original size:3 final size:3
Alignment explanation
Indices: 70665238--70665421 Score: 87
Period size: 3 Copynumber: 61.3 Consensus size: 3
70665228 ACGTTTAGAG
* ** * *
70665238 TAT TAT TACA TAT TAT TAT TAT TGC TAT TAC TCT TAT TATT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
** ** * *
70665285 TAT CGT TGC TAT T-T CTAT TAT TGT T-T T-T CTAT TAC TAT T-T ATAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT
* * * *
70665329 TAT TGT TGT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
70665376 TAT TAT TAT T-T T-T CTGT TAT TGT TAT TAT TAGT CTA- TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT
70665421 T
1 T
70665422 CCTATTAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 28
0.71 0.14 0.14
Matches are distributed among these distances:
2 12 0.09
3 115 0.83
4 10 0.07
5 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:70665275 original size:31 final size:31
Alignment explanation
Indices: 70665238--70665306 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
70665228 ACGTTTAGAG
*
70665238 TATTATTACATATTATTATTATTGCTATTAC
1 TATTATTACATATTATTATCATTGCTATTAC
* ** * *
70665269 TCTTATTATTTATTATTATCGTTGCTATTTC
1 TATTATTACATATTATTATCATTGCTATTAC
70665300 TATTATT
1 TATTATT
70665307 GTTTTTCTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.59
Consensus pattern (31 bp):
TATTATTACATATTATTATCATTGCTATTAC
Found at i:70665552 original size:3 final size:3
Alignment explanation
Indices: 70665544--70665606 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
70665534 ACTCACGTCG
* *
70665544 TTA TTA TTA CTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70665592 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
70665607 AACTGATTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:70665775 original size:24 final size:25
Alignment explanation
Indices: 70665747--70665803 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
70665737 ATACTTTCAA
* *
70665747 ATTTTATATTATTTATTTTTATT-AT
1 ATTTTATAATA-TTATTGTTATTAAT
70665772 -TTTTACTAATATTATTGTTATTAAT
1 ATTTTA-TAATATTATTGTTATTAAT
70665797 ATTTTAT
1 ATTTTAT
70665804 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATAATATTATTGTTATTAAT
Found at i:70665784 original size:15 final size:15
Alignment explanation
Indices: 70665766--70665799 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
70665756 TATTTATTTT
*
70665766 TATTATTTTTACTAA
1 TATTATTGTTACTAA
*
70665781 TATTATTGTTATTAA
1 TATTATTGTTACTAA
70665796 TATT
1 TATT
70665800 TTATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTGTTACTAA
Found at i:70672343 original size:14 final size:14
Alignment explanation
Indices: 70672324--70672353 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70672314 TATCTTATAA
70672324 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
70672338 ATATGCGTTAATCT
1 ATATGCGTGAATCT
70672352 AT
1 AT
70672354 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:70681877 original size:24 final size:25
Alignment explanation
Indices: 70681850--70681917 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 25
70681840 TTAATATTAG
70681850 TATATATTTTATTATACGTGTATATA
1 TATATATTTTATTATACGTG-ATATA
70681876 TATATATTTTATTATACGTG-TATA
1 TATATATTTTATTATACGTGATATA
70681900 TATATACTTTTATATATA
1 TATATA-TTTTAT-TATA
70681918 GTATTATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 10 0.25
25 6 0.15
26 24 0.60
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATATTTTATTATACGTGATATA
Found at i:70681886 original size:26 final size:26
Alignment explanation
Indices: 70681850--70681905 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
70681840 TTAATATTAG
70681850 TATATATTTTATTATACGTGTATATA
1 TATATATTTTATTATACGTGTATATA
70681876 TATATATTTTATTATACGTGTATATA
1 TATATATTTTATTATACGTGTATATA
70681902 TATA
1 TATA
70681906 CTTTTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (26 bp):
TATATATTTTATTATACGTGTATATA
Found at i:70681917 original size:16 final size:18
Alignment explanation
Indices: 70681896--70681934 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
70681886 ATTATACGTG
70681896 TATATA-TA-TACTTTTA
1 TATATAGTATTACTTTTA
*
70681912 TATATAGTATTATTTTTA
1 TATATAGTATTACTTTTA
70681930 TATAT
1 TATAT
70681935 CATTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TATATAGTATTACTTTTA
Found at i:70681951 original size:3 final size:3
Alignment explanation
Indices: 70681919--70682010 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
70681909 TTATATATAG
* *
70681919 TAT TAT TTT TAT ATAT CAT TA- TATT TAT TAT TA- TACT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* * *
70681964 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT GTAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
70682010 T
1 T
70682011 TGGTATACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
2 10 0.15
3 44 0.65
4 14 0.21
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:70681953 original size:12 final size:12
Alignment explanation
Indices: 70681826--70681962 Score: 51
Period size: 12 Copynumber: 11.3 Consensus size: 12
70681816 TTTTCACCCC
*
70681826 TATTATATTTAT
1 TATTATACTTAT
*
70681838 TATTAATA-TTAG
1 TATT-ATACTTAT
70681850 TA-TATA-TT-T
1 TATTATACTTAT
70681859 TATTATACGTGTAT
1 TATTATAC-T-TAT
70681873 ATATATATA-TT-T
1 -TAT-TATACTTAT
70681885 TATTATACGTGTA-
1 TATTATAC-T-TAT
70681898 TATATATACTT-T
1 TAT-TATACTTAT
*
70681910 TATATATA-GTAT
1 TAT-TATACTTAT
*
70681922 TATTTTTA-TATAT
1 TA-TTATACT-TAT
* *
70681935 CATTATATTTAT
1 TATTATACTTAT
70681947 TATTATACTTAT
1 TATTATACTTAT
70681959 TATT
1 TATT
70681963 TTCACTATTG
Statistics
Matches: 98, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
9 2 0.02
10 13 0.13
11 5 0.05
12 48 0.49
13 16 0.16
14 7 0.07
15 3 0.03
16 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (12 bp):
TATTATACTTAT
Found at i:70683980 original size:3 final size:3
Alignment explanation
Indices: 70683964--70684182 Score: 157
Period size: 3 Copynumber: 72.3 Consensus size: 3
70683954 ACGTTTAGAG
*
70683964 TAT TAT TACA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * **
70684010 TAT TTT TAT TAT TAC TAT TAC TCT TAT TATT TAT TAT TAT CGT TGA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT
* * * *
70684056 TAT T-T CTAT TAT TGT T-T T-T CTAT TAC TAT T-T ATAT TAT TGT TGT
1 TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
* *
70684100 CAT TAT TCAT TA- TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
70684145 TAT T-T CTGT TAT TGT TAT TAT TAGT CTA- TAT TAT TAT T
1 TAT TAT -TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT T
70684183 TCTATTAATG
Statistics
Matches: 173, Mismatches: 26, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
2 11 0.06
3 147 0.85
4 13 0.08
5 2 0.01
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:70697896 original size:3 final size:3
Alignment explanation
Indices: 70697888--70697950 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
70697878 CATCGCGTCG
*
70697888 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70697936 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
70697951 AACTGATTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:70697994 original size:4 final size:4
Alignment explanation
Indices: 70697973--70698013 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
70697963 TAATATTCAA
* *
70697973 TATT TATT TGTT TGTT TATT TATT TATT TA-T TATT T-TT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
70698014 AGCTTGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:70698121 original size:24 final size:25
Alignment explanation
Indices: 70698093--70698149 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
70698083 ATACTTTCAA
* *
70698093 ATTTTATATTATTTATTTTTATT-AT
1 ATTTTATAATA-TTATTGTTATTAAT
70698118 -TTTTACTAATATTATTGTTATTAAT
1 ATTTTA-TAATATTATTGTTATTAAT
70698143 ATTTTAT
1 ATTTTAT
70698150 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATAATATTATTGTTATTAAT
Found at i:70698130 original size:15 final size:15
Alignment explanation
Indices: 70698112--70698145 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
70698102 TATTTATTTT
*
70698112 TATTATTTTTACTAA
1 TATTATTGTTACTAA
*
70698127 TATTATTGTTATTAA
1 TATTATTGTTACTAA
70698142 TATT
1 TATT
70698146 TTATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTGTTACTAA
Found at i:70711014 original size:21 final size:21
Alignment explanation
Indices: 70710980--70711022 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
70710970 CTTTATCATA
*
70710980 CTACAAAAATTAATT-AACAT
1 CTACAAAAAATAATTAAACAT
70711000 CTACATAAAAATAATTAAACAT
1 CTACA-AAAAATAATTAAACAT
70711022 C
1 C
70711023 AATTTTGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (21 bp):
CTACAAAAAATAATTAAACAT
Found at i:70723471 original size:46 final size:46
Alignment explanation
Indices: 70723404--70723578 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
70723394 TGTAACCCGC
70723404 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
70723450 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
70723500 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
70723543 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
70723579 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.58
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:70723519 original size:93 final size:93
Alignment explanation
Indices: 70723412--70723582 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
70723402 GCCCATAAGT
** *
70723412 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70723477 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
70723505 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
70723570 CGAGTTCGGATGC
66 CGAGCTCGGATGC
70723583 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:70724170 original size:20 final size:18
Alignment explanation
Indices: 70724136--70724172 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
70724126 GCAACTCATA
70724136 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
70724154 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
70724173 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:70724759 original size:16 final size:16
Alignment explanation
Indices: 70724738--70724769 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70724728 GCCCAATAAC
*
70724738 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
70724754 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
70724770 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:70725361 original size:16 final size:17
Alignment explanation
Indices: 70725335--70725367 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
70725325 AATTTATAAA
70725335 AAAATAAAATAAAAAAT
1 AAAATAAAATAAAAAAT
*
70725352 AAAA-AAAATAGAAAAT
1 AAAATAAAATAAAAAAT
70725368 TACCACGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:70726350 original size:2 final size:2
Alignment explanation
Indices: 70726343--70726400 Score: 98
Period size: 2 Copynumber: 28.0 Consensus size: 2
70726333 AATTATGTGT
70726343 TA TA TA TA CTA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70726387 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
70726401 GTATTATCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
2 50 0.93
3 4 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:70730842 original size:46 final size:44
Alignment explanation
Indices: 70730783--70730897 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
70730773 ACAGGACAGA
* *
70730783 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
70730829 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
70730873 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
70730898 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:70730878 original size:44 final size:45
Alignment explanation
Indices: 70730783--70730916 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
70730773 ACAGGACAGA
* *
70730783 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
70730829 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
70730873 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
70730917 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:70736984 original size:46 final size:44
Alignment explanation
Indices: 70736925--70737039 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
70736915 ACAGGACAGA
* *
70736925 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
70736971 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
70737015 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
70737040 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:70737020 original size:44 final size:45
Alignment explanation
Indices: 70736925--70737058 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
70736915 ACAGGACAGA
* *
70736925 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
70736971 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
70737015 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
70737059 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:70747941 original size:70 final size:71
Alignment explanation
Indices: 70747665--70747979 Score: 335
Period size: 74 Copynumber: 4.3 Consensus size: 71
70747655 TTTGGGTACT
* * * **
70747665 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCA
70747730 GGTCACACG
65 GG--ACACG
* ** **
70747739 CTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTACGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAATTTATGTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
*
70747804 AGGTCACG
64 AGGACACG
* * *
70747812 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
*
70747877 CAAGACACG
63 CAGGACACG
* * * * * * *
70747886 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
70747950 GGCACG
66 GACACG
*
70747956 CTGAGGTATTTTTAGTTTATGTTT
1 CTGAGGTATTTTTAATTTATGTTT
70747980 AGGAAATTGA
Statistics
Matches: 200, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
70 60 0.30
71 4 0.02
72 1 0.00
73 24 0.12
74 70 0.35
75 35 0.17
76 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
GACACG
Found at i:70747965 original size:144 final size:145
Alignment explanation
Indices: 70747665--70747979 Score: 366
Period size: 144 Copynumber: 2.2 Consensus size: 145
70747655 TTTGGGTACT
* *
70747665 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCA
* * * * ** *
70747730 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTACGAGAGGTGAG
66 AG-CACACGCTGAGGTAATTTCAATTTATGTTTC-AAAAAATCAACTCATATTACGAGAGGTAAG
*
70747795 TCAAGCCTCAGGTCACG
129 TCAAGCCTCAGGGCACG
* * * **
70747812 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCT
* * *
70747877 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTC-CAAAATCAACTCATATTGCGAGAGGTAAG
64 CAAGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTACGAGAGGTAAG
** *
70747939 TTGAGCCTCGGGGCACG
129 TCAAGCCTCAGGGCACG
* *
70747956 CTGAGGTATTTTTAGTTTATGTTT
1 CTGAGGTATTTTTAATTCATGTTT
70747980 AGGAAATTGA
Statistics
Matches: 142, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
142 2 0.01
143 1 0.01
144 55 0.39
146 3 0.02
147 41 0.29
148 1 0.01
149 39 0.27
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (145 bp):
CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCA
AGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTACGAGAGGTAAGTC
AAGCCTCAGGGCACG
Found at i:70748185 original size:88 final size:88
Alignment explanation
Indices: 70748036--70748203 Score: 248
Period size: 88 Copynumber: 1.9 Consensus size: 88
70748026 CTGTTTTTCA
* * * *
70748036 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
*
70748101 CTGTTTTTCAAATTCCGTTCGTC
66 CTGTTATTCAAATTCCGTTCGTC
* * *
70748124 AAAATCAACTCATATTGTAAGAGATGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCT-GAGCTATTTTCAAAT
70748188 TCTGTTATTCAAATTC
65 TCTGTTATTCAAATTC
70748204 TATTTTTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 70 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (88 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAATT
CTGTTATTCAAATTCCGTTCGTC
Found at i:70749097 original size:16 final size:16
Alignment explanation
Indices: 70749076--70749107 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70749066 GCCCAATAAC
*
70749076 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
70749092 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
70749108 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:70749655 original size:7 final size:7
Alignment explanation
Indices: 70749618--70749646 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
70749608 AGATAAATTT
70749618 ATAAAAA
1 ATAAAAA
70749625 ATAAAAA
1 ATAAAAA
70749632 ATAAAAA
1 ATAAAAA
70749639 ATAAAAA
1 ATAAAAA
70749646 A
1 A
70749647 ATAGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:70750640 original size:2 final size:2
Alignment explanation
Indices: 70750633--70750671 Score: 60
Period size: 2 Copynumber: 18.5 Consensus size: 2
70750623 AATTATGTGT
70750633 TA TA TA TA CTA GTA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA T
70750672 TAGTATTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
2 31 0.89
3 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:70752637 original size:2 final size:2
Alignment explanation
Indices: 70752632--70752665 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
70752622 AAGTTTTTAT
70752632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70752666 ACAAGTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70753031 original size:16 final size:15
Alignment explanation
Indices: 70753006--70753035 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
70752996 ATTTCAATTT
70753006 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
70753021 AAAAGAAAAAAGAAA
1 AAAA-AAAAAAGAAA
70753036 GAAAGCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:70758561 original size:36 final size:36
Alignment explanation
Indices: 70758500--70758729 Score: 135
Period size: 36 Copynumber: 6.7 Consensus size: 36
70758490 TCATTAACAA
* * * *
70758500 TCAG-AACAATTATTTAGTCAGTAATAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
70758535 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
70758571 TCAGTATCGATC-A--ATT--G-----ATCGGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
70758597 CCAGTAACAGTCAATTATTCAGTAA-AATCAGATAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
70758632 TCAGTAACAATTAAGTTATTCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAA-TTATTCAGTAATAATCAGTT-AT
* * * * *
70758669 TCAGTGACAATCAGTTTTTCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
70758705 TCAGTAATATTCAGTTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
70758730 CAGTCTAATA
Statistics
Matches: 146, Mismatches: 35, Indels: 27
0.70 0.17 0.13
Matches are distributed among these distances:
26 15 0.10
27 1 0.01
29 3 0.02
31 1 0.01
33 3 0.02
35 22 0.15
36 82 0.56
37 19 0.13
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
Found at i:70758619 original size:18 final size:18
Alignment explanation
Indices: 70758593--70758783 Score: 149
Period size: 18 Copynumber: 10.6 Consensus size: 18
70758583 AATTGATCGG
*
70758593 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
70758611 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
70758629 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
70758646 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
70758664 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
70758683 TTTTTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
70758701 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
70758719 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
70758738 -TATCCAATAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
70758755 TTCTCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
70758773 TTATTCAGTAA
1 TTATTCAGTAA
70758784 TAATAAGTTA
Statistics
Matches: 135, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
17 19 0.14
18 100 0.74
19 16 0.12
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:70758656 original size:54 final size:55
Alignment explanation
Indices: 70758592--70758783 Score: 178
Period size: 54 Copynumber: 3.5 Consensus size: 55
70758582 CAATTGATCG
* *
70758592 GTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTCAGTAACAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * **
70758646 GTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTTTTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCAATT-ATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * * * * *
70758701 -TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAATAACAGTCAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAACAATC-AGATATTCAGTAACAATCAA
* * *
70758755 -TTCTCCGGTAACAGTCAATTATTCAGTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA
70758784 TAATAAGTTA
Statistics
Matches: 109, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
53 3 0.03
54 84 0.77
55 22 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (55 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
Found at i:70759017 original size:45 final size:45
Alignment explanation
Indices: 70758959--70759067 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
70758949 ACAAATCCGG
*
70758959 AACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTACCGAATCGAT
* * * * *
70759004 TACAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTACCGAATCGAT
*
70759049 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
70759068 ACAGTAGTCG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTACCGAATCGAT
Found at i:70759062 original size:12 final size:12
Alignment explanation
Indices: 70759045--70759069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70759035 AGTGCCGAAT
70759045 CGGTAACAGTAA
1 CGGTAACAGTAA
70759057 CGGTAACAGTAA
1 CGGTAACAGTAA
70759069 C
1 C
70759070 AGTAGTCGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:70760285 original size:31 final size:31
Alignment explanation
Indices: 70760250--70760311 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
70760240 TTCTATCTTA
70760250 ATTCATACTTTATTTCTACTAAATTTTTAAC
1 ATTCATACTTTATTTCTACTAAATTTTTAAC
70760281 ATTCATACTTTATTTCTACTAAATTTTTAAC
1 ATTCATACTTTATTTCTACTAAATTTTTAAC
70760312 CAAACTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTCATACTTTATTTCTACTAAATTTTTAAC
Found at i:70760895 original size:31 final size:32
Alignment explanation
Indices: 70760839--70760901 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
70760829 CACATTTGTC
*
70760839 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
70760871 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
70760902 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:70764348 original size:6 final size:6
Alignment explanation
Indices: 70764339--70764388 Score: 91
Period size: 6 Copynumber: 8.2 Consensus size: 6
70764329 TGAAATGAAT
70764339 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA ATAAAA
70764388 A
1 A
70764389 GATAAGAGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 37 0.86
7 6 0.14
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:70764352 original size:18 final size:18
Alignment explanation
Indices: 70764339--70764388 Score: 91
Period size: 19 Copynumber: 2.7 Consensus size: 18
70764329 TGAAATGAAT
70764339 ATAAAAATAAAAATAAAA
1 ATAAAAATAAAAATAAAA
70764357 ATAAAAATAAAAATAAAAA
1 ATAAAAATAAAAAT-AAAA
70764376 ATAAAAATAAAAA
1 ATAAAAATAAAAA
70764389 GATAAGAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (18 bp):
ATAAAAATAAAAATAAAA
Found at i:70771092 original size:59 final size:59
Alignment explanation
Indices: 70771021--70771138 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
70771011 ATCAGGGTGT
70771021 CACTAGTTTTGAGATGTATTTCTATAGTCTCTTATATAGTGACCATTGGGAGTAGAGGC
1 CACTAGTTTTGAGATGTATTTCTATAGTCTCTTATATAGTGACCATTGGGAGTAGAGGC
70771080 CACTAGTTTTGAGATGTATTTCTATAGTCTCTTATATAGTGACCATTGGGAGTAGAGGC
1 CACTAGTTTTGAGATGTATTTCTATAGTCTCTTATATAGTGACCATTGGGAGTAGAGGC
70771139 AATGTTTTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (59 bp):
CACTAGTTTTGAGATGTATTTCTATAGTCTCTTATATAGTGACCATTGGGAGTAGAGGC
Found at i:70773702 original size:3 final size:3
Alignment explanation
Indices: 70773696--70773720 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
70773686 CAACAACAAC
70773696 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
70773721 TGTTAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:70774704 original size:8 final size:9
Alignment explanation
Indices: 70774691--70774730 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
70774681 ATTTTTTTGT
70774691 ATTTTTATA
1 ATTTTTATA
70774700 ATTTTTATA
1 ATTTTTATA
70774709 ATTTTTA-A
1 ATTTTTATA
70774717 ATTCTTTATA
1 ATT-TTTATA
70774727 ATTT
1 ATTT
70774731 ATTGTCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.14
9 21 0.72
10 4 0.14
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:70777423 original size:42 final size:42
Alignment explanation
Indices: 70777344--70777424 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
70777334 GACACATGCC
* * *
70777344 CATGTCCTTTCCCGTGTGGCTCACATGGCCTGAGCACACATT
1 CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACATT
* * *
70777386 CATGTCCTTGCCCGTGTGGCTCACGCGACTTGGGCACAC
1 CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACAC
70777425 GCCCATTTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.26
Consensus pattern (42 bp):
CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACATT
Found at i:70779790 original size:13 final size:13
Alignment explanation
Indices: 70779774--70779829 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
70779764 TAGAATCTAA
70779774 TTTATGCATTGAC
1 TTTATGCATTGAC
*
70779787 TTTAAGCATTGAC
1 TTTATGCATTGAC
*
70779800 ATTATAGCACCATTGAC
1 TTTAT-G---CATTGAC
70779817 TTTATGCATTGAC
1 TTTATGCATTGAC
70779830 ATATGATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 22 0.63
14 1 0.03
16 1 0.03
17 11 0.31
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (13 bp):
TTTATGCATTGAC
Found at i:70784925 original size:101 final size:104
Alignment explanation
Indices: 70784801--70785025 Score: 241
Period size: 107 Copynumber: 2.2 Consensus size: 104
70784791 CAATTTTTTT
* * *
70784801 TTTTTTA-ATATTGAAATCTCCATGT-AAGTGG-CACTTCTAAAATAGAAAAAAATATTTTTTAT
1 TTTTTTATATCTTGAAATCGCCATGTAAAG-GGAC-CTTCTAAAATAGAAAAAAATATTTTCTAT
* * *
70784863 ATCATAA-AAGAAAC-A-TGT-AGAAGTCAGGTGAAATT-TCC
64 ATAAGAATAAGAAACGACTGTCA-AAGTCAAGTGAAATTAT-C
* ***
70784901 TTTTTTATATCTTGAAATCGCCATGTAAAGGGATCCTTTTAAAATTTTAAAAAATATTTTCTATA
1 TTTTTTATATCTTGAAATCGCCATGTAAAGGGA-CCTTCTAAAATAGAAAAAAATATTTTCTATA
70784966 TAAGAATTAAGAAACGACGTGTCAAAGTCAAGTGAAATTATC
65 TAAGAA-TAAGAAACGAC-TGTCAAAGTCAAGTGAAATTATC
70785008 TTTTTTATATCTTGAAAT
1 TTTTTTATATCTTGAAAT
70785026 TAATAAAAGA
Statistics
Matches: 104, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
100 7 0.07
101 18 0.17
102 32 0.31
103 1 0.01
104 7 0.07
105 1 0.01
107 36 0.35
108 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (104 bp):
TTTTTTATATCTTGAAATCGCCATGTAAAGGGACCTTCTAAAATAGAAAAAAATATTTTCTATAT
AAGAATAAGAAACGACTGTCAAAGTCAAGTGAAATTATC
Found at i:70790088 original size:13 final size:14
Alignment explanation
Indices: 70790058--70790087 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70790048 CTAACAATCA
*
70790058 TTTATTAATATTTT
1 TTTATAAATATTTT
70790072 TTTATAAATATTTT
1 TTTATAAATATTTT
70790086 TT
1 TT
70790088 AAACATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATAAATATTTT
Found at i:70793098 original size:4 final size:4
Alignment explanation
Indices: 70793089--70793114 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
70793079 GGAACAATAA
70793089 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
70793115 CATATATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:70793956 original size:2 final size:2
Alignment explanation
Indices: 70793951--70793985 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
70793941 AAAAAAAATG
70793951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70793986 AAATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70795713 original size:44 final size:44
Alignment explanation
Indices: 70795648--70795758 Score: 100
Period size: 44 Copynumber: 2.5 Consensus size: 44
70795638 AATGTGCTTT
* *
70795648 ACTGCAACTCCA-AAGATATAAGAATCGTAACTTCAACCTGC-CC
1 ACTGCAACTTCAGGAGA-ATAAGAATCGTAACTTCAACCTGCTCC
* * ** * * * *
70795691 GACTGCAACTTCAGGGGGATAAGGTTTGTGACTTCAATCTGCTTC
1 -ACTGCAACTTCAGGAGAATAAGAATCGTAACTTCAACCTGCTCC
70795736 ACTGCAACTTCAGGAGAATAAGA
1 ACTGCAACTTCAGGAGAATAAGA
70795759 TTCACCAAGG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (44 bp):
ACTGCAACTTCAGGAGAATAAGAATCGTAACTTCAACCTGCTCC
Found at i:70796149 original size:88 final size:88
Alignment explanation
Indices: 70795994--70796210 Score: 231
Period size: 88 Copynumber: 2.5 Consensus size: 88
70795984 ATAAGATCCA
* ** * * * *
70795994 CAATTTCAACCTGCTCCGTTGCAACCTCAGGGAGATAAGATTGATGGCTTTAGTCTGTTTCATTG
1 CAATTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATGGCTTTAATCAGTTTCACTG
* * *
70796059 CAATTTTAGGGAA-ATTAGGCTTG
66 CAACTTTA-GGAAGATAAGACTTG
* * * *
70796082 TAATTTCAATCTACTCCACTGCAACTTCAGGGAGATGAGGTT-AGTGGCTTTAATCAGTTTCACT
1 CAATTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGA-TGGCTTTAATCAGTTTCACT
*
70796146 GCAACTTTAGGAAGATAAGATTTG
65 GCAACTTTAGGAAGATAAGACTTG
* * *
70796170 CCATCTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGA
1 CAAT-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
70796211 CTTGCAACTT
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
87 5 0.05
88 68 0.65
89 31 0.30
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (88 bp):
CAATTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATGGCTTTAATCAGTTTCACTG
CAACTTTAGGAAGATAAGACTTG
Found at i:70802846 original size:26 final size:26
Alignment explanation
Indices: 70802817--70802869 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
70802807 TCAAACATGC
*
70802817 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
70802843 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
70802869 A
1 A
70802870 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:70804392 original size:26 final size:26
Alignment explanation
Indices: 70804354--70804489 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
70804344 CATGATATTC
*
70804354 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
70804380 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
70804406 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
70804432 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
70804458 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
70804484 TTATCA
1 TTATCA
70804490 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:70811176 original size:4 final size:4
Alignment explanation
Indices: 70811167--70811192 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
70811157 GGAACAATAA
70811167 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
70811193 CATATATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:70815161 original size:46 final size:45
Alignment explanation
Indices: 70815068--70815153 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
70815058 TACATTTCAC
* *
70815068 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
70815114 GAACTCGGGCTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
70815154 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:70819371 original size:14 final size:14
Alignment explanation
Indices: 70819352--70819381 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70819342 AATAAGATTA
70819352 AATTAATTAAACTT
1 AATTAATTAAACTT
*
70819366 AATTAATTAAAGTT
1 AATTAATTAAACTT
70819380 AA
1 AA
70819382 ACTAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (14 bp):
AATTAATTAAACTT
Found at i:70821862 original size:33 final size:32
Alignment explanation
Indices: 70821738--70821864 Score: 94
Period size: 33 Copynumber: 3.8 Consensus size: 32
70821728 TGAATTGACG
*
70821738 GATAAGACCATAACTGGGTTATGGCATTATGAAT
1 GATAAGACCATAACTGGGCTATGGCATT-TG-AT
* * * * *
70821772 G-TAAGACCATTATTGGACCATGGCAGTATTTAT
1 GATAAGACCATAACTGGGCTATGGCA-T-TTGAT
* * *
70821805 AAGTAAAACCATAGCTGGGCTATGGCATTCTGAT
1 GA-TAAGACCATAACTGGGCTATGGCATT-TGAT
* *
70821839 GATAAGACCATAACTAGGTTATGGCA
1 GATAAGACCATAACTGGGCTATGGCA
70821865 CTACGAATGT
Statistics
Matches: 69, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
33 42 0.61
34 8 0.12
35 19 0.28
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (32 bp):
GATAAGACCATAACTGGGCTATGGCATTTGAT
Found at i:70825348 original size:17 final size:16
Alignment explanation
Indices: 70825326--70825371 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
70825316 GAAATTCTTT
70825326 AATAAAATCATAATAAA
1 AATAAAAT-ATAATAAA
*
70825343 AATAAAATAAAATAAA
1 AATAAAATATAATAAA
70825359 ATATAAAATATAA
1 A-ATAAAATATAA
70825372 GAAACCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAAATATAATAAA
Found at i:70846761 original size:35 final size:36
Alignment explanation
Indices: 70846682--70846761 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 36
70846672 TGTGTTTATT
** *
70846682 TTTATTTA-TTTATAATATAAATTTTAATATTTATA
1 TTTATTTATTTTATAATATAAAAATTAATATATATA
* *
70846717 TTTGA-TTATTTTAT-ATCTAAAAATTAATATATATG
1 TTT-ATTTATTTTATAATATAAAAATTAATATATATA
70846752 TTTATTTATT
1 TTTATTTATT
70846762 ATGGATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
34 1 0.03
35 30 0.81
36 6 0.16
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (36 bp):
TTTATTTATTTTATAATATAAAAATTAATATATATA
Found at i:70848742 original size:15 final size:15
Alignment explanation
Indices: 70848724--70848757 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
70848714 AACCTAACCC
*
70848724 AAAAAAAA-ACAAAG
1 AAAAAAAAGAAAAAG
70848738 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
70848753 AAAAA
1 AAAAA
70848758 CTTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:70848771 original size:15 final size:15
Alignment explanation
Indices: 70848753--70848787 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
70848743 AAAGAAAAAG
*
70848753 AAAAACTTACCCCAA
1 AAAAACTAACCCCAA
*
70848768 AAAACCTAACCCCAA
1 AAAAACTAACCCCAA
70848783 AAAAA
1 AAAAA
70848788 AAAAGAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.60, C:0.31, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACTAACCCCAA
Found at i:70851356 original size:12 final size:12
Alignment explanation
Indices: 70851339--70851374 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
70851329 CATCATTTGA
70851339 CATTCATGCATT
1 CATTCATGCATT
70851351 CATTCATGCATT
1 CATTCATGCATT
*
70851363 CATTCATACATT
1 CATTCATGCATT
70851375 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:70856423 original size:68 final size:64
Alignment explanation
Indices: 70856312--70856698 Score: 277
Period size: 70 Copynumber: 6.0 Consensus size: 64
70856302 CTTTTCAAGG
*
70856312 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTT-A--GT
70856376 TTT
62 TTT
**
70856379 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTT
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAGTTTT
** * * *** *
70856444 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A---T----T-TTTGTT--TTTC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT-TTAGTTTT
* * ** * *
70856496 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTA---T---TTTTA
70856561 GTGTTT
60 GT-TTT
* *
70856567 -TAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTT-A----
70856630 TGTTTT
60 -GTTTT
* *
70856636 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTT
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAGTTT
70856699 ATGTTTTAAA
Statistics
Matches: 255, Mismatches: 32, Indels: 68
0.72 0.09 0.19
Matches are distributed among these distances:
52 3 0.01
53 34 0.13
54 3 0.01
55 1 0.00
58 2 0.01
61 1 0.00
62 2 0.01
63 31 0.12
64 8 0.03
65 5 0.02
66 1 0.00
67 2 0.01
68 54 0.21
69 9 0.04
70 63 0.25
71 34 0.13
72 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (64 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAGTTTT
Found at i:70856597 original size:70 final size:68
Alignment explanation
Indices: 70856478--70856899 Score: 399
Period size: 70 Copynumber: 6.2 Consensus size: 68
70856468 GAGTTAAGCC
*
70856478 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGC
70856542 TGAGGTA
62 TGAGGTA
* * * * *
70856549 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTG
70856614 AGGTA
64 AGGTA
* *
70856619 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTG
70856684 AGGTA
64 AGGTA
* * * ** * * *
70856689 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT--------TTTA-
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAG
70856745 --A
66 GTA
** ** *
70856746 TTTT-TGTTTTTCA---AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGA
70856807 GGTA
65 GGTA
* *
70856811 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGC
70856876 TGAGGTA
62 TGAGGTA
*
70856883 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
70856900 CAATTTACGT
Statistics
Matches: 287, Mismatches: 41, Indels: 47
0.77 0.11 0.13
Matches are distributed among these distances:
53 31 0.11
56 5 0.02
57 5 0.02
60 2 0.01
62 2 0.01
65 5 0.02
67 4 0.01
68 32 0.11
69 3 0.01
70 91 0.32
71 43 0.15
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (68 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAG
GTA
Found at i:70856771 original size:262 final size:257
Alignment explanation
Indices: 70856314--70856902 Score: 1024
Period size: 262 Copynumber: 2.3 Consensus size: 257
70856304 TTTCAAGGAA
70856314 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA---TTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
70856376 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
70856441 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
70856506 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
70856568 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
70856633 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG-CACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
70856697 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
70856762 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
70856827 TTT
255 TTT
* * * * * *
70856830 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
70856895 GTTTTCAA
64 GTTTTCAA
70856903 TTTACGTTGT
Statistics
Matches: 318, Mismatches: 6, Indels: 12
0.95 0.02 0.04
Matches are distributed among these distances:
254 58 0.18
256 12 0.04
257 48 0.15
259 2 0.01
261 4 0.01
262 131 0.41
264 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:70856785 original size:121 final size:124
Alignment explanation
Indices: 70856620--70856865 Score: 383
Period size: 121 Copynumber: 2.0 Consensus size: 124
70856610 GTTGAGGTAT
70856620 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
70856684 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
70856740 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
70856805 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
70856865 T
1 T
70856866 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 12 0.11
121 40 0.35
122 19 0.17
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:70856861 original size:72 final size:71
Alignment explanation
Indices: 70856740--70856905 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
70856730 GAGTTAAGCC
** * *
70856740 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
70856804 TGAGGTA
65 TGAGGTA
*
70856811 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
70856876 TGAGGTA
65 TGAGGTA
* *
70856883 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
70856906 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:70857236 original size:74 final size:76
Alignment explanation
Indices: 70857130--70857274 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
70857120 TTTTTGCCTT
*
70857130 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
70857192 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
70857204 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
70857269 AATTTC
66 AATTTC
70857275 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:70857242 original size:165 final size:166
Alignment explanation
Indices: 70856970--70857447 Score: 705
Period size: 165 Copynumber: 2.9 Consensus size: 166
70856960 CTACTTTTTC
70856970 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *
70857035 GTTGTCAAAAAAATCAACTGGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
70857100 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
70857135 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
70857200 GTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
70857265 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC-----AAAA
*
70857306 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
70857371 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
70857432 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
70857448 CAAAAAATCA
Statistics
Matches: 286, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
165 153 0.53
167 27 0.09
169 34 0.12
171 72 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:70857388 original size:72 final size:73
Alignment explanation
Indices: 70857304--70857810 Score: 397
Period size: 72 Copynumber: 6.5 Consensus size: 73
70857294 TTCAAAAAAA
*
70857304 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
70857369 CTGTTTTC
66 CTGTTTTC
* * ** ** *
70857377 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
70857441 CTGTTTTC
66 CTGTTTTC
* * * ** *
70857449 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
70857514 TTCTATCTTTC
64 TTCTGT-TTTC
* * ** *
70857525 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
70857590 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
70857604 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
70857668 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
70857681 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
70857746 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
70857773 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
70857811 TTTTTAATTT
Statistics
Matches: 346, Mismatches: 55, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.10
75 21 0.06
76 4 0.01
77 56 0.16
78 5 0.01
79 63 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:70857681 original size:14 final size:13
Alignment explanation
Indices: 70857662--70857697 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
70857652 TGTCGAGGTA
70857662 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
70857675 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
70857689 TTTTCAAAA
1 TTTTCAAAA
70857698 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:70857755 original size:88 final size:88
Alignment explanation
Indices: 70857606--70857767 Score: 227
Period size: 88 Copynumber: 1.8 Consensus size: 88
70857596 TATTTTTCAA
* * * *
70857606 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
70857671 TCTGTTTTTCAAATTCTGTTTTC
66 TCTGTTTTTCAAATTCTGTTTTC
* * * *
70857694 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
70857758 TTCTGTTTTT
65 ATCTGTTTTT
70857768 TTTTCAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 1 0.02
88 63 0.98
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCAAATTCTGTTTTC
Found at i:70857828 original size:30 final size:30
Alignment explanation
Indices: 70857792--70857853 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
70857782 CAACTCATAT
70857792 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
70857822 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
70857852 TG
1 TG
70857854 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:70857954 original size:254 final size:248
Alignment explanation
Indices: 70857443--70858021 Score: 744
Period size: 254 Copynumber: 2.3 Consensus size: 248
70857433 TTCAATTTCT
* * *
70857443 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
70857508 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGAT
* *
70857569 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * ** **
70857634 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
* *
70857688 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* * *
70857752 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGC--TTCA
* * * * * * *
70857817 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
70857879 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
70857942 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
70858006 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
70858022 AATGTCTGTT
Statistics
Matches: 289, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 29 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
Found at i:70858684 original size:16 final size:16
Alignment explanation
Indices: 70858665--70858700 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
70858655 AACCTAACCC
*
70858665 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
70858680 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
70858696 AAAAA
1 AAAAA
70858701 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:70858714 original size:15 final size:15
Alignment explanation
Indices: 70858696--70858730 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
70858686 AAAGAAAAAG
*
70858696 AAAAACTTACCCCAA
1 AAAAACTAACCCCAA
*
70858711 AAAACCTAACCCCAA
1 AAAAACTAACCCCAA
70858726 AAAAA
1 AAAAA
70858731 AAAGAAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.60, C:0.31, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACTAACCCCAA
Found at i:70862130 original size:42 final size:42
Alignment explanation
Indices: 70862070--70862184 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
70862060 CTTCATTTTC
** *
70862070 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCAAATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAAAT-A
* *
70862113 T-GATGTCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAAATA
* *
70862154 TCGATGCCATAGCCTAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
70862185 GTAATCACAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.03
42 60 0.95
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAAATA
Found at i:70862225 original size:49 final size:47
Alignment explanation
Indices: 70862114--70862277 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 47
70862104 TTCAAATAAT
* *
70862114 GATGTCATAGCCCA-ACTATGGTCTTACAC-AT---AT-TCATATATC
1 GATGTCATATCCCAGA-TATGGTCTTACACAATCACATATCACATATC
* * * *
70862156 GATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGTCATATCCCAGATATGGTCTTACAC--AATCACATATCACATATC
* * *
70862205 GATGTCATATCCCAGATATGGTCTTATACAAT-AGCATAT-ATCACACC
1 GATGTCATATCCCAGATATGGTCTTACACAATCA-CATATCA-CATATC
70862252 GATGTCATATCCCAGATATGGTCTTA
1 GATGTCATATCCCAGATATGGTCTTA
70862278 TACGGAAATC
Statistics
Matches: 101, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
42 25 0.25
45 2 0.02
46 2 0.02
47 38 0.38
48 2 0.02
49 32 0.32
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (47 bp):
GATGTCATATCCCAGATATGGTCTTACACAATCACATATCACATATC
Found at i:70862334 original size:31 final size:31
Alignment explanation
Indices: 70862299--70862447 Score: 246
Period size: 31 Copynumber: 4.8 Consensus size: 31
70862289 CTTGTCACTT
70862299 GTAGCCGAAGCTACCA-TTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
* *
70862330 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
70862361 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
70862392 GTAGCCGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
70862423 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
70862448 TGTCATTTGT
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 111 0.98
32 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:70862529 original size:50 final size:50
Alignment explanation
Indices: 70862423--70862598 Score: 271
Period size: 50 Copynumber: 3.5 Consensus size: 50
70862413 CACTGATCAG
* * * *
70862423 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCTTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
70862474 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * *
70862524 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGACCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
70862574 GTCGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
70862599 GGTTGCCATA
Statistics
Matches: 116, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 91 0.78
51 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:70866585 original size:43 final size:41
Alignment explanation
Indices: 70866491--70866603 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 41
70866481 TCGAGATATG
* *
70866491 ATTACATGTAAGATCATGTTTGGGACATTGGCATTGTATTAAA
1 ATTACGTGTAAGA-CATGTTTGGGACATTGGCATAG-ATTAAA
* *
70866534 ATTACGTGTAAGACCATGCTTGGGACATTGGCATAG-TTAATCG
1 ATTACGTGTAAGA-CATGTTTGGGACATTGGCATAGATTAA--A
*
70866577 ATTTCGTGTAAGACACTGTTTGGGACA
1 ATTACGTGTAAGACA-TGTTTGGGACA
70866604 ATGTCATCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.07
42 2 0.03
43 54 0.90
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (41 bp):
ATTACGTGTAAGACATGTTTGGGACATTGGCATAGATTAAA
Found at i:70877608 original size:26 final size:26
Alignment explanation
Indices: 70877575--70877660 Score: 127
Period size: 26 Copynumber: 3.3 Consensus size: 26
70877565 GAAGCTCCTG
*
70877575 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
70877601 AGAGCCATTAATCAGGAAGCTCATAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
70877627 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
70877653 AGAGCCAT
1 AGAGCCAT
70877661 ATATCGGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:70877646 original size:52 final size:52
Alignment explanation
Indices: 70877575--70877680 Score: 142
Period size: 52 Copynumber: 2.0 Consensus size: 52
70877565 GAAGCTCCTG
70877575 AGAGCCATTAATCAAGAAGCTCACAAAGAGCCAT-TAATCAGGAAGCTCATAA
1 AGAGCCATTAATCAAGAAGCTCACAAAGAGCCATAT-ATCAGGAAGCTCATAA
* ** * * *
70877627 AGAGCCTTTAATCGGGAAGCTCACGAAGAGCCATATATCGGGATGCTCATAA
1 AGAGCCATTAATCAAGAAGCTCACAAAGAGCCATATATCAGGAAGCTCATAA
70877679 AG
1 AG
70877681 GTGCGATGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (52 bp):
AGAGCCATTAATCAAGAAGCTCACAAAGAGCCATATATCAGGAAGCTCATAA
Found at i:70877666 original size:26 final size:26
Alignment explanation
Indices: 70877442--70877675 Score: 93
Period size: 26 Copynumber: 9.4 Consensus size: 26
70877432 GCTATATAAT
*
70877442 GGGAAGCTCAC-AAGAGTCATA-ATC
1 GGGAAGCTCACGAAGAGCCATATATC
* * *
70877466 GGGAAGCTCATG-CGAGCCA-ATAAC
1 GGGAAGCTCACGAAGAGCCATATATC
* * *
70877490 GGGGAGCTC-CGAATAGCCAT-TAAGC
1 GGGAAGCTCACGAAGAGCCATAT-ATC
* * * * *
70877515 AGGAAGCTC-CGGATAACAATATATC
1 GGGAAGCTCACGAAGAGCCATATATC
* * * *
70877540 GGGAAGTTCAAG-CGAGTC--ATATC
1 GGGAAGCTCACGAAGAGCCATATATC
*
70877563 GAGAAGCTC-CTG-AGAGCCAT-TAATC
1 GGGAAGCTCAC-GAAGAGCCATAT-ATC
** *
70877588 AAGAAGCTCACAAAGAGCCAT-TAATC
1 GGGAAGCTCACGAAGAGCCATAT-ATC
* ** *
70877614 AGGAAGCTCATAAAGAGCC-TTTAATC
1 GGGAAGCTCACGAAGAGCCATAT-ATC
70877640 GGGAAGCTCACGAAGAGCCATATATC
1 GGGAAGCTCACGAAGAGCCATATATC
*
70877666 GGGATGCTCA
1 GGGAAGCTCA
70877676 TAAAGGTGCG
Statistics
Matches: 158, Mismatches: 37, Indels: 28
0.71 0.17 0.13
Matches are distributed among these distances:
23 19 0.12
24 32 0.20
25 39 0.25
26 66 0.42
27 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
GGGAAGCTCACGAAGAGCCATATATC
Found at i:70878701 original size:13 final size:13
Alignment explanation
Indices: 70878685--70878712 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70878675 TTTTCTTTTA
70878685 TTATTTTTCATCT
1 TTATTTTTCATCT
70878698 TTATTTTTCATCT
1 TTATTTTTCATCT
70878711 TT
1 TT
70878713 CCAAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:70881278 original size:2 final size:2
Alignment explanation
Indices: 70881265--70881302 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
70881255 CTTTAACATT
* *
70881265 CA CA CA CG CA CA CA CA CA CA CA CA CA -A AA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
70881303 TCTCTCTCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:70881307 original size:2 final size:2
Alignment explanation
Indices: 70881302--70881361 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
70881292 AACACACACA
* * *
70881302 CT CT CT CT CT CT CT CT CC CT CT CT CC CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
70881344 CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT
70881362 NAAAAACTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:70883936 original size:25 final size:26
Alignment explanation
Indices: 70883907--70884011 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 26
70883897 TGAAATGCCC
70883907 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
70883932 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
70883957 ATCATGGAA-TTTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
70883982 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
70884008 ATCA
1 ATCA
70884012 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
24 14 0.19
25 38 0.52
26 21 0.29
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.