Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold492
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: 157084
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 25372 characters in sequence are not A, C, G, or T
Found at i:6802 original size:25 final size:24
Alignment explanation
Indices: 6774--6823 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
6764 ATATATGCGT
6774 ATAAAT-ATAGAAATAATAAGTGATA
1 ATAAATAATA-AAATAATAA-TGATA
*
6799 ATAAATAATATAATAATAATGATA
1 ATAAATAATAAAATAATAATGATA
6823 A
1 A
6824 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 14 0.61
26 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
ATAAATAATAAAATAATAATGATA
Found at i:6813 original size:12 final size:12
Alignment explanation
Indices: 6785--6823 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6775 TAAATATAGA
6785 AATAATAAGTGAT
1 AATAATAA-TGAT
6798 AATAAATAAT-AT
1 AAT-AATAATGAT
6810 AATAATAATGAT
1 AATAATAATGAT
6822 AA
1 AA
6824 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 9 0.38
13 4 0.17
14 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:9141 original size:25 final size:26
Alignment explanation
Indices: 9068--9141 Score: 91
Period size: 25 Copynumber: 2.9 Consensus size: 26
9058 TTTTATTAGG
*
9068 TATTTTAAATTAGATTTT-AGAATTTA
1 TATTTTAAATTAGTTTTTAAG-ATTTA
* *
9094 TATATT-AATTAGTTTTTAGGATTT-
1 TATTTTAAATTAGTTTTTAAGATTTA
9118 TATTTTAAATTAGTTTTTAAGATT
1 TATTTTAAATTAGTTTTTAAGATT
9142 GCTTTTTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.12
25 30 0.73
26 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TATTTTAAATTAGTTTTTAAGATTTA
Found at i:9725 original size:122 final size:123
Alignment explanation
Indices: 9572--9816 Score: 467
Period size: 122 Copynumber: 2.0 Consensus size: 123
9562 TTTTTGCCTA
9572 GCTAAAATTTTAAGCTGCGTTTGTAGCATATATATTTTTTTGTCCTTCTTAATAAATCCCATAAA
1 GCTAAAATTTTAAGCTGCGTTTGTAGCATATATATTTTTTTGTCCTTCTTAATAAATCCCATAAA
9637 ACAACTTAAAATAGACCAAAGAAAT-CATAATAAAATTTATAATATAAAAGTAAATAAT
66 ACAACTTAAAATAGACCAAAGAAATCCA-AATAAAATTTATAATATAAAAGTAAATAAT
9695 GCTAAAA-TTTAAGCTGCGTTTGTAGCATATATATTTTTTTGTCCTTCTTAATAAATCCCATAAA
1 GCTAAAATTTTAAGCTGCGTTTGTAGCATATATATTTTTTTGTCCTTCTTAATAAATCCCATAAA
9759 ACAACTTAAAATAGACCAAAGAAATCCAAATAAAATTTATAATATAAAAGTAAATAAT
66 ACAACTTAAAATAGACCAAAGAAATCCAAATAAAATTTATAATATAAAAGTAAATAAT
9817 TATAAGTAGT
Statistics
Matches: 121, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
122 112 0.93
123 9 0.07
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (123 bp):
GCTAAAATTTTAAGCTGCGTTTGTAGCATATATATTTTTTTGTCCTTCTTAATAAATCCCATAAA
ACAACTTAAAATAGACCAAAGAAATCCAAATAAAATTTATAATATAAAAGTAAATAAT
Found at i:10855 original size:7 final size:7
Alignment explanation
Indices: 10843--10867 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10833 ATTATAATTC
10843 CATTTCG
1 CATTTCG
10850 CATTTCG
1 CATTTCG
10857 CATTTCG
1 CATTTCG
10864 CATT
1 CATT
10868 CTTAAACGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (7 bp):
CATTTCG
Found at i:19235 original size:25 final size:26
Alignment explanation
Indices: 19162--19235 Score: 91
Period size: 25 Copynumber: 2.9 Consensus size: 26
19152 TTTTATTAGG
*
19162 TATTTTAAATTAGATTTT-AGAATTTA
1 TATTTTAAATTAGTTTTTAAG-ATTTA
* *
19188 TATATT-AATTAGTTTTTAGGATTT-
1 TATTTTAAATTAGTTTTTAAGATTTA
19212 TATTTTAAATTAGTTTTTAAGATT
1 TATTTTAAATTAGTTTTTAAGATT
19236 GCTTTTTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.12
25 30 0.73
26 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TATTTTAAATTAGTTTTTAAGATTTA
Found at i:20827 original size:7 final size:7
Alignment explanation
Indices: 20815--20839 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20805 ATTATAATTC
20815 CATTTCG
1 CATTTCG
20822 CATTTCG
1 CATTTCG
20829 CATTTCG
1 CATTTCG
20836 CATT
1 CATT
20840 CTTAAACGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (7 bp):
CATTTCG
Found at i:24909 original size:24 final size:24
Alignment explanation
Indices: 24882--24927 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24872 CTGAATTCTA
*
24882 TCTTT-TATTTAATTTATAATTAAT
1 TCTTTATAGTTAATTT-TAATTAAT
24906 TCTTTATAGTTAATTTTAATTA
1 TCTTTATAGTTAATTTTAATTA
24928 TTTATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TCTTTATAGTTAATTTTAATTAAT
Found at i:28286 original size:19 final size:18
Alignment explanation
Indices: 28238--28288 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
28228 GTTCTTAGAT
28238 TTTTTATTTATTTAATTC
1 TTTTTATTTATTTAATTC
*
28256 --TGTA-TTACTTTAATCTC
1 TTTTTATTTA-TTTAAT-TC
28273 TTTTTATTTATTTAAT
1 TTTTTATTTATTTAAT
28289 GCACCACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 2 0.08
19 9 0.35
20 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTTATTTAATTC
Found at i:39920 original size:3 final size:3
Alignment explanation
Indices: 39912--39937 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39902 AAATCCAGGC
39912 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
39938 ATCAAAGGTA
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:49425 original size:115 final size:115
Alignment explanation
Indices: 49223--49452 Score: 451
Period size: 115 Copynumber: 2.0 Consensus size: 115
49213 GTCCCCTAAA
49223 ACAAGCTACCATTTACAAAGTTATCAGACAAACCAATATAAATTTTAACATGGTAAAACAAACCC
1 ACAAGCTACCATTTACAAAGTTATCAGACAAACCAATATAAATTTTAACATGGTAAAACAAACCC
*
49288 AATTTCTAATCAAATCTTCAATCAATCACATCAAACCAACAAAATAAAGC
66 AATTTCCAATCAAATCTTCAATCAATCACATCAAACCAACAAAATAAAGC
49338 ACAAGCTACCATTTACAAAGTTATCAGACAAACCAATATAAATTTTAACATGGTAAAACAAACCC
1 ACAAGCTACCATTTACAAAGTTATCAGACAAACCAATATAAATTTTAACATGGTAAAACAAACCC
49403 AATTTCCAATCAAATCTTCAATCAATCACATCAAACCAACAAAATAAAGC
66 AATTTCCAATCAAATCTTCAATCAATCACATCAAACCAACAAAATAAAGC
49453 CAACCCATTC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (115 bp):
ACAAGCTACCATTTACAAAGTTATCAGACAAACCAATATAAATTTTAACATGGTAAAACAAACCC
AATTTCCAATCAAATCTTCAATCAATCACATCAAACCAACAAAATAAAGC
Found at i:50344 original size:2 final size:2
Alignment explanation
Indices: 50337--50368 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50327 TTTATTTTAC
50337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50369 TATTGCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53808 original size:12 final size:12
Alignment explanation
Indices: 53791--53822 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
53781 TGAAGTGTCA
53791 AAGCAACATAGG
1 AAGCAACATAGG
53803 AAGCAACATAGG
1 AAGCAACATAGG
53815 AAGCAACA
1 AAGCAACA
53823 AAAGCTACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.19, G:0.22, T:0.06
Consensus pattern (12 bp):
AAGCAACATAGG
Found at i:57139 original size:62 final size:62
Alignment explanation
Indices: 57053--57179 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
57043 TATGTTATTT
57053 CGACTCTGCATTTTTTTAAATATGAAGGTGTTTTGATTATAAGAAGTTACCATCTTTAGCAG
1 CGACTCTGCATTTTTTTAAATATGAAGGTGTTTTGATTATAAGAAGTTACCATCTTTAGCAG
57115 CGACTCTGCATTTTTTTAAATATGAAGGTGTTTTGATTATAAGAAGTTACCATCTTTAGCAG
1 CGACTCTGCATTTTTTTAAATATGAAGGTGTTTTGATTATAAGAAGTTACCATCTTTAGCAG
57177 CGA
1 CGA
57180 GCACGGATGC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (62 bp):
CGACTCTGCATTTTTTTAAATATGAAGGTGTTTTGATTATAAGAAGTTACCATCTTTAGCAG
Found at i:58266 original size:16 final size:16
Alignment explanation
Indices: 58246--58277 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
58236 ATTGGTAATA
58246 TAAAAAAT-TTATTTT
1 TAAAAAATCTTATTTT
58261 TAAAAAATCTTATTTT
1 TAAAAAATCTTATTTT
58277 T
1 T
58278 TATACTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAAAAATCTTATTTT
Found at i:59123 original size:21 final size:21
Alignment explanation
Indices: 59097--59144 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
59087 AAAAACATTA
59097 AAAATAA-TTTATATATTTTTT
1 AAAATAATTTTATA-ATTTTTT
*
59118 AAAATAATTTTTTGAATTTTTT
1 AAAATAATTTTAT-AATTTTTT
59140 AAAAT
1 AAAAT
59145 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 16 0.67
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAATAATTTTATAATTTTTT
Found at i:67097 original size:61 final size:60
Alignment explanation
Indices: 66972--67128 Score: 192
Period size: 61 Copynumber: 2.6 Consensus size: 60
66962 ACATAGTTGG
* * * * * *
66972 TCACCCAACTTTTAGTGCGCTTTCATTTTGGTCACCCAAAATGAATTCTTTGCAATTTTG
1 TCACCCTACTCTTAGAGCACTTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTC
* *
67032 TCACCCTAGTCTTATGA-TACTTTCATTTTAGTCACACCAAAATGAAATTC-TTGCAATTTTC
1 TCACCCTACTCTTA-GAGCACTTTCATTTTAGTCAC-CCAAAATG-AATTCTTTGCAATTTTC
*
67093 TCACCCTACTCTTAGAGCGCTTTCATTTTAGTCACC
1 TCACCCTACTCTTAGAGCACTTTCATTTTAGTCACC
67129 AAACGTTAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
60 29 0.35
61 48 0.59
62 5 0.06
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (60 bp):
TCACCCTACTCTTAGAGCACTTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTC
Found at i:69585 original size:19 final size:20
Alignment explanation
Indices: 69553--69590 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
69543 TAAAATTAAA
*
69553 TTTGAATATATAAATTATAT
1 TTTGAATATATAAAATATAT
*
69573 TTTGGATAT-TAAAATATA
1 TTTGAATATATAAAATATA
69591 ACCATTACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
TTTGAATATATAAAATATAT
Found at i:71222 original size:20 final size:19
Alignment explanation
Indices: 71171--71226 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
71161 TAATTTCAAC
* *
71171 ATATATTTTAATATATTTT
1 ATATATTTAAAAATATTTT
**
71190 ATATTATCCAAAAATATTTAT
1 ATA-TATTTAAAAATATTT-T
71211 ATATATTTAAAAATAT
1 ATATATTTAAAAATAT
71227 AATGATATCC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.10
20 22 0.76
21 4 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATTTAAAAATATTTT
Found at i:71604 original size:33 final size:33
Alignment explanation
Indices: 71562--71627 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
71552 TTATTTATTG
71562 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
1 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
71595 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
1 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
71628 ATAAATGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (33 bp):
CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
Found at i:72210 original size:22 final size:23
Alignment explanation
Indices: 72158--72212 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
72148 ACGAGGTTAT
* *
72158 GCTTAATTAAGTGGTTTAATTAG
1 GCTTAATTAAGTGATTTAATTAA
72181 GCTT-ATTAA-TGATTT-ATTGAA
1 GCTTAATTAAGTGATTTAATT-AA
72202 GCTTAATTAAG
1 GCTTAATTAAG
72213 AAAGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 10 0.37
22 10 0.37
23 4 0.15
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (23 bp):
GCTTAATTAAGTGATTTAATTAA
Found at i:73241 original size:143 final size:143
Alignment explanation
Indices: 72983--73268 Score: 536
Period size: 143 Copynumber: 2.0 Consensus size: 143
72973 TTAATGAATG
72983 TTGTATTATATACTGAAAGTATGCTCTACCGAGCCATATCTACTAATCCTACGGAAAGTTGCTCA
1 TTGTATTATATACTGAAAGTATGCTCTACCGAGCCATATCTACTAATCCTACGGAAAGTTGCTCA
* *
73048 ATCAAGCAAATCCTACTGTTATACTGAGTGAAACTCAAATGAGGAGAAATCTAAAGATATACTGA
66 ATCAAGCAAATCCTACTGTTATACTGAGTGAAACTCAAACGAGGAGAAATCTAAAGATATACCGA
73113 CGAAAACTCAAAT
131 CGAAAACTCAAAT
* *
73126 TTGTATTATATATTGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGGAAAGTTGCTCA
1 TTGTATTATATACTGAAAGTATGCTCTACCGAGCCATATCTACTAATCCTACGGAAAGTTGCTCA
73191 ATCAAGCAAATCCTACTGTTATACTGAGTGAAACTCAAACGAGGAGAAATCTAAAGATATACCGA
66 ATCAAGCAAATCCTACTGTTATACTGAGTGAAACTCAAACGAGGAGAAATCTAAAGATATACCGA
73256 CGAAAACTCAAAT
131 CGAAAACTCAAAT
73269 CGAGTAATGT
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 139 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (143 bp):
TTGTATTATATACTGAAAGTATGCTCTACCGAGCCATATCTACTAATCCTACGGAAAGTTGCTCA
ATCAAGCAAATCCTACTGTTATACTGAGTGAAACTCAAACGAGGAGAAATCTAAAGATATACCGA
CGAAAACTCAAAT
Found at i:74567 original size:16 final size:16
Alignment explanation
Indices: 74546--74588 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
74536 TTCCCCAAAA
74546 GGTTTAAGGTTTTAAG
1 GGTTTAAGGTTTTAAG
* *
74562 GGTTTAAAGTTTTTAG
1 GGTTTAAGGTTTTAAG
*
74578 AGTTTAAGGTT
1 GGTTTAAGGTT
74589 GAAAATTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (16 bp):
GGTTTAAGGTTTTAAG
Found at i:79995 original size:63 final size:63
Alignment explanation
Indices: 79921--80055 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 63
79911 AAAAATACCC
* * *
79921 GCAGAAGGTGTTGATGTAGGGTAC-GATGGTGCATAGTGTGGTACATATGTAAAAAGAAAAGGT
1 GCAGAAGGTGTTGATGCAAGGTACAG-TGGTGCATAGCGTGGTACATATGTAAAAAGAAAAGGT
* * * * *
79984 GCAGAAGGTGTTGATGCAAGTTACAGTGGTGCATTGCGTGGTGCTTATGTAAAAATAAAAGGT
1 GCAGAAGGTGTTGATGCAAGGTACAGTGGTGCATAGCGTGGTACATATGTAAAAAGAAAAGGT
* *
80047 CCAAAAGGT
1 GCAGAAGGT
80056 TAGTAAAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
63 60 0.98
64 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.26
Consensus pattern (63 bp):
GCAGAAGGTGTTGATGCAAGGTACAGTGGTGCATAGCGTGGTACATATGTAAAAAGAAAAGGT
Found at i:81999 original size:22 final size:21
Alignment explanation
Indices: 81971--82050 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 21
81961 CTAAAAAATA
81971 AAAAATTACCAAAATTA-TTTTT
1 AAAAATTA--AAAATTATTTTTT
81993 AAAAATTAAAAATTATTTTTT
1 AAAAATTAAAAATTATTTTTT
*
82014 AAAAAATATAAACAAATA-TTTTT
1 -AAAAAT-TAAA-AATTATTTTTT
82037 -AAAATTCAAAAATT
1 AAAAATT-AAAAATT
82051 TAATTAAATG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
20 11 0.22
21 13 0.25
22 14 0.27
23 9 0.18
24 4 0.08
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATTAAAAATTATTTTTT
Found at i:82025 original size:23 final size:21
Alignment explanation
Indices: 81969--82040 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 21
81959 AACTAAAAAA
81969 TAAAAAATTACCAAAATTATTTT
1 TAAAAAATTA--AAAATTATTTT
81992 T-AAAAATTAAAAATTATTTTT
1 TAAAAAATTAAAAATTA-TTTT
*
82013 TAAAAAATATAAACAAATATTTT
1 TAAAAAAT-TAAA-AATTATTTT
82036 TAAAA
1 TAAAA
82041 TTCAAAAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.16
21 5 0.11
22 14 0.32
23 14 0.32
24 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAAATTAAAAATTATTTT
Found at i:82879 original size:43 final size:44
Alignment explanation
Indices: 82822--82910 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
82812 GTTGATATAA
* *
82822 AATAGAAGTTGTGATAATTAAACATTT-AAAATAATTATAATTT
1 AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
*
82865 AATAGAAGTAGTGATAATTACACATTTAAAAATAATTAGAATTT
1 AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
82909 AA
1 AA
82911 GTTACAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 25 0.60
44 17 0.40
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (44 bp):
AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
Found at i:83826 original size:22 final size:22
Alignment explanation
Indices: 83801--83851 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
83791 CGGTGTCCAA
*
83801 TGTAAGGGTGCTGAAGTCTATT
1 TGTAAGGGTGCTGAAGCCTATT
83823 TGTAAGGGTGCTGAAGCCTATT
1 TGTAAGGGTGCTGAAGCCTATT
83845 TGTAAGG
1 TGTAAGG
83852 ATCAATGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
TGTAAGGGTGCTGAAGCCTATT
Found at i:84667 original size:25 final size:25
Alignment explanation
Indices: 84639--84688 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
84629 CACTAAACAG
84639 AGAGCACTGT-CGTGCTAATAATCAA
1 AGAGCAC-GTACGTGCTAATAATCAA
*
84664 AGAGCACGTAACGTGTTAATAATCA
1 AGAGCACGT-ACGTGCTAATAATCA
84689 GATAGCGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 7 0.32
26 13 0.59
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
AGAGCACGTACGTGCTAATAATCAA
Found at i:86285 original size:21 final size:22
Alignment explanation
Indices: 86261--86302 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
86251 AATAATCACA
*
86261 AATATATGTAT-TTTATTTAAT
1 AATATATGTATATATATTTAAT
*
86282 AATATATTTATATATATTTAA
1 AATATATGTATATATATTTAA
86303 AACATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATATATGTATATATATTTAAT
Found at i:87258 original size:29 final size:28
Alignment explanation
Indices: 87165--87258 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
87155 ACAAAAATAA
* *
87165 AAAATTACATCTTGACCCCTAATATTTTGT
1 AAAATTACA-CTTGAGCCCT-ATATTTTCT
* * *
87195 -AAATTACACTTGGGCCCCTAAACTTTCT
1 AAAATTACACTTGAG-CCCTATATTTTCT
*
87223 AGAAATTACACTTTAGCCCTATATTTTCCT
1 A-AAATTACACTTGAGCCCTATATTTT-CT
87253 AAAATT
1 AAAATT
87259 GCATTTTTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
28 10 0.20
29 26 0.51
30 15 0.29
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (28 bp):
AAAATTACACTTGAGCCCTATATTTTCT
Found at i:87976 original size:12 final size:12
Alignment explanation
Indices: 87961--88018 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
87951 AAGAAGAAGA
87961 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
87973 AAAAAAAG-GAG
1 AAAAAAAGAAAG
87984 AAGAAAAAGAAAG
1 AA-AAAAAGAAAG
**
87997 AAAAAGGGAAAG
1 AAAAAAAGAAAG
88009 -AAAAAAGAAA
1 AAAAAAAGAAA
88019 AATCAACAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 12 0.32
12 22 0.58
13 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:87990 original size:23 final size:23
Alignment explanation
Indices: 87959--88018 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
87949 CGAAGAAGAA
87959 GAAA-AAAAAGAAAGAAAAAAAG
1 GAAAGAAAAAGAAAGAAAAAAAG
*
87981 GAGAAGAAAAAGAAAG-AAAAAGG
1 GA-AAGAAAAAGAAAGAAAAAAAG
88004 GAAAGAAAAAAGAAA
1 GAAAG-AAAAAGAAA
88019 AATCAACAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 5 0.15
23 19 0.56
24 10 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
GAAAGAAAAAGAAAGAAAAAAAG
Found at i:88015 original size:13 final size:13
Alignment explanation
Indices: 87957--88014 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
87947 CCCGAAGAAG
*
87957 AAGAAAAAAAAGA
1 AAGAAAAAAAGGA
87970 AAGAAAAAAAGG-
1 AAGAAAAAAAGGA
87982 -AGAAGAAAAA-GA
1 AAGAA-AAAAAGGA
*
87994 AAG-AAAAAGGGA
1 AAGAAAAAAAGGA
88006 AAGAAAAAA
1 AAGAAAAAA
88015 GAAAAATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 9 0.24
12 11 0.29
13 18 0.47
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGGA
Found at i:88940 original size:18 final size:17
Alignment explanation
Indices: 88903--89081 Score: 150
Period size: 17 Copynumber: 10.3 Consensus size: 17
88893 TTTTTAAAAG
* *
88903 AAAAAATTTCGTATTTC
1 AAAAATTTTCGTGTTTC
88920 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
88937 CAAAATTTTGCGTATTT-
1 AAAAATTTT-CGTGTTTC
* *
88954 TAAAATTTTCGCGTTCTC
1 AAAAATTTTCGTGTT-TC
88972 AAAAATTTCTCGTGTTTC
1 AAAAATTT-TCGTGTTTC
88990 AAAAAATTGTT-GTGTTTC
1 -AAAAATT-TTCGTGTTTC
**
89008 GCAAATTTTCGTGTTGT-
1 AAAAATTTTCGTGTT-TC
89025 AAAAATTTTCAG-GTTTTC
1 AAAAATTTTC-GTG-TTTC
*
89043 AAAAATTTTTGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
89060 TAAAATTCTCTTGTTTC
1 AAAAATTTTCGTGTTTC
89077 AAAAA
1 AAAAA
89082 AATTCTATGT
Statistics
Matches: 131, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
16 6 0.05
17 74 0.56
18 36 0.27
19 14 0.11
20 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:88953 original size:35 final size:33
Alignment explanation
Indices: 88903--89081 Score: 128
Period size: 35 Copynumber: 5.2 Consensus size: 33
88893 TTTTTAAAAG
*
88903 AAAAAATTTCGTATTTCAAAAATTTTCGTGTTTC
1 AAAAATTTTCGTATTT-AAAAATTTTCGTGTTTC
* * *
88937 CAAAATTTTGCGTATTTTAAAATTTTCGCGTTCTC
1 AAAAATTTT-CGTATTTAAAAATTTTCGTGTT-TC
*
88972 AAAAATTTCTCGTGTTTCAAAAAATTGTT-GTGTTTC
1 AAAAATTT-TCGTATTT--AAAAATT-TTCGTGTTTC
** *
89008 GCAAATTTTCGTGTTGTAAAAATTTTCAG-GTTTTC
1 AAAAATTTTCGTATT-TAAAAATTTTC-GTG-TTTC
* * * * *
89043 AAAAATTTTTGTGTTTCTAAAATTCTCTTGTTTC
1 AAAAATTTTCGTATTT-AAAAATTTTCGTGTTTC
89077 AAAAA
1 AAAAA
89082 AATTCTATGT
Statistics
Matches: 117, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
33 2 0.02
34 38 0.32
35 55 0.47
36 10 0.09
37 10 0.09
38 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (33 bp):
AAAAATTTTCGTATTTAAAAATTTTCGTGTTTC
Found at i:89099 original size:17 final size:18
Alignment explanation
Indices: 89039--89100 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 18
89029 ATTTTCAGGT
*
89039 TTTCAAAAATT-TTTGTG
1 TTTCAAAAATTCTATGTG
* *
89056 TTTCTAAAATTCTCT-TG
1 TTTCAAAAATTCTATGTG
89073 TTTCAAAAAAATTCTATGT-
1 TTTC--AAAAATTCTATGTG
89092 TTTCAAAAA
1 TTTCAAAAA
89101 AAAAATATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 21 0.57
18 2 0.05
19 13 0.35
20 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTCAAAAATTCTATGTG
Found at i:89120 original size:19 final size:20
Alignment explanation
Indices: 89071--89120 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
89061 AAAATTCTCT
* *
89071 TGTTTCAAAAAAATTCTATG
1 TGTTTCAAAAAAAATATATG
*
89091 T-TTTCAAAAAAAAAATATTG
1 TGTTTCAAAAAAAATATA-TG
89111 TGTTTCAAAA
1 TGTTTCAAAA
89121 TTCTCGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 13 0.52
20 4 0.16
21 8 0.32
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TGTTTCAAAAAAAATATATG
Found at i:94488 original size:11 final size:11
Alignment explanation
Indices: 94459--94525 Score: 82
Period size: 11 Copynumber: 6.0 Consensus size: 11
94449 TATTATGCCT
94459 AACAAAAAACAA
1 AACAAAAAA-AA
94471 AACAAAAAACAA
1 AACAAAAAA-AA
*
94483 AA-AAAAAACA
1 AACAAAAAAAA
*
94493 AACAAACAAAA
1 AACAAAAAAAA
*
94504 AACAAGAAAAA
1 AACAAAAAAAA
94515 AACAAAAAAAA
1 AACAAAAAAAA
94526 GAAGAAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
10 3 0.06
11 31 0.65
12 14 0.29
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.00
Consensus pattern (11 bp):
AACAAAAAAAA
Found at i:94506 original size:26 final size:27
Alignment explanation
Indices: 94465--94525 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 27
94455 GCCTAACAAA
94465 AAACAAAACAAAAAACAAAAAAAAAAC
1 AAACAAAACAAAAAACAAAAAAAAAAC
*
94492 AAAC-AAACAAAAAACAAGAAAAAAAC
1 AAACAAAACAAAAAACAAAAAAAAAAC
*
94518 AAAAAAAA
1 AAACAAAA
94526 GAAGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (27 bp):
AAACAAAACAAAAAACAAAAAAAAAAC
Found at i:94533 original size:18 final size:17
Alignment explanation
Indices: 94459--94536 Score: 84
Period size: 18 Copynumber: 4.2 Consensus size: 17
94449 TATTATGCCT
*
94459 AACAAAAAACAAAACAAAA
1 AACAAAAAA-AAGA-AAAA
*
94478 AACAAAAAAAAAACAAACA
1 AACAAAAAAAAGA-AAA-A
94497 AACAAAAAACAAGAAAAA
1 AACAAAAAA-AAGAAAAA
94515 AACAAAAAAAAGAAGAAA
1 AACAAAAAAAAGAA-AAA
94533 AACA
1 AACA
94537 TTAAGATGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
17 5 0.09
18 25 0.45
19 22 0.40
20 3 0.05
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (17 bp):
AACAAAAAAAAGAAAAA
Found at i:94592 original size:44 final size:44
Alignment explanation
Indices: 94531--94619 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
94521 AAAAAGAAGA
* *
94531 AAAACATTAAGATGAAAACCCGAAAAGGGCGTCTTAAT-AAACAG
1 AAAACATTAAGATGAAAACCCG-AAAGGGCATCCTAATGAAACAG
* * *
94575 AAAAGATTAGGATGAAAACCTGAAAGGGCATCCTAATGAAACAG
1 AAAACATTAAGATGAAAACCCGAAAGGGCATCCTAATGAAACAG
94619 A
1 A
94620 TTCGGACTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 13 0.33
44 26 0.67
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (44 bp):
AAAACATTAAGATGAAAACCCGAAAGGGCATCCTAATGAAACAG
Found at i:95606 original size:75 final size:75
Alignment explanation
Indices: 95410--95629 Score: 336
Period size: 75 Copynumber: 2.9 Consensus size: 75
95400 TCACTTTCTG
* * *
95410 TTTTTTTCAAATATCAACTCATAATACGAGAGGTGAGTTGAACCTCGGGTCACGCTGAAGTATTT
1 TTTTTTT-AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
*
95475 TTAATTTCGGTC
64 TTAATTTAGGTC
*
95487 TTTTTTT--AAATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGCTGAGGTATTTTT
1 TTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
95550 AATTTATGTC
66 AATTTAGGTC
* *
95560 TTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTTACGCTGAGGTTTTTTT
1 TTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
95625 AATTT
66 AATTT
95630 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
73 51 0.39
74 16 0.12
75 58 0.44
77 7 0.05
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (75 bp):
TTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
AATTTAGGTC
Found at i:95901 original size:76 final size:75
Alignment explanation
Indices: 95736--96313 Score: 623
Period size: 76 Copynumber: 7.5 Consensus size: 75
95726 NNNNNNNNNN
*
95736 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCGGTCTTTTTT--AAAATCAACTCA
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAAAATCAACTCA
*
95799 TAATACAAAG
66 TAATACAGAG
* *
95809 GTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTAATTTTTGTCTTTTTTAAAAAAATCAACTC
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTT-AAAAAATCAACTC
*
95874 ATAATACAGAT
65 ATAATACAGAG
*
95885 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTTTTAAAAATCAAC
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTC---TTTTTTAAAAAATCAAC
*
95950 TCATAATACAAAG
63 TCATAATACAGAG
95963 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATTTCTG-CTTTTTTTCAAAAAAAT
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATTTCTGTC-TTTTTT--AAAAAAT
*
96027 CAACTCATATTACGAGAG
59 CAACTCATAATAC-AGAG
** * * *
96045 GTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATTTCTG---TTTTTCAAAAATCAA
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATTTCTGTCTTTTTTAAAAAATCAA
* *
96107 CTCATATTGCTAGAG
62 CTCATAATAC-AGAG
* * * * * **
96122 GTGAGTTGAGCCACGGGCACACGCCGAGATATTTTTTTTTAATTTTTGT-TTTTCAAAAAAAATC
1 GTGAGTTGAGCCTCGGG-TCACGCTGAGGTA----TTTTTAATTTCTGTCTTTT-TTAAAAAATC
**
96186 AACTCATAATGTGAGAG
60 AACTCATAAT-ACAGAG
* * *
96203 GTGAGTAGAGCCTCGGGTCATGCTGAGGTATTTTTAATTTCTGT-TGTTTTTCAAAAATCAACTC
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCT-TTTTTAAAAAATCAACTC
96267 ATAATACGAGAG
65 ATAATAC-AGAG
96279 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
96314 TAAATTTCAT
Statistics
Matches: 437, Mismatches: 46, Indels: 41
0.83 0.09 0.08
Matches are distributed among these distances:
73 48 0.11
76 131 0.30
77 40 0.09
78 68 0.16
79 22 0.05
80 16 0.04
81 58 0.13
82 54 0.12
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (75 bp):
GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAAAATCAACTCA
TAATACAGAG
Found at i:96202 original size:158 final size:152
Alignment explanation
Indices: 95736--96314 Score: 638
Period size: 158 Copynumber: 3.7 Consensus size: 152
95726 NNNNNNNNNN
* * **
95736 GTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAATTTCGGTCTTTTTTAAAATCAACTCA
1 GTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTTAATTTCTGT-TTTTCAAAAATCAACTCA
* * *
95799 TAATACAAAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTA----TTTTTAATTTTTGTCTTTTTT
65 TAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTTAATTTTTG--TTTTTC
* *
95860 AAAAAAATCAACTCATAATACAGAT
128 AAAAAAATCAACTCATAATAGAGAG
* *
95885 GTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAATTTCTGTCTTTTTTTTTTAAAAATCA
1 GTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTTAATTTCTG------TTTTTCAAAAATCA
* * * *
95948 ACTCATAATACAAAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATTTCTGCTT
60 ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTTAATTT-T--TG
*
96013 TTTTTCAAAAAAATCAACTCATATTACGAGAG
122 TTTTTCAAAAAAATCAACTCATAATA-GAGAG
** *
96045 GTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTC
1 GTGAGTTGAGCCTCGGGTCATGCTGAGGTATTT-TTTT-AATTTCTGTTTTTCAAAAATCAACTC
* * * * * *
96110 ATATTGCTAGAGGTGAGTTGAGCCACGGGCACACGCCGAGATATTTTTTTTTAATTTTTGTTTTT
64 ATAATAC-AGAGGTGAGTTGAGCCTCGGG-TCACGCTGAGGTATTTTTTTTTAATTTTTGTTTTT
*
96175 CAAAAAAAATCAACTCATAATGTGAGAG
127 C-AAAAAAATCAACTCATAAT-AGAGAG
*
96203 GTGAGTAGAGCCTCGGGTCATGCTGAGGTA--TTTTTAATTTCTGTTGTTTTTCAAAAATCAACT
1 GTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTTAATTTC---TGTTTTTCAAAAATCAACT
96266 CATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTT
63 CATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTT
96315 AAATTTCATT
Statistics
Matches: 368, Mismatches: 37, Indels: 43
0.82 0.08 0.10
Matches are distributed among these distances:
149 42 0.11
154 62 0.17
155 5 0.01
156 17 0.05
157 52 0.14
158 80 0.22
159 45 0.12
160 51 0.14
161 1 0.00
162 1 0.00
163 4 0.01
164 8 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (152 bp):
GTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTTAATTTCTGTTTTTCAAAAATCAACTCAT
AATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTTAATTTTTGTTTTTCAAA
AAAATCAACTCATAATAGAGAG
Found at i:96346 original size:10 final size:10
Alignment explanation
Indices: 96331--96355 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
96321 CATTTTAAAA
96331 AAAAAAATTC
1 AAAAAAATTC
96341 AAAAAAATTC
1 AAAAAAATTC
96351 AAAAA
1 AAAAA
96356 TAAAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:96414 original size:29 final size:28
Alignment explanation
Indices: 96358--96451 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
96348 TTCAAAAATA
96358 AAAATTACATCTTGACCCCTAATATTTTGT
1 AAAATTACA-CTTGACCCCTAATATTTT-T
*
96388 -AAATTACACTTGGGCCCCTAA-ACTTTTT
1 AAAATTACACTT-GACCCCTAATA-TTTTT
* *
96416 AGAAATTACACTTTAGCCCT-ATATTTTCCT
1 A-AAATTACACTTGACCCCTAATATTTT--T
96446 AAAATT
1 AAAATT
96452 GTATTTTTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
28 10 0.19
29 30 0.57
30 13 0.25
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.38
Consensus pattern (28 bp):
AAAATTACACTTGACCCCTAATATTTTT
Found at i:97001 original size:16 final size:16
Alignment explanation
Indices: 96980--97019 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
96970 CGAATTACAA
*
96980 AAGAAAGAGGAGATAG
1 AAGAAAGAGGAGAGAG
*
96996 AAGAAAGAGGAGAGGG
1 AAGAAAGAGGAGAGAG
97012 AAGAAAGA
1 AAGAAAGA
97020 AAAGAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (16 bp):
AAGAAAGAGGAGAGAG
Found at i:97057 original size:14 final size:15
Alignment explanation
Indices: 97017--97063 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
97007 GAGGGAAGAA
*
97017 AGAAAAGAAGAAAGGA
1 AGAAAAGAA-AAAGGG
97033 AGAAAATGAAAAAGGG
1 AGAAAA-GAAAAAGGG
*
97049 AG-AAAGAAAAGGGG
1 AGAAAAGAAAAAGGG
97063 A
1 A
97064 AGAGGGGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 13 0.46
17 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (15 bp):
AGAAAAGAAAAAGGG
Found at i:97166 original size:9 final size:9
Alignment explanation
Indices: 97158--97230 Score: 65
Period size: 9 Copynumber: 7.6 Consensus size: 9
97148 GAAGAAGAAA
97158 AAAAAGAAAG
1 AAAAA-AAAG
97168 AAAAAAAAG
1 AAAAAAAAG
97177 AGAAGAAAAAG
1 A-AA-AAAAAG
*
97188 AGAGAAAAAGG
1 A-A-AAAAAAG
* *
97199 GAAAGAAAG
1 AAAAAAAAG
*
97208 AAGAAAAAG
1 AAAAAAAAG
97217 AAAAAAAAG
1 AAAAAAAAG
97226 AAAAA
1 AAAAA
97231 TCAACAGTCG
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 29 0.56
10 8 0.15
11 14 0.27
12 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:97170 original size:13 final size:13
Alignment explanation
Indices: 97152--97228 Score: 72
Period size: 13 Copynumber: 6.2 Consensus size: 13
97142 CCCGAAGAAG
97152 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
97165 AAGAAAAAAAAG-
1 AAGAAAAAAAAGA
*
97177 -AGAAGAAAAAGA
1 AAGAAAAAAAAGA
* **
97189 GAG-AAAAAGGGA
1 AAGAAAAAAAAGA
*
97201 AAGAAAGAAGAA-A
1 AAGAAA-AAAAAGA
97214 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
97227 AA
1 AA
97229 AATCAACAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
11 10 0.20
12 12 0.24
13 26 0.52
14 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:98157 original size:18 final size:17
Alignment explanation
Indices: 98120--98317 Score: 154
Period size: 17 Copynumber: 11.3 Consensus size: 17
98110 TTTTTAAAAG
* *
98120 AAAAAATTTCGTATTTC
1 AAAAATTTTCGTGTTTC
98137 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
98154 CAAAATTTTGCGTATATT-
1 AAAAATTTT-CGTGT-TTC
*
98172 -AAAATTTTCGCGTTCTC
1 AAAAATTTTCGTGTT-TC
98189 AAAAATTTCTCGTGTTTC
1 AAAAATTT-TCGTGTTTC
98207 AAAAAATTGTT-GTGTTTC
1 -AAAAATT-TTCGTGTTTC
**
98225 GCAAATTTTCGTGTTGT-
1 AAAAATTTTCGTGTT-TC
98242 AAAAATTTTCAG-GTTTTC
1 AAAAATTTTC-GTG-TTTC
98260 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
98277 TAAAATTCTCTTGTTTC
1 AAAAATTTTCGTGTTTC
**
98294 AAAAAAATTCTGTGTTTTC
1 AAAAATTTTC-GTG-TTTC
98313 AAAAA
1 AAAAA
98318 AAAAATATTG
Statistics
Matches: 146, Mismatches: 19, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.01
16 6 0.04
17 76 0.52
18 37 0.25
19 25 0.17
20 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:98282 original size:35 final size:34
Alignment explanation
Indices: 98120--98317 Score: 154
Period size: 35 Copynumber: 5.6 Consensus size: 34
98110 TTTTTAAAAG
* *
98120 AAAAAATTTCGTATTTCAAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTC
* * *
98154 CAAAATTTTGCGTATATT--AAAATTTTCGCGTTCTC
1 AAAAATTTT-CGTGT-TTCAAAAATTTTCGTGTT-TC
98189 AAAAATTTCTCGTGTTTCAAAAAATTGTT-GTGTTTC
1 AAAAATTT-TCGTGTTTC-AAAAATT-TTCGTGTTTC
**
98225 GCAAATTTTCGTGTTGT-AAAAATTTTCAG-GTTTTC
1 AAAAATTTTCGTGTT-TCAAAAATTTTC-GTG-TTTC
* * *
98260 AAAAATTTTCGTGTTTCTAAAATTCTCTTGTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTC
**
98294 AAAAAAATTCTGTGTTTTCAAAAA
1 AAAAATTTTC-GTG-TTTCAAAAA
98318 AAAAATATTG
Statistics
Matches: 132, Mismatches: 16, Indels: 30
0.74 0.09 0.17
Matches are distributed among these distances:
33 2 0.02
34 43 0.33
35 55 0.42
36 20 0.15
37 10 0.08
38 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTC
Found at i:98322 original size:22 final size:21
Alignment explanation
Indices: 98294--98337 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
98284 CTCTTGTTTC
98294 AAAAAAAT-TCTGTGTTTTCAAA
1 AAAAAAATAT-TGTG-TTTCAAA
98316 AAAAAAATATTGTGTTTCAAA
1 AAAAAAATATTGTGTTTCAAA
98337 A
1 A
98338 TTCTCGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATATTGTGTTTCAAA
Found at i:108022 original size:18 final size:17
Alignment explanation
Indices: 107985--108182 Score: 161
Period size: 17 Copynumber: 11.3 Consensus size: 17
107975 TTTTTAAAAG
* *
107985 AAAAAATTTCGTATTTC
1 AAAAATTTTCGTGTTTC
108002 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
108019 CAAAATTTTGCGTATATT-
1 AAAAATTTT-CGTGT-TTC
*
108037 -AAAATTTTCGCGTTCTC
1 AAAAATTTTCGTGTT-TC
108054 AAAAATTTCTCGTGTTTC
1 AAAAATTT-TCGTGTTTC
*
108072 AAAAAATTGTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
**
108090 GTAAATTTTCGTGTTGT-
1 AAAAATTTTCGTGTT-TC
108107 AAAAATTTTCAAGT-TTTC
1 AAAAATTTTC--GTGTTTC
108125 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
108142 TAAAATTCTCTTGTTTC
1 AAAAATTTTCGTGTTTC
**
108159 AAAAAAATTCTGTGTTTTC
1 AAAAATTTTC-GTG-TTTC
108178 AAAAA
1 AAAAA
108183 AAAAATATTG
Statistics
Matches: 146, Mismatches: 21, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
15 1 0.01
16 6 0.04
17 76 0.52
18 37 0.25
19 26 0.18
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:108164 original size:35 final size:34
Alignment explanation
Indices: 107985--108182 Score: 161
Period size: 35 Copynumber: 5.6 Consensus size: 34
107975 TTTTTAAAAG
* *
107985 AAAAAATTTCGTATTTCAAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTC
* * *
108019 CAAAATTTTGCGTATATT--AAAATTTTCGCGTTCTC
1 AAAAATTTT-CGTGT-TTCAAAAATTTTCGTGTT-TC
*
108054 AAAAATTTCTCGTGTTTCAAAAAATTGTCGTGTTTC
1 AAAAATTT-TCGTGTTTC-AAAAATTTTCGTGTTTC
**
108090 GTAAATTTTCGTGTTGT-AAAAATTTTCAAGT-TTTC
1 AAAAATTTTCGTGTT-TCAAAAATTTTC--GTGTTTC
* * *
108125 AAAAATTTTCGTGTTTCTAAAATTCTCTTGTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTC
**
108159 AAAAAAATTCTGTGTTTTCAAAAA
1 AAAAATTTTC-GTG-TTTCAAAAA
108183 AAAAATATTG
Statistics
Matches: 132, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
33 1 0.01
34 44 0.33
35 53 0.40
36 22 0.17
37 12 0.09
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTC
Found at i:108187 original size:22 final size:21
Alignment explanation
Indices: 108159--108202 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
108149 CTCTTGTTTC
108159 AAAAAAAT-TCTGTGTTTTCAAA
1 AAAAAAATAT-TGTG-TTTCAAA
108181 AAAAAAATATTGTGTTTCAAA
1 AAAAAAATATTGTGTTTCAAA
108202 A
1 A
108203 TTCTCGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAAAATATTGTGTTTCAAA
Found at i:110613 original size:15 final size:16
Alignment explanation
Indices: 110593--110623 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
110583 GTGGCTTGTG
110593 TTGGTATAAG-CATAT
1 TTGGTATAAGCCATAT
110608 TTGGTATAAGCCATAT
1 TTGGTATAAGCCATAT
110624 GCTTCAACCT
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:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGGTATAAGCCATAT
Found at i:112291 original size:17 final size:17
Alignment explanation
Indices: 112262--112304 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
112252 TTCATATATC
112262 AAATTACATATTAAACTA
1 AAATTA-ATATTAAACTA
112280 AAATTAATATTAAACTA
1 AAATTAATATTAAACTA
112297 AAATTAAT
1 AAATTAAT
112305 GTATAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTAATATTAAACTA
Found at i:114687 original size:15 final size:15
Alignment explanation
Indices: 114667--114698 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
114657 ATATGTAGAT
114667 ATAAAAACTGAAAAG
1 ATAAAAACTGAAAAG
114682 ATAAAAACTGAAAAG
1 ATAAAAACTGAAAAG
114697 AT
1 AT
114699 CTGTATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (15 bp):
ATAAAAACTGAAAAG
Found at i:116893 original size:135 final size:137
Alignment explanation
Indices: 116668--116930 Score: 431
Period size: 135 Copynumber: 1.9 Consensus size: 137
116658 CCATTGGACG
* *
116668 TTGGTTCACTTCACATGCTTTCTCCAATTATAGCTGGAAAAAGCGAAAAAGAAAGGGGGCATTCC
1 TTGGTTCACTTCACATGCTTTCTACAATTATAGCTGAAAAAAGCG-AAAAGAAAGGGGGCATTCC
116733 GAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATACCACTAGACCAAATGCCCTAC
65 GAGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATACCACTAGACCAAATGCCCTAC
116798 ACGGGTCA
130 ACGGGTCA
* * * * **
116806 TTGGTTTACTTTACATGCTTTTTACAGTTATAGCTGAAAAAATTG-AAAGAAA-GGGGCATTCCG
1 TTGGTTCACTTCACATGCTTTCTACAATTATAGCTGAAAAAAGCGAAAAGAAAGGGGGCATTCCG
116869 AGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATACCACTAGACCAAATGCCCT
66 AGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATACCACTAGACCAAATGCCCT
116931 TTCTGTTGGC
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
135 73 0.62
136 7 0.06
138 37 0.32
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (137 bp):
TTGGTTCACTTCACATGCTTTCTACAATTATAGCTGAAAAAAGCGAAAAGAAAGGGGGCATTCCG
AGAATTGAACTCGGGACCTCTCGCACCCTAAGCGAGAATCATACCACTAGACCAAATGCCCTACA
CGGGTCA
Found at i:125412 original size:6 final size:6
Alignment explanation
Indices: 125395--125430 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
125385 AATGAAAATA
125395 AAAAAG AGAAAAG AAAAAG AAAAAGG AAAAAG AAAA
1 AAAAAG A-AAAAG AAAAAG AAAAA-G AAAAAG AAAA
125431 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:125792 original size:10 final size:10
Alignment explanation
Indices: 125777--125801 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
125767 TTTCAAGAAT
125777 AAAAAAACAA
1 AAAAAAACAA
125787 AAAAAAACAA
1 AAAAAAACAA
125797 AAAAA
1 AAAAA
125802 GATGAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:125816 original size:6 final size:7
Alignment explanation
Indices: 125798--125836 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
125788 AAAAAACAAA
125798 AAAAGATG
1 AAAA-ATG
125806 AAAAATG
1 AAAAATG
125813 -AAAATG
1 AAAAATG
125819 AAAAATG
1 AAAAATG
125826 AAAAATG
1 AAAAATG
125833 AAAA
1 AAAA
125837 CGGAAACGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 20 0.67
8 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:125826 original size:20 final size:21
Alignment explanation
Indices: 125798--125836 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
125788 AAAAAACAAA
125798 AAAAGATGAAAAATGAAAATG
1 AAAAGATGAAAAATGAAAATG
125819 AAAA-ATGAAAAATGAAAA
1 AAAAGATGAAAAATGAAAA
125837 CGGAAACGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAGATGAAAAATGAAAATG
Found at i:127253 original size:44 final size:44
Alignment explanation
Indices: 127120--128041 Score: 521
Period size: 44 Copynumber: 21.3 Consensus size: 44
127110 CTGAGGTTAC
* * * * *
127120 AGTGGAGCAGATCGAAGATGGCGA-ATCTTATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGAT-TCTAGATCCTATCTCCCTAAGCAGT
* ** *** *
127164 AGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
* * * *
127207 AGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
* * *
127251 AGTGGAGCAGATC---GCA-TCAAG-TCTTATCTCTCTAAGCAGT
1 AGTGGAGCAGATCAAAG-ATTCTAGATCCTATCTCCCTAAGCAGT
* ** *
127291 AGCGGAGCAGA-CAAAAGAAACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATC-AAAGATTCTAGATCCTATCTCCCTAAGCAGT
* *
127334 AGTGGAGCAGGTCAAAGATAT-TAGATCCTATATCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGAT-TCTAGATCCTATCTCCCTAAGCAGT
* *
127378 AGTGGAGCAGATCAAAGA--CGACGAAT-CTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTA-G-ATCCT-ATCTCCCTAAGCAGT
* * ** *** *
127422 AGTGAATCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
* *
127465 AGTGAAGCAGGTCAAAGATAT-TAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGAT-TCTAGATCCTATCTCCCTAAGCAGT
* ** * *
127509 AGTGGAGCAGATCGAAGACGGCGA-AT-CTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGA-TTCTAGATCCT-ATCTCCCTAAGCAGT
* ** *** * *
127553 AGTGAAGCAGATTTAAGCCACCAG-TCCTATATCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
* *** *
127596 AGTGGCGCAGATCAAAGACGGT-GAAT-CTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAG-ATCCT-ATCTCCCTAAGCAGT
* ** *** *
127640 AGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
* * *
127683 AGTGGAGCAGGTCAATGATAT-TAGATCCTATCTCCCTAAGTAGT
1 AGTGGAGCAGATCAAAGAT-TCTAGATCCTATCTCCCTAAGCAGT
** ** * *
127727 AGTGGAGCAGATTGAAGACGGCGA-AT-CTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGA-TTCTAGATCCT-ATCTCCCTAAGCAGT
* ** *** *
127771 AGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
*
127814 AGTGGAGCAGGTCAAAGATAT-TAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGAT-TCTAGATCCTATCTCCCTAAGCAGT
* * *
127858 AGTGGAGCA-AGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGA-TCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
* * *
127902 AGTGGAGCAGATC---GCA-TCAAG-TCTTATCTCCTTAAGCAGT
1 AGTGGAGCAGATCAAAG-ATTCTAGATCCTATCTCCCTAAGCAGT
* * * * *
127942 AGCGGAGCA-AACAAAAGAAATC-A-ATCCTATCTCCCTGAGCAGC
1 AGTGGAGCAGATC-AAAG-ATTCTAGATCCTATCTCCCTAAGCAGT
* ** * * * *
127985 AGTGGAGTA-AGTTGAAGATTGTAGATCTTATCTCTCTAAGCAAT
1 AGTGGAGCAGA-TCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
*
128029 AGTAGAGCAGATC
1 AGTGGAGCAGATC
128042 GCATCCAGTC
Statistics
Matches: 675, Mismatches: 150, Indels: 106
0.73 0.16 0.11
Matches are distributed among these distances:
39 3 0.00
40 54 0.08
41 8 0.01
42 7 0.01
43 232 0.34
44 363 0.54
45 6 0.01
46 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATCAAAGATTCTAGATCCTATCTCCCTAAGCAGT
Found at i:127450 original size:87 final size:87
Alignment explanation
Indices: 127120--127866 Score: 529
Period size: 87 Copynumber: 8.6 Consensus size: 87
127110 CTGAGGTTAC
* * * * * *
127120 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCAAAGACGACGAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCAC
127185 CAGTCCTATCTCCCTAAGCAGT
66 CAGTCCTATCTCCCTAAGCAGT
* * * * *
127207 AGTGGAGCAGGTCGAAGATTGTA-G-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CG-C
1 AGTGGAGCAGATCAAAGA-CG-ACGAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCC
* * *
127266 ATCAAGTCTTATCTCTCTAAGCAGT
64 A-CCAGTCCTATCTCCCTAAGCAGT
* * * * * ** **
127291 AGCGGAGCAGA-CAAAAGA-AACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATA
1 AGTGGAGCAGATC-AAAGACGACGAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCA
** *
127354 TTAGATCCTATATCCCTAAGCAGT
65 CCAG-TCCTATCTCCCTAAGCAGT
* * *
127378 AGTGGAGCAGATCAAAGACGACGAAT-CTCATCTTCCTAAGCAGTAGTGAATCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGACGAATCCT-ATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCA
127442 CCAGTCCTATCTCCCTAAGCAGT
65 CCAGTCCTATCTCCCTAAGCAGT
* * * ** ** *
127465 AGTGAAGCAGGTCAAAGA-TATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 AGTGGAGCAGATCAAAGACGACGA-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CC
* * * *
127529 GCGAAT-CTCATCTTCCTAAGCAGT
64 ACCAGTCCT-ATCTCCCTAAGCAGT
* ** * * * * * ** **
127553 AGTGAAGCAGATTTAAG-CCACCAGTCCTATATCCCTAAGCAGTAGTGGCGCAGATCAAAGACGG
1 AGTGGAGCAGATCAAAGACGACGAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCA
** * *
127617 TGAAT-CTCATCTTCCTAAGCAGT
65 CCAGTCCT-ATCTCCCTAAGCAGT
* ** * * * * * **
127640 AGTGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAG-GTCAATGATA
1 AGTGGAGCAGATCAAAGACGACGAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAA-GCCA
** *
127703 TTAGATCCTATCTCCCTAAGTAGT
65 CCAG-TCCTATCTCCCTAAGCAGT
** * * *
127727 AGTGGAGCAGATTGAAGACGGCGAAT-CTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGACGACGAATCCT-ATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCA
127791 CCAGTCCTATCTCCCTAAGCAGT
65 CCAGTCCTATCTCCCTAAGCAGT
* * **
127814 AGTGGAGCAGGTCAAAGA-TATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCA
1 AGTGGAGCAGATCAAAGACGACGA-ATCCTATCTCCCTAAGCAGTAGTGGAGCA
127867 AGTCGAAGAT
Statistics
Matches: 532, Mismatches: 101, Indels: 54
0.77 0.15 0.08
Matches are distributed among these distances:
81 1 0.00
83 31 0.06
84 34 0.06
85 1 0.00
86 10 0.02
87 344 0.65
88 108 0.20
89 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AGTGGAGCAGATCAAAGACGACGAATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCAC
CAGTCCTATCTCCCTAAGCAGT
Found at i:127474 original size:131 final size:131
Alignment explanation
Indices: 127120--127915 Score: 751
Period size: 131 Copynumber: 6.1 Consensus size: 131
127110 CTGAGGTTAC
* * *
127120 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGACGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
* *
127185 CAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT-TGTAGATCTTATCTCCCTAAGCA
66 CAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATAT-TAGATCCTATCTCCCTAAGCA
127249 GT
130 GT
* * * * * * *** **
127251 AGTGGAGCAGATCGCA-TC-A--AGTCTTATC-TCTCTAAGCAGTAGCGGAGCAGACAAAAGAAA
1 AGTGGAGCAGATCGAAGACGACGAATCTCATCTTC-CTAAGCAGTAGTGAAGCAGATTTAAGCCA
*
127311 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATATCCCTAAGCA
65 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCA
127376 GT
130 GT
* *
127378 AGTGGAGCAGATCAAAGACGACGAATCTCATCTTCCTAAGCAGTAGTGAATCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGACGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
*
127443 CAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAG
66 CAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAG
127508 T
131 T
*
127509 AGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGACGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
* * * *** *
127574 CAGTCCTATATCCCTAAGCAGTAGTGGCGCAGATCAAAGACGGT-GAAT-CTCATCTTCCTAAGC
66 CAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAG-ATCCT-ATCTCCCTAAGC
127637 AGT
129 AGT
* ** * * * * * * * **
127640 AGTGAAGCAGATTTAAG-CCACCAGTC-CTATCTCCCTAAGCAGTAGTGGAGCAG-GTCAATGAT
1 AGTGGAGCAGATCGAAGACGACGAATCTC-ATCTTCCTAAGCAGTAGTGAAGCAGATTTAA-GCC
** * * ** **** *
127702 ATTAGATCCTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGA-CGGCGAAT-CTCATCTTCCTA
64 ACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAG-ATCCT-ATCTCCCTA
127765 AGCAGT
126 AGCAGT
* ** * * * * * * ** **
127771 AGTGAAGCAGATTTAAG-CCACCAGTC-CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATA
1 AGTGGAGCAGATCGAAGACGACGAATCTC-ATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
** * * *
127834 TTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGAT-TGTAGATCTTATCTCCCTAAG
65 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATAT-TAGATCCTATCTCCCTAAG
127898 CAGT
128 CAGT
127902 AGTGGAGCAGATCG
1 AGTGGAGCAGATCG
127916 CATCAAGTCT
Statistics
Matches: 570, Mismatches: 78, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
126 2 0.00
127 106 0.19
128 2 0.00
129 5 0.01
130 36 0.06
131 413 0.72
132 6 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGACGACGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCAC
CAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAG
T
Found at i:127595 original size:218 final size:218
Alignment explanation
Indices: 127359--127831 Score: 856
Period size: 218 Copynumber: 2.2 Consensus size: 218
127349 AGATATTAGA
127359 TCCTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTCATCTTCCTAAGCAGTAG
1 TCCTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTCATCTTCCTAAGCAGTAG
*
127424 TGAATCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATATTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATATTAG
127489 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTA
127554 GTGAAGCAGATTTAAGCCACCAG
196 GTGAAGCAGATTTAAGCCACCAG
* **
127577 TCCTATATCCCTAAGCAGTAGTGGCGCAGATCAAAGACGGTGAATCTCATCTTCCTAAGCAGTAG
1 TCCTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTCATCTTCCTAAGCAGTAG
* *
127642 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAATGATATTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATATTAG
* *
127707 ATCCTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCGAATCTCATCTTCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTA
127772 GTGAAGCAGATTTAAGCCACCAG
196 GTGAAGCAGATTTAAGCCACCAG
* *
127795 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA
1 TCCTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGA
127832 TATTAGATCC
Statistics
Matches: 244, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
218 244 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (218 bp):
TCCTATATCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTCATCTTCCTAAGCAGTAG
TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATATTAG
ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTA
GTGAAGCAGATTTAAGCCACCAG
Found at i:128059 original size:127 final size:128
Alignment explanation
Indices: 127188--128061 Score: 585
Period size: 131 Copynumber: 6.8 Consensus size: 128
127178 AAGCCACCAG
* * *
127188 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAGTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAG
* * * *
127253 TGGAGCAGATCGCATCAAGTCTTATCTCTCTAAGCAGTAGCGGAGCAG-ACAAAAGAAACCAG-
66 TAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAAC-AAAGAAATCAGA
* * * * * *
127315 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATAT-TAGATCCTATATCCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAGTCGAAGAT-TGTAGATCTTATCTCCCTAAGCAATA
* * * * * * * * *** ** *
127379 GTGGAGCAGATCAAAGACGA-CGAATCTCATCTTCCTAAGCAGTAGTGAATCAGATTTAAGCCAC
65 GTAGAGCAGATC---G-C-ATCCAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAACAAAGAAAT
127443 CAG-
125 CAGA
* * * * * *
127446 TCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATAT-TAGATCCTATCTCCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAGTCGAAGAT-TGTAGATCTTATCTCCCTAAGCAATA
* * * * * * * * *** ** *
127510 GTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC
65 GTAGAGCAGATCGCA-TC--C-AGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAACAAAGAAATC
127575 AG-
126 AGA
* * * * ** * * *
127577 TCCTATATCCCTAAGCAGTAGTGGCGC-AGATCAAAGACGGT-GAATCTCATCTTCCTAAGCAGT
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAG-TCGAAGATTGTAG-ATCTTATCTCCCTAAGCAAT
* * * ** * *
127640 AGT-GAAGCAGATTTAAGCCA-CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAATGATA
64 AGTAG-AGCAGA--T-CG-CATCCAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAACAAAGAAA
*
127703 TTAGA
124 TCAGA
* * * * ** * * *
127708 TCCTATCTCCCTAAGTAGTAGTGGAGC-AGATTGAAGA-CGGCGAATCTCATCTTCCTAAGCAGT
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAG-TCGAAGATTGTAG-ATCTTATCTCCCTAAGCAAT
* * * ** *
127771 AGT-GAAGCAGATTTAAGCCA-CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATA
64 AGTAG-AGCAGA--T-CG-CATCCAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAACAAAGAAA
*
127834 TTAGA
124 TCAGA
* *
127839 TCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAGTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAG
* * *
127904 TGGAGCAGATCGCATCAAGTCTTATCTCCTTAAGCAGTAGCGGAGCA-AACAAAAGAAATCA-A
66 TAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAAC-AAAGAAATCAGA
* * * *
127966 TCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCTCTAAGCAATAG
1 TCCTATCTCCCTAAGCAGCAGTGGAGCAAGTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAG
128031 TAGAGCAGATCGCATCCAGTCTTATCTCCCT
66 TAGAGCAGATCGCATCCAGTCTTATCTCCCT
128062 GAAGTTACAG
Statistics
Matches: 642, Mismatches: 78, Indels: 54
0.83 0.10 0.07
Matches are distributed among these distances:
126 1 0.00
127 162 0.25
128 40 0.06
129 1 0.00
130 37 0.06
131 391 0.61
132 6 0.01
133 2 0.00
134 1 0.00
135 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (128 bp):
TCCTATCTCCCTAAGCAGCAGTGGAGCAAGTCGAAGATTGTAGATCTTATCTCCCTAAGCAATAG
TAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGAACAAAGAAATCAGA
Found at i:136882 original size:16 final size:16
Alignment explanation
Indices: 136861--136912 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
136851 TTTGGTTCGC
136861 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
136877 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
* *
136893 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
136909 TGTA
1 TGTA
136913 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:136998 original size:39 final size:43
Alignment explanation
Indices: 136893--137002 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
136883 GGATTAAAGG
136893 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTAAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
136938 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
136978 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
137003 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:137169 original size:18 final size:17
Alignment explanation
Indices: 137148--137182 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
137138 TTATTATTAA
*
137148 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
137166 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
137183 TCTTAAGANN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:137352 original size:47 final size:47
Alignment explanation
Indices: 137294--137442 Score: 157
Period size: 47 Copynumber: 3.2 Consensus size: 47
137284 TTTAAAATAA
*
137294 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
* * * * **
137341 TTGATAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAA
1 TTAATAATAAATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTC
*
137385 TTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTC
1 TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
137432 TTAATAATAAA
1 TTAATAATAAA
137443 ATGTTCTTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
44 21 0.27
45 13 0.17
46 13 0.17
47 31 0.40
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
TTAATAATAAATATAATTTAATAATGATATATAATTTCATAAAATTC
Found at i:137421 original size:44 final size:44
Alignment explanation
Indices: 137282--137421 Score: 142
Period size: 44 Copynumber: 3.1 Consensus size: 44
137272 NNNNNNNNNN
137282 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
** * * * * *
137326 AATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAAT-TTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATGATATAT
137373 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
137417 AATTT
1 AATTT
137422 CATAAAATTC
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 29 0.40
45 7 0.10
46 7 0.10
47 24 0.33
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (44 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
Found at i:137439 original size:91 final size:92
Alignment explanation
Indices: 137282--137461 Score: 335
Period size: 91 Copynumber: 2.0 Consensus size: 92
137272 NNNNNNNNNN
*
137282 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATA
*
137347 AT-AAATTTTCTTATATGAATTTATAC
66 ATAAAATGTTCTTATATGAATTTATAC
137373 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATA
137438 ATAAAATGTTCTTATATGAATTTA
66 ATAAAATGTTCTTATATGAATTTA
137462 CAAAAATAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 66 0.77
92 20 0.23
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (92 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATA
ATAAAATGTTCTTATATGAATTTATAC
Found at i:138474 original size:25 final size:22
Alignment explanation
Indices: 138454--138499 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
138444 CAATTCATGA
138454 TACATGACACGAAGAGCATTCAT
1 TACA-GACACGAAGAGCATTCAT
**
138477 TTGAGACACGAAGAGCATTCAT
1 TACAGACACGAAGAGCATTCAT
138499 T
1 T
138500 TGAATAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (22 bp):
TACAGACACGAAGAGCATTCAT
Found at i:138486 original size:22 final size:22
Alignment explanation
Indices: 138459--138502 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
138449 CATGATACAT
138459 GACACGAAGAGCATTCATTTGA
1 GACACGAAGAGCATTCATTTGA
138481 GACACGAAGAGCATTCATTTGA
1 GACACGAAGAGCATTCATTTGA
138503 ATAACAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (22 bp):
GACACGAAGAGCATTCATTTGA
Found at i:139350 original size:106 final size:107
Alignment explanation
Indices: 139156--139363 Score: 269
Period size: 106 Copynumber: 2.0 Consensus size: 107
139146 GGGCTCAGCC
* *
139156 AAAGCTATCATTATGCTTTGCCAAAAGCAAAGATAAGAGACCATTAAGTTAAAGCAATATTAACC
1 AAAGCTATCACTATGCTTTGCCAAAAGCAAAGAGAAGAGACCATTAAGTTAAAGCAATATTAACC
* *
139221 AAAATGGTAGCTCACCCATG-AAAAAGCATATAATAATGGCT
66 AAAATGATAGCTCACCCAGGAAAAAAGCATATAATAATGGCT
* * * * *** *
139262 AAAGCTATCACTATGTTTTGCTAAAAGCAAAGAGGAGAGACCATTGAG-TATAAGTTTTTTTAAC
1 AAAGCTATCACTATGCTTTGCCAAAAGCAAAGAGAAGAGACCATTAAGTTA-AAGCAATATTAAC
139326 CAAAATGATAGCT-ACCCCAGGAAAAAAGCATATAATAA
65 CAAAATGATAGCTCA-CCCAGGAAAAAAGCATATAATAA
139364 AGGCCAAACT
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
105 3 0.03
106 68 0.78
107 16 0.18
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (107 bp):
AAAGCTATCACTATGCTTTGCCAAAAGCAAAGAGAAGAGACCATTAAGTTAAAGCAATATTAACC
AAAATGATAGCTCACCCAGGAAAAAAGCATATAATAATGGCT
Found at i:142925 original size:2 final size:2
Alignment explanation
Indices: 142918--142942 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
142908 AGGAAGGACC
142918 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
142943 CTTTTCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Done.