Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 307 of 318
Found at i:95787868 original size:25 final size:27
Alignment explanation
Indices: 95787840--95787889 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
95787830 ATTTACACAT
95787840 ATTCATATTTTATT-TTT-TTTATTCA
1 ATTCATATTTTATTATTTATTTATTCA
*
95787865 ATTCATATTTTTTTATTTATTTATT
1 ATTCATATTTTATTATTTATTTATT
95787890 GTCCAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
26 3 0.14
27 6 0.27
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (27 bp):
ATTCATATTTTATTATTTATTTATTCA
Found at i:95787883 original size:23 final size:25
Alignment explanation
Indices: 95787840--95787885 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
95787830 ATTTACACAT
*
95787840 ATTCATATTTTATTTTTTTTATTCA
1 ATTCATATTTTATTTTATTTATTCA
95787865 ATTCATA-TTT-TTTTATTTATT
1 ATTCATATTTTATTTTATTTATT
95787886 TATTGTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 3 0.15
25 7 0.35
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (25 bp):
ATTCATATTTTATTTTATTTATTCA
Found at i:95788099 original size:21 final size:21
Alignment explanation
Indices: 95788074--95788134 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
95788064 TTCAATTTCC
95788074 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
95788095 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
95788116 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
95788135 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:95789387 original size:2 final size:2
Alignment explanation
Indices: 95789380--95789407 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95789370 TATTTTACTT
95789380 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
95789408 ATAACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:95810913 original size:57 final size:58
Alignment explanation
Indices: 95810845--95810955 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
95810835 GTGCCCACTG
*
95810845 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCACACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCACACACACAGTGCCTCAATT
* **
95810902 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCACACACACAGTGCCTC
95810956 TAATCATTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 30 0.61
58 19 0.39
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAACTCACACACACAGTGCCTCAATT
Found at i:95811170 original size:43 final size:43
Alignment explanation
Indices: 95811109--95811244 Score: 200
Period size: 43 Copynumber: 3.2 Consensus size: 43
95811099 CCTTGCTCGA
** * * *
95811109 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCTAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
95811152 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
95811195 ATCATCGGCACGAAGCCTGCTAGGCACAAAGGGCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
95811238 ATCACCG
1 ATCACCG
95811245 AGTTTCATGC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:95813954 original size:27 final size:26
Alignment explanation
Indices: 95813850--95813972 Score: 189
Period size: 26 Copynumber: 4.8 Consensus size: 26
95813840 CCTCTTTAAT
**
95813850 AACTGGGG-A-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
95813874 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
95813899 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
95813925 AACTGGGGCATAAGCTCTTTTTCAATA
1 AACTGGGGCATAAGC-CCTTTTCAATA
95813952 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
95813973 GGACTTCCTC
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.09
25 24 0.26
26 35 0.38
27 25 0.27
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:95814047 original size:20 final size:20
Alignment explanation
Indices: 95814022--95814088 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
95814012 TTATGAGTAC
*
95814022 ATCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
95814042 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
95814062 ATCATGAGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
95814082 ATCATGT
1 ATCATGT
95814089 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:95821714 original size:25 final size:25
Alignment explanation
Indices: 95821686--95821756 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
95821676 CCTCTTTAAT
**
95821686 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
* * *
95821711 AACTAGGGCAAATCTCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
95821736 AACAGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
95821757 GCACTTCCTC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:95821831 original size:20 final size:20
Alignment explanation
Indices: 95821806--95821852 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
95821796 TTATGAGTAC
95821806 ATCATGTGCATATCATAT-A
1 ATCATGTGCATATCATATCA
* *
95821825 TATCATGAGCATTTCATATCA
1 -ATCATGTGCATATCATATCA
95821846 ATCATGT
1 ATCATGT
95821853 ATATCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:95828001 original size:14 final size:13
Alignment explanation
Indices: 95827978--95828010 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
95827968 GGGATATCAA
95827978 AACAAGAATTAAG
1 AACAAGAATTAAG
95827991 AACACAGAATTAAG
1 AACA-AGAATTAAG
95828005 AACAAG
1 AACAAG
95828011 TGAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:95837805 original size:23 final size:23
Alignment explanation
Indices: 95837773--95837824 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
95837763 CTCGGGAATA
95837773 TTAT-CGTTGATTCTTTTTATAG
1 TTATCCGTTGATTCTTTTTATAG
95837795 TTATCCGTTGATTCTTTTTATAG
1 TTATCCGTTGATTCTTTTTATAG
95837818 TTATCCG
1 TTATCCG
95837825 AGGTAATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.56
Consensus pattern (23 bp):
TTATCCGTTGATTCTTTTTATAG
Found at i:95843772 original size:32 final size:32
Alignment explanation
Indices: 95843736--95843824 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 32
95843726 CATATTATTT
95843736 TATATAAATTTTTTCTTTTAAATCTATTTATG
1 TATATAAATTTTTTCTTTTAAATCTATTTATG
*
95843768 TATATATATATTTTTTTTCTTTTAAATTTATTTATG
1 TATATA-A-A--TTTTTTCTTTTAAATCTATTTATG
95843804 TATAT-AATTTGTTTCTTTTAA
1 TATATAAATTT-TTTCTTTTAA
95843825 GGACTCTATT
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
31 3 0.06
32 16 0.31
33 2 0.04
34 2 0.04
36 28 0.55
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63
Consensus pattern (32 bp):
TATATAAATTTTTTCTTTTAAATCTATTTATG
Found at i:95843946 original size:22 final size:20
Alignment explanation
Indices: 95843921--95843960 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95843911 TTCATTTCAT
95843921 ATATATCATTATTTTTAAATCA
1 ATATAT-ATTA-TTTTAAATCA
*
95843943 ATATATTTTATTTTAAAT
1 ATATATATTATTTTAAAT
95843961 TATTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATATTATTTTAAATCA
Found at i:95847746 original size:36 final size:36
Alignment explanation
Indices: 95847699--95847773 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
95847689 GAACATTTGT
* *
95847699 TAAAGCATGATTGTGAATGAATTAAACCAAGCGTTG
1 TAAAGCATGATTGTGAACGAATTAAACCAAGAGTTG
95847735 TAAAGCATGATTGTGAACGAATTAAACCAAGAGTTG
1 TAAAGCATGATTGTGAACGAATTAAACCAAGAGTTG
95847771 TAA
1 TAA
95847774 TTGTTCTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (36 bp):
TAAAGCATGATTGTGAACGAATTAAACCAAGAGTTG
Found at i:95861974 original size:24 final size:25
Alignment explanation
Indices: 95861942--95861990 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
95861932 AAGTACGACG
*
95861942 CCATTGTTGAATTTTCAG-AACAAT
1 CCATTGTTGAATTTTAAGAAACAAT
95861966 CCATTGTTGAATTTTAAGAAACAAT
1 CCATTGTTGAATTTTAAGAAACAAT
95861991 GTCACACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (25 bp):
CCATTGTTGAATTTTAAGAAACAAT
Found at i:95864313 original size:18 final size:20
Alignment explanation
Indices: 95864290--95864327 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
95864280 ACGTGGCAGT
95864290 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
95864308 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
95864328 AGATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:95865642 original size:18 final size:18
Alignment explanation
Indices: 95865606--95865644 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
95865596 ACCAGTTTAA
*
95865606 TTAAAAATTATTAAGATT
1 TTAAAAATTATTAAAATT
*
95865624 TTAAAAATT-TTAAAAAT
1 TTAAAAATTATTAAAATT
95865641 TTAA
1 TTAA
95865645 TCATCTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAAAAATTATTAAAATT
Found at i:95866764 original size:2 final size:2
Alignment explanation
Indices: 95866757--95866791 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
95866747 AAGTATAATA
95866757 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
95866792 ATTTGATCTT
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:95871424 original size:30 final size:30
Alignment explanation
Indices: 95871372--95871429 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
95871362 CATGGCCATG
* *
95871372 ACACACGGGTGTGTGGTCTACCCGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCATGTGTC
*
95871402 ACACATGGGCGTGTGGAT-TACCCATGTG
1 ACACACGGGCGTGTGG-TCTACCCATGTG
95871430 GAACTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCCATGTGTC
Found at i:95874157 original size:13 final size:13
Alignment explanation
Indices: 95874133--95874273 Score: 54
Period size: 15 Copynumber: 10.1 Consensus size: 13
95874123 TAAAAATGAC
95874133 ATAATA-ATATAA
1 ATAATATATATAA
95874145 ATAATATATAT-A
1 ATAATATATATAA
* *
95874157 ATATGTATATAAAA
1 ATA-ATATATATAA
*
95874171 ATAATGTATAGTATAT
1 ATAA--TATA-TATAA
*
95874187 ATATTAATATATAA
1 ATAAT-ATATATAA
* * *
95874201 TATAAGCACAAATATA
1 -ATAA-TATATATA-A
*
95874217 ATAACCATATATAA
1 ATAA-TATATATAA
*
95874231 ATAATA-ATGTAAA
1 ATAATATATAT-AA
95874244 ATAATAATAATATAAA
1 ATAAT-AT-ATAT-AA
*
95874260 ATAATATATTTAA
1 ATAATATATATAA
95874273 A
1 A
95874274 ACGTAAGATA
Statistics
Matches: 97, Mismatches: 18, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
12 13 0.13
13 21 0.22
14 18 0.19
15 27 0.28
16 18 0.19
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (13 bp):
ATAATATATATAA
Found at i:95874165 original size:9 final size:9
Alignment explanation
Indices: 95874136--95874204 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
95874126 AAATGACATA
*
95874136 ATAATATAA
1 ATAATATAT
95874145 ATAATATAT
1 ATAATATAT
*
95874154 ATAATATGT
1 ATAATATAT
* *
95874163 AT-ATAAAA
1 ATAATATAT
*
95874171 ATAATGTAT
1 ATAATATAT
95874180 AGT-ATATAT
1 A-TAATATAT
*
95874189 ATTA-ATAT
1 ATAATATAT
95874197 ATAATATA
1 ATAATATA
95874205 AGCACAAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 13 0.28
9 32 0.70
10 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (9 bp):
ATAATATAT
Found at i:95874169 original size:24 final size:24
Alignment explanation
Indices: 95874139--95874203 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 24
95874129 TGACATAATA
95874139 ATATAAATAATATATATAATATGT
1 ATATAAATAATATATATAATATGT
*
95874163 ATATAAA-AATA-ATGT-ATA-GT
1 ATATAAATAATATATATAATATGT
* *
95874183 ATATATATTA-ATATATAATAT
1 ATATAAATAATATATATAATAT
95874204 AAGCACAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
20 9 0.27
21 7 0.21
22 6 0.18
23 4 0.12
24 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (24 bp):
ATATAAATAATATATATAATATGT
Found at i:95874248 original size:30 final size:30
Alignment explanation
Indices: 95874214--95874274 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
95874204 AAGCACAAAT
*
95874214 ATAATAACCATATATAAATAATA-ATGTAAA
1 ATAATAACAATATA-AAATAATATATGTAAA
* *
95874244 ATAATAATAATATAAAATAATATATTTAAA
1 ATAATAACAATATAAAATAATATATGTAAA
95874274 A
1 A
95874275 CGTAAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAACAATATAAAATAATATATGTAAA
Found at i:95874251 original size:16 final size:16
Alignment explanation
Indices: 95874230--95874265 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
95874220 ACCATATATA
*
95874230 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
95874246 AATAATAATATAAAAT
1 AATAATAATATAAAAT
95874262 AATA
1 AATA
95874266 TATTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:95874390 original size:25 final size:25
Alignment explanation
Indices: 95874356--95874409 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
95874346 ATAATATATG
95874356 ATAAAAATATAAGTAGTA-TTTTTTA
1 ATAAAAATATAAGTA-TAGTTTTTTA
* *
95874381 ATAATAATATATGTATAGTTTTTT-
1 ATAAAAATATAAGTATAGTTTTTTA
95874405 ATAAA
1 ATAAA
95874410 TAGATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (25 bp):
ATAAAAATATAAGTATAGTTTTTTA
Found at i:95877590 original size:18 final size:18
Alignment explanation
Indices: 95877569--95877611 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
95877559 ATAATTTAAA
95877569 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
95877587 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
95877605 ATGTAAA
1 ATATAAA
95877612 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:95877715 original size:19 final size:20
Alignment explanation
Indices: 95877691--95877732 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
95877681 CAAACACTGA
95877691 AAAAGTAAATCATTTTC-AG
1 AAAAGTAAATCATTTTCTAG
95877710 AAAAGTAAATCATTTTCTAG
1 AAAAGTAAATCATTTTCTAG
95877730 AAA
1 AAA
95877733 TTATTTTCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCTAG
Found at i:95892858 original size:2 final size:2
Alignment explanation
Indices: 95892809--95892839 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
95892799 TGGTATTTAA
*
95892809 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95892840 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95893426 original size:21 final size:20
Alignment explanation
Indices: 95893401--95893473 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 20
95893391 AGGGTTTCTT
**
95893401 GGTTTTTTTTTTGGGGGGTTA
1 GGTTTTTTTTTT-TTGGGTTA
95893422 GGTTTTTTTTTTTTGGGTTA
1 GGTTTTTTTTTTTTGGGTTA
*
95893442 GGTTTTTTCTTTTTTTGGTTA
1 GGTTTTTT-TTTTTTGGGTTA
95893463 GGTTTTTTTTT
1 GGTTTTTTTTT
95893474 GGGAGGGCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.04, C:0.01, G:0.26, T:0.68
Consensus pattern (20 bp):
GGTTTTTTTTTTTTGGGTTA
Found at i:95893429 original size:20 final size:20
Alignment explanation
Indices: 95893404--95893476 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
95893394 GTTTCTTGGT
95893404 TTTTTTTTTGGGGGGTTAGG
1 TTTTTTTTTGGGGGGTTAGG
***
95893424 TTTTTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGGGGTTAGG
****
95893444 TTTTTTCTTTTTTTGGTTAGG
1 TTTTTT-TTTGGGGGGTTAGG
95893465 TTTTTTTTTGGG
1 TTTTTTTTTGGG
95893477 AGGGCTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 26 0.58
21 19 0.42
ACGTcount: A:0.04, C:0.01, G:0.27, T:0.67
Consensus pattern (20 bp):
TTTTTTTTTGGGGGGTTAGG
Found at i:95894333 original size:30 final size:30
Alignment explanation
Indices: 95894297--95894358 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
95894287 TTTTGAAAAA
95894297 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
95894327 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
95894357 CA
1 CA
95894359 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:95894477 original size:14 final size:14
Alignment explanation
Indices: 95894458--95894488 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95894448 TTGATTGTTG
95894458 AAAACAGAATTTGA
1 AAAACAGAATTTGA
*
95894472 AAAACAGATTTTGA
1 AAAACAGAATTTGA
95894486 AAA
1 AAA
95894489 TACCTCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (14 bp):
AAAACAGAATTTGA
Found at i:95894674 original size:77 final size:75
Alignment explanation
Indices: 95894508--95894790 Score: 299
Period size: 77 Copynumber: 3.7 Consensus size: 75
95894498 ATGTGACCCG
* * *
95894508 AGGCTCAACTC-ACATCTCGCAATGTGAGTTGATTTTTTTGAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCAAC-TCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTG--AAAATACCT
* *
95894572 CAGTGTGTGATCTGA
62 CAG-GCGTGATCTCA
*
95894587 A-GCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCAACTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
95894651 GCGCGTGAGC-CA
64 G-GCGTGATCTCA
* * * *
95894663 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAAGAGAAATTGAAAATACCTCA-A
1 AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGG
**
95894727 CGTG-TCTTG
66 CGTGATCTCA
* ** *
95894736 AGGTTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAA
1 AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA
95894791 ATGGAAATTG
Statistics
Matches: 178, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
72 22 0.12
73 32 0.18
75 19 0.11
76 12 0.07
77 45 0.25
78 37 0.21
79 11 0.06
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (75 bp):
AGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGG
CGTGATCTCA
Found at i:95894928 original size:82 final size:86
Alignment explanation
Indices: 95894734--95895710 Score: 476
Period size: 88 Copynumber: 11.4 Consensus size: 86
95894724 CAACGTGTCT
* ** * *
95894734 TGAGGTTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTG-AAAACAGAAATTGAAAAATGGAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTG--AAACGGAA
* *
95894797 ATTGAAAATACCTCGGCGTGTGATC
64 A-T-AAAAAACCTCAGCGTGTGATC
* * *
95894822 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTG-AA-GTAAA-
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAACGGAAAT
*
95894883 AAAAAACCTCAGTGTGTGATC
66 AAAAAACCTCAGCGTGTGATC
* * *
95894904 TGAAGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACGGA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTG--AAACGGA
* *
95894969 AATTGAAAATACCTCGGCGTGTGATC
63 AA-T-AAAAAACCTCAGCGTGTGATC
*
95894995 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTG--A---AAAT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAACGGAAAT
* *** *
95895055 -----AGCTCAGCACCTGAGC
66 AAAAAACCTCAGCGTGTGATC
** * **
95895071 CAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTGAAAGGCAGAAATTGAAAAAC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAAACAGAAATTG--AAAC
* * *
95895136 GGAAATTGAAAATACCTCGGCGTGTGACC
60 GGAAA-T-AAAAAACCTCAGCGTGTGATC
* * * *
95895165 TGAGGCTCAACTCGCCGCTCGCAATACGAGTTGACTTTTTTG-ACAACAGAAATT------GAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAACGGAAA
* *
95895223 T----TACCTCAGCGTGT--CC
65 TAAAAAACCTCAGCGTGTGATC
* **
95895239 TGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACG
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAAACAGAAATTG--AAACG
* * *
95895304 GAAATTGAAAATACCTCGGCGTGTGACC
61 GAAA-T-AAAAAACCTCAGCGTGTGATC
* * * *
95895332 TGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTG-ACAACAGAAATT------GAAAT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAACGGAAAT
* *
95895390 ----TACCTCAG-GTGTCCTGAGGC
66 AAAAAACCTCAGCGTG---TGA-TC
* * * * * * *
95895410 TCA-ACTCACCTCTCGCAATAT-G-AGT-TGA-TT--TTTTTCTGAAAGACAGAAATTGAAAAAC
1 TGAGGCTCAACTCAC-C--TCTCGCAATATGAGTTGATTTTT-TGAAAAACAGAAATTG--AAAC
* * *
95895468 GGAAATTGAAAATACCTCGGCGTGT-AAC
60 GGAAA-T-AAAAAACCTCAGCGTGTGATC
* * * * * * *
95895496 TTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGA
1 -TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAA-ATTG-AAACGGA
* * *
95895561 AATTGAAAATACCTC-G-GCGTGACC
63 AA-T-AAAAAACCTCAGCGTGTGATC
* * * * * *
95895585 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAAAAACATAATAATGAAGACAGAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAA-ATTGAA-ACGGAA
* * *
95895650 ATTGAAAATACCTC-G-GCGTGACC
64 A-T-AAAAAACCTCAGCGTGTGATC
95895673 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
95895711 GAAAAAGTAG
Statistics
Matches: 709, Mismatches: 98, Indels: 164
0.73 0.10 0.17
Matches are distributed among these distances:
74 40 0.06
75 9 0.01
76 72 0.10
77 22 0.03
78 6 0.01
79 1 0.00
80 22 0.03
81 5 0.01
82 55 0.08
83 3 0.00
84 22 0.03
85 11 0.02
86 6 0.01
87 13 0.02
88 173 0.24
89 25 0.04
90 75 0.11
91 79 0.11
93 32 0.05
94 38 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (86 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAACGGAAAT
AAAAAACCTCAGCGTGTGATC
Found at i:95894962 original size:14 final size:14
Alignment explanation
Indices: 95894943--95894977 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
95894933 GTTGATTTTT
*
95894943 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
95894957 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
95894971 TTGAAAA
1 TTGAAAA
95894978 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:95895038 original size:76 final size:76
Alignment explanation
Indices: 95894957--95895110 Score: 209
Period size: 76 Copynumber: 2.0 Consensus size: 76
95894947 AAGACAGAAA
* * *** * **
95894957 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACCTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
*
95895022 GAGTTGATTTT
66 GAGTCGATTTT
* *
95895033 TTGAAAGACAGAAATTGAAAATAGCTCAGCACCTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACCTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
95895098 GAGTCGATTTT
66 GAGTCGATTTT
95895109 TT
1 TT
95895111 TTTTGAAAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (76 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACCTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTCGATTTT
Found at i:95895263 original size:74 final size:75
Alignment explanation
Indices: 95895137--95895279 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
95895127 TTGAAAAACG
* * *
95895137 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGACTCAACTCACCGCTCGCAATACGAGTTGACTT
95895202 TTTTGACAACA
65 TTTTGACAACA
* * * *
95895213 GAAATTGAAATTACCTCAGCGTGT-CCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGACTCAACTCACCGCTCGCAATACGAGTTGACTTT
95895277 TTT
66 TTT
95895280 TTGAAAGGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 38 0.63
76 22 0.37
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGACTCAACTCACCGCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:95895280 original size:76 final size:74
Alignment explanation
Indices: 95895137--95895464 Score: 207
Period size: 76 Copynumber: 4.1 Consensus size: 74
95895127 TTGAAAAACG
* * * * * *
95895137 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGACTT
1 GAAATTGAAATTACCTCAGCGTGT--CCTGAGACTCAACTCACCTCTCGCAATACGAGTTGATTT
95895202 TTTTGACAACA
64 TTTTGACAACA
*
95895213 GAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATACGAGTTGA--TTT
95895278 TTTTGA-AAGGCA
64 TTTTGACAA--CA
** * * * * * * *
95895290 GAAATTGAAAAACGGAAATTGAAAAT-A-CCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCG
1 GAAATT--------GAAATT--ACCTCAGCGT-GTCCTGAGA-CTCA-ACTC-A----CCTCTCG
95895353 CAATACGAGTTGA-TTTTTTGACAACA
48 CAATACGAGTTGATTTTTTTGACAACA
* *
95895379 GAAATTGAAATTACCTCAG-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATACGAGTTGA-TTTT
*
95895443 TTCTGAAAGACA
65 TT-TGACA-ACA
95895455 GAAATTGAAA
1 GAAATTGAAA
95895465 AACGGAAATT
Statistics
Matches: 194, Mismatches: 29, Indels: 58
0.69 0.10 0.21
Matches are distributed among these distances:
72 18 0.09
74 37 0.19
75 6 0.03
76 44 0.23
77 11 0.06
78 3 0.02
79 7 0.04
80 2 0.01
81 6 0.03
85 8 0.04
86 7 0.04
87 5 0.03
88 3 0.02
89 9 0.05
90 8 0.04
91 2 0.01
93 18 0.09
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (74 bp):
GAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTGACAACA
Found at i:95895425 original size:72 final size:74
Alignment explanation
Indices: 95895304--95895443 Score: 212
Period size: 72 Copynumber: 1.9 Consensus size: 74
95895294 TTGAAAAACG
* *
95895304 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
95895369 TTTGACAACA
65 TTTGACAACA
* * *
95895379 GAAATTGAAATTACCTCAG-GTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
95895442 TT
66 TT
95895444 TCTGAAAGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
72 39 0.65
74 4 0.07
75 17 0.28
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (74 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTGACAACA
Found at i:95895435 original size:165 final size:164
Alignment explanation
Indices: 95894623--95895710 Score: 1244
Period size: 170 Copynumber: 6.5 Consensus size: 164
95894613 GTTGATTTTT
* * * * * *
95894623 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATA
* * * * * **
95894687 TAAGTTGATTTTTTGAAAAGAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTTC
65 TGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
95894752 TCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAA
130 TCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
* *
95894784 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * *
95894849 GAGTTGA-TTTTTGAAAAATATAAATTGAAGTAAAAAAAAACCTCAGTGTGTGATCTGAAGCTCA
66 GAGTTGATTTTTTG-AAAACAGAAATT---G----AAAATACCTCAGCGTGT--CCTGAGGCTCA
*
95894913 ACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
121 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
*
95894957 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
95895022 GAGTTGATTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCACCTGAGCC-AAGGCTCAACTCAC
66 GAGTTGATTTTTTGAAA-ACAGAAATTGAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCAC
* *
95895086 CTCTCGCAATATGAGTCGATTTTTTTTTTGAAAGGCAGAAA
127 CTCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAA
* * *
95895127 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
95895192 GAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACCTC
66 GAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
95895257 TCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAA
130 TCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAA
* * *
95895294 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* *
95895359 GAGTTGATTTTTTGACAACAGAAATTGAAATTACCTCAG-GTGTCCTGAGGCTCAACTCACCTCT
66 GAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
95895423 CGCAATATGAGTTGATTTTTTTCTGAAAGACAGAAA
131 CGCAATATGAGTTGA-TTTTTT-TGAAAGACAGAAA
* * * *
95895459 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTAACTTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* *
95895524 GAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAG
66 GAGTTGA---TTT--------T--T--TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAG
* * * * *
95895589 GCTCAACTCACCTCTCGCAATATGAGCTGA-TTCTTTCAAAAACATAATA
116 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAA-A
* * *
95895638 ATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
95895700 GAGTTGATTTT
66 GAGTTGATTTT
95895711 GAAAAAGTAG
Statistics
Matches: 815, Mismatches: 70, Indels: 80
0.84 0.07 0.08
Matches are distributed among these distances:
160 7 0.01
161 71 0.09
164 8 0.01
165 121 0.15
166 32 0.04
167 133 0.16
168 51 0.06
169 2 0.00
170 135 0.17
171 10 0.01
172 8 0.01
173 84 0.10
174 13 0.02
176 37 0.05
178 34 0.04
179 7 0.01
180 24 0.03
181 38 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (164 bp):
TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
Found at i:95895607 original size:181 final size:175
Alignment explanation
Indices: 95895375--95895708 Score: 481
Period size: 181 Copynumber: 1.9 Consensus size: 175
95895365 ATTTTTTGAC
* * *
95895375 AACAGAAATTGAAATTACCTCAGGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-T
* * * * *
95895440 TTTTTCTGAAAGACAGAA-ATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTAACTTGAGGCT
65 TCTTTC--AAAAACAGAATAATG-AAAACAGAAATTGAAAATACCTCGGCGTG--ACCTGAGGCT
*
95895504 CAACTCGCCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
125 CAACTCACCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
*
95895555 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAG-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
95895620 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
65 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
*
95895685 CACCTCTCGCAATATGAGTTGATT
130 CACCTCTCGCAATACGAGTTGATT
95895709 TTGAAAAAGT
Statistics
Matches: 139, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
176 36 0.26
178 35 0.25
179 3 0.02
180 27 0.19
181 38 0.27
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (175 bp):
AACAGAAATTGAAAATACCTCAGGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
CTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTC
ACCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
Found at i:95895620 original size:88 final size:88
Alignment explanation
Indices: 95895375--95895708 Score: 483
Period size: 88 Copynumber: 3.8 Consensus size: 88
95895365 ATTTTTTGAC
* * *
95895375 AACAGAAATTGAAATTACCTCAG-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * *
95895439 TTTTTTCTGAAAGACAGAA-ATTGAAA
65 TTCTTTC--AAAAACATAATAATG-AA
* * * *
95895465 AACGGAAATTGAAAATACCTCGGCGTGTAACTTGAGGCTCAACTCGCCTCTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCGGCGTG--ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
95895530 ATTCTTTCAAAAACATAATAATGAA
64 ATTCTTTCAAAAACATAATAATGAA
*
95895555 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
95895620 TCTTTCAAAAACATAATAATGAA
66 TCTTTCAAAAACATAATAATGAA
*
95895643 GACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
95895708 T
66 T
95895709 TTGAAAAAGT
Statistics
Matches: 222, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
88 121 0.55
90 56 0.25
91 6 0.03
92 6 0.03
93 33 0.15
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TCTTTCAAAAACATAATAATGAA
Found at i:95895895 original size:71 final size:71
Alignment explanation
Indices: 95895733--95895925 Score: 228
Period size: 71 Copynumber: 2.7 Consensus size: 71
95895723 ATTAAAAGGT
* * * * * * * *
95895733 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TATT-AAAAACAAAAATTGAAAATACCTCAGCATGT
*
95895798 CCTGAGGC
64 CCCGAGGC
*
95895806 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCATG-C
1 TCAACTCACCTCTCGCAATATGAGTTGATATTAAAA-ACAAAAATTGAAAATACCTCAGCATGTC
95895870 CCGAGGC
65 CCGAGGC
* * *
95895877 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATATTAAAAACAAAAATTGAAAA
95895926 GGCTTAAGTC
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
69 4 0.04
70 9 0.09
71 42 0.40
72 23 0.22
73 27 0.26
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATATTAAAAACAAAAATTGAAAATACCTCAGCATGTCC
CGAGGC
Found at i:95913024 original size:26 final size:26
Alignment explanation
Indices: 95912988--95913040 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95912978 GAACGCTTGG
95912988 AATCAAATTCATAGAATGAAAATGTA
1 AATCAAATTCATAGAATGAAAATGTA
95913014 AATCAAATTCATAGAATGAAAATGTA
1 AATCAAATTCATAGAATGAAAATGTA
95913040 A
1 A
95913041 CACCCCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (26 bp):
AATCAAATTCATAGAATGAAAATGTA
Found at i:95913294 original size:20 final size:20
Alignment explanation
Indices: 95913265--95913317 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
95913255 AGATAGGGGC
* * *
95913265 ACACGACCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCCTGGA
95913285 ACACGCCCGTGTGGCCTGGA
1 ACACGCCCGTGTGGCCTGGA
*
95913305 ACATGCCCGTGTG
1 ACACGCCCGTGTG
95913318 CTACAGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCCTGGA
Found at i:95913625 original size:4 final size:4
Alignment explanation
Indices: 95913616--95913642 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
95913606 CTTAGCAAAT
95913616 ATTC ATTC ATTC ATTC ATTC ATTC ATT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATT
95913643 ACCTCTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTC
Found at i:95915170 original size:17 final size:20
Alignment explanation
Indices: 95915148--95915189 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
95915138 AAACTCTAAA
95915148 TTTCCC-TTTTC-TT-TTTC
1 TTTCCCTTTTTCGTTCTTTC
95915165 TTTCCCTTTTTCGTTCTTTC
1 TTTCCCTTTTTCGTTCTTTC
95915185 TTTCC
1 TTTCC
95915190 TTGCTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 2 0.09
20 9 0.41
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTCCCTTTTTCGTTCTTTC
Found at i:95915238 original size:25 final size:24
Alignment explanation
Indices: 95915198--95915248 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
95915188 CCTTGCTTTG
*
95915198 TTTCGTTTTTCATTCTTTCTTTTA
1 TTTCGTTTTTCATTCTTTATTTTA
*
95915222 TTTCTTTTATTCATTCTTTATTTTA
1 TTTCGTTT-TTCATTCTTTATTTTA
95915247 TT
1 TT
95915249 ATATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCGTTTTTCATTCTTTATTTTA
Found at i:95917686 original size:17 final size:20
Alignment explanation
Indices: 95917664--95917707 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
95917654 AAACTCTAAA
95917664 TTTCCCTTTT-C-TT-TTTC
1 TTTCCCTTTTACTTTCTTTC
95917681 TTTCCCTTTTACTTTCTTTC
1 TTTCCCTTTTACTTTCTTTC
95917701 TTTCCCT
1 TTTCCCT
95917708 GCTCTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCCCTTTTACTTTCTTTC
Found at i:95917736 original size:13 final size:13
Alignment explanation
Indices: 95917720--95917774 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
95917710 TCTGTTTCGT
*
95917720 TTTTCATTCTTTC
1 TTTTCATTCTTTA
95917733 TTTTCATTCTTTA
1 TTTTCATTCTTTA
95917746 TTTT-ATTTCTTT-
1 TTTTCA-TTCTTTA
*
95917758 TATTCATTCTTTA
1 TTTTCATTCTTTA
95917771 TTTT
1 TTTT
95917775 ATTATATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.28
13 26 0.72
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTCTTTA
Found at i:95917769 original size:25 final size:26
Alignment explanation
Indices: 95917726--95917777 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
95917716 TCGTTTTTCA
*
95917726 TTCTTTCTTTTCATTCTTTATTTTAT
1 TTCTTTCTATTCATTCTTTATTTTAT
95917752 TTCTTT-TATTCATTCTTTATTTTAT
1 TTCTTTCTATTCATTCTTTATTTTAT
95917777 T
1 T
95917778 ATATTGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (26 bp):
TTCTTTCTATTCATTCTTTATTTTAT
Found at i:95917782 original size:21 final size:22
Alignment explanation
Indices: 95917735--95917782 Score: 53
Period size: 25 Copynumber: 2.1 Consensus size: 22
95917725 ATTCTTTCTT
*
95917735 TTCATTCTTTATTTTATTTCTTTTA
1 TTCATTCTTTATTTTA--T-TTATA
95917760 TTCATTCTTTATTTTA-TTATA
1 TTCATTCTTTATTTTATTTATA
95917781 TT
1 TT
95917783 GTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.27
25 16 0.73
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (22 bp):
TTCATTCTTTATTTTATTTATA
Found at i:95917791 original size:38 final size:37
Alignment explanation
Indices: 95917714--95917791 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
95917704 CCCTGCTCTG
* * *
95917714 TTTCGTTTTTCATTCTTTCTTTTCATTCTTTATTTTA
1 TTTCGTTTTTCATTCTTTATTTTCATTATTTATTATA
* *
95917751 TTTCTTTTATTCATTCTTTATTTT-ATTATATTGTTATA
1 TTTCGTTT-TTCATTCTTTATTTTCATTAT-TTATTATA
95917789 TTT
1 TTT
95917792 AGTAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 11 0.32
38 23 0.68
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.71
Consensus pattern (37 bp):
TTTCGTTTTTCATTCTTTATTTTCATTATTTATTATA
Found at i:95934170 original size:24 final size:24
Alignment explanation
Indices: 95934143--95934213 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
95934133 CTAGATTTCC
**
95934143 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
95934167 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
95934191 TCCCTTATCAACCCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
95934214 CTCATGACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.39, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:95940464 original size:27 final size:26
Alignment explanation
Indices: 95940429--95940540 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
95940419 AGCATGGCTG
* *
95940429 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
95940455 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
95940483 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
95940510 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
95940537 CCAG
1 CCAG
95940541 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95940521 original size:54 final size:54
Alignment explanation
Indices: 95940429--95940540 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
95940419 AGCATGGCTG
* *
95940429 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
95940483 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
95940537 CCAG
1 CCAG
95940541 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:95941995 original size:24 final size:24
Alignment explanation
Indices: 95941968--95942038 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
95941958 CTAAATTTCC
**
95941968 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
95941992 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
95942016 TCCCTTATCAACCCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
95942039 CTCCTGGCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.39, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:95943394 original size:14 final size:14
Alignment explanation
Indices: 95943375--95943405 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
95943365 AGTAAAACAG
95943375 ATTCTTAAATATTT
1 ATTCTTAAATATTT
95943389 ATTCTTAAATATTT
1 ATTCTTAAATATTT
95943403 ATT
1 ATT
95943406 AAAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTCTTAAATATTT
Found at i:95944182 original size:43 final size:40
Alignment explanation
Indices: 95944096--95944194 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 40
95944086 CGACCTCGAG
*
95944096 TCGATGAGGCACTATATGTGCCGTAATATTGCTTCGGATAAT
1 TCGATGAGGCAC--TATGTGCCGTAATATTGCTTCGAATAAT
* * *
95944138 TCTGATGAGGCACTATGTGTCGTATTATTGCTTTGAATTAAAT
1 TC-GATGAGGCACTATGTGCCGTAATATTGCTTCGAA-T-AAT
*
95944181 TCGATGAGGTACTA
1 TCGATGAGGCACTA
95944195 GGTACCGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 20 0.41
42 14 0.29
43 15 0.31
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (40 bp):
TCGATGAGGCACTATGTGCCGTAATATTGCTTCGAATAAT
Found at i:95944503 original size:28 final size:28
Alignment explanation
Indices: 95944471--95944526 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
95944461 TTATTGAAAG
95944471 ATTAATTGTGCAAATTGAATATGCATAA
1 ATTAATTGTGCAAATTGAATATGCATAA
95944499 ATTAATTGTGCAAATTGAATATGCATAA
1 ATTAATTGTGCAAATTGAATATGCATAA
95944527 TTTACTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (28 bp):
ATTAATTGTGCAAATTGAATATGCATAA
Found at i:95947732 original size:25 final size:25
Alignment explanation
Indices: 95947699--95947746 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95947689 TTATAATATG
* * *
95947699 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
95947724 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
95947747 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:95947818 original size:19 final size:20
Alignment explanation
Indices: 95947790--95947847 Score: 100
Period size: 19 Copynumber: 3.0 Consensus size: 20
95947780 TAAACATGGT
95947790 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
95947810 ATG-ATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
95947829 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
95947848 TGTATTCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:95947827 original size:11 final size:11
Alignment explanation
Indices: 95947794--95947848 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
95947784 CATGGTATGT
95947794 ATGATATGCAC
1 ATGATATGCAC
*
95947805 ATGACATG---
1 ATGATATGCAC
95947813 ATGATATGCAC
1 ATGATATGCAC
*
95947824 ATGATATG--T
1 ATGATATGCAC
95947833 ATGATATGCAC
1 ATGATATGCAC
95947844 ATGAT
1 ATGAT
95947849 GTATTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 7 0.20
9 8 0.23
11 20 0.57
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:95947838 original size:20 final size:20
Alignment explanation
Indices: 95947783--95947848 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
95947773 ATTTTGATAA
*
95947783 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95947803 ACATGACATG-ATGATATGC
1 ACATGATATGTATGATATGC
95947822 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
95947842 ACATGAT
1 ACATGAT
95947849 GTATTCATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 18 0.43
20 24 0.57
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:95947956 original size:23 final size:24
Alignment explanation
Indices: 95947898--95948016 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
95947888 GAAGAAGTGA
*
95947898 AAAAGGGCTTATGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
95947922 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
95947946 -AAAGGGTTTATGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
95947969 AAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
95947993 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95948017 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
23 21 0.26
24 51 0.62
25 10 0.12
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:95947971 original size:47 final size:47
Alignment explanation
Indices: 95947899--95947995 Score: 149
Period size: 47 Copynumber: 2.1 Consensus size: 47
95947889 AAGAAGTGAA
* *
95947899 AAAGGGCTTATGCCCCAGTTGTTAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAATTATT
* * *
95947946 AAAGGGTTTATGCCTCAGTTATTAAAAGGGCTTTTGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAATTATT
95947993 AAA
1 AAA
95947996 AGAGGCTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAATTATT
Found at i:95948244 original size:31 final size:31
Alignment explanation
Indices: 95948209--95948272 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
95948199 CATTTACAGT
95948209 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
95948240 AAAGGCTTCGGCCCAGTGTTATGATATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
95948271 AA
1 AA
95948273 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:95950394 original size:44 final size:44
Alignment explanation
Indices: 95950331--95950858 Score: 367
Period size: 44 Copynumber: 11.8 Consensus size: 44
95950321 GTTATTGTGG
** * * *
95950331 CAAATCTTATCTTTTTGAAGTTGCAATAGAGCTA-ATTAAAACCA
1 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGC-AGATTAAAGCTA
**
95950375 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAAATA
1 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCTA
* * * * *
95950419 GAAAATCTTATCT-ATCTGAAGTTACAGTAGAGCAAATTAAAGCCA
1 -CAAATCTTATCTCCT-TGAAGTTGCAGTAGAGCAGATTAAAGCTA
* * * * *
95950464 TAAATCTTATCTCCCTGAAGTTGCAAT-GCAGCAGACTGAAA-ATA
1 CAAATCTTATCTCCTTGAAGTTGCAGTAG-AGCAGA-TTAAAGCTA
** *
95950508 GCAAATCTTATCT-CTCTGAAGTTGCAGTAGAATAGATTAAAGCCA
1 -CAAATCTTATCTCCT-TGAAGTTGCAGTAGAGCAGATTAAAGCTA
* * * * *
95950553 TAAATCTTATCTCCCTGAAGTTGCAAT-GCAGTAGATTGAAA-ATA
1 CAAATCTTATCTCCTTGAAGTTGCAGTAG-AGCAGATT-AAAGCTA
** *
95950597 GCAAATCTTATCTTTTTGAAGTTGCAGTAGAACAGATTAAAGCTA
1 -CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCTA
*
95950642 CAAATCTTATCT-CTCTGAAGTTGCAGTAGAACAGATTAAAG-TAA
1 CAAATCTTATCTCCT-TGAAGTTGCAGTAGAGCAGATTAAAGCT-A
* * * * * * *
95950686 CAATTCTTATCTCATTGAAGCTGCAATAGAACAGATTGAAGTTA
1 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCTA
* * * *
95950730 CAAATCTCATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCGA
1 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCTA
* * * * * *
95950774 GAAATCCTAT-GCCTCTGAAGTTGCAGT-GGGTCGGATTAAATCAAGTCA
1 CAAATCTTATCTCCT-TGAAGTTGCAGTAGAG-CAGATTAAAGC---T-A
* * * *
95950822 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATT
1 CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATT
95950859 GGAGCAACAA
Statistics
Matches: 378, Mismatches: 78, Indels: 52
0.74 0.15 0.10
Matches are distributed among these distances:
43 9 0.02
44 237 0.63
45 102 0.27
46 2 0.01
48 24 0.06
49 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAAGCTA
Found at i:95950439 original size:89 final size:89
Alignment explanation
Indices: 95950332--95950858 Score: 476
Period size: 89 Copynumber: 5.9 Consensus size: 89
95950322 TTATTGTGGC
* * * * * *
95950332 AAATCTTATCTTTTTGAAGTTGCAATAGAGCTA-ATTAAAACCACAAATCTTATCTCCTTGAAGT
1 AAATCTTATCTATCTGAAGTTGCAGTAGAAC-AGATTAAAGCCACAAATCTTATCTCCCTGAAGT
95950396 TGCAGTAGAGCAGATTAAAAATAGA
65 TGCAGTAGAGCAGATTAAAAATAGA
* * * *
95950421 AAATCTTATCTATCTGAAGTTACAGTAGAGCAAATTAAAGCCATAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTATCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* * * *
95950486 GCAAT-GCAGCAGACTGAAAATAGC
66 GCAGTAG-AGCAGATTAAAAATAGA
* * *
95950510 AAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCCATAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTATCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* * * *
95950575 GCAAT-GCAGTAGATTGAAAATAGC
66 GCAGTAG-AGCAGATTAAAAATAGA
* * * *
95950599 AAATCTTATCTTTTTGAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCTCTGAAGTT
1 AAATCTTATCTATCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* *
95950664 GCAGTAGAACAGATT-AAAGTA-A
66 GCAGTAGAGCAGATTAAAAATAGA
* * * * ** *
95950686 CAATTCTTATCTCAT-TGAAGCTGCAATAGAACAGATTGAAGTTACAAATCTCATCTCCCTGAAG
1 -AAATCTTATCT-ATCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* ***
95950750 TTGCAGTAGAGTAGATTAAAGCGAG-
64 TTGCAGTAGAGCAGATTAAAAATAGA
* * * ** * * *
95950775 AAATCCTATGC-CTCTGAAGTTGCAGTGGGTCGGATTAAATCAAGTCACAAATCTTATCTCCCTA
1 AAATCTTAT-CTATCTGAAGTTGCAGTAGAACAGATT--A--AAGCCACAAATCTTATCTCCCTG
* *
95950839 AAGTTGCAGTGGAGTAGATT
61 AAGTTGCAGTAGAGCAGATT
95950859 GGAGCAACAA
Statistics
Matches: 369, Mismatches: 56, Indels: 23
0.82 0.12 0.05
Matches are distributed among these distances:
87 1 0.00
88 98 0.27
89 230 0.62
90 1 0.00
92 39 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (89 bp):
AAATCTTATCTATCTGAAGTTGCAGTAGAACAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
GCAGTAGAGCAGATTAAAAATAGA
Found at i:95950571 original size:133 final size:132
Alignment explanation
Indices: 95950331--95950800 Score: 366
Period size: 133 Copynumber: 3.5 Consensus size: 132
95950321 GTTATTGTGG
*** * * *
95950331 CAAATCTTATCTTTTTGAAGTTGCAATAGAGCTA-ATTAAA-ACCACAAATCTTATCTC-CTTGA
1 CAAATCTTATCTCCCTGAAGTTGCAATAGAAC-AGATGAAAGA-TACAAATCTTATCTCTC-TGA
* * * *
95950393 AGTTGCAGTAGAGCAGATTAAA-AATAGAAAATCTTATCT-ATCTGAAGTTACAGTAGAGCAAAT
63 AGTTGCAGTAGAACAGATTAAAGAA-A-AAAATCTTATCTCA-CTGAAGTTGCAATAGAGCAGAT
**
95950456 TAAAGCCA
125 TAAAGATA
* *
95950464 TAAATCTTATCTCCCTGAAGTTGCAAT-GCAGCAGACTGAAA-ATAGCAAATCTTATCTCTCTGA
1 CAAATCTTATCTCCCTGAAGTTGCAATAG-AACAGA-TGAAAGATA-CAAATCTTATCTCTCTGA
* ** * * *
95950527 AGTTGCAGTAGAATAGATTAAAGCCATAAATCTTATCTCCCTGAAGTTGCAAT-GCAGTAGATTG
63 AGTTGCAGTAGAACAGATTAAAGAAAAAAATCTTATCTCACTGAAGTTGCAATAG-AGCAGATT-
95950591 AAA-ATA
126 AAAGATA
*** * * *
95950597 GCAAATCTTATCTTTTTGAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCTCTGAAG
1 -CAAATCTTATCTCCCTGAAGTTGCAATAGAACAGATGAAAGATACAAATCTTATCTCTCTGAAG
* * * * * * *
95950662 TTGCAGTAGAACAGATTAAAGTAACAATTCTTATCTCATTGAAGCTGCAATAGAACAGATTGAAG
65 TTGCAGTAGAACAGATTAAAGAAAAAAATCTTATCTCACTGAAGTTGCAATAGAGCAGATTAAAG
*
95950727 TTA
130 ATA
* * ** * ** * *
95950730 CAAATCTCATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCGAGAAATCCTATGC-CTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAATAGAACAGATGAAAGATACAAATCTTAT-CTCTCTGAAG
95950794 TTGCAGT
65 TTGCAGT
95950801 GGGTCGGATT
Statistics
Matches: 275, Mismatches: 47, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
132 65 0.24
133 133 0.48
134 75 0.27
135 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (132 bp):
CAAATCTTATCTCCCTGAAGTTGCAATAGAACAGATGAAAGATACAAATCTTATCTCTCTGAAGT
TGCAGTAGAACAGATTAAAGAAAAAAATCTTATCTCACTGAAGTTGCAATAGAGCAGATTAAAGA
TA
Found at i:95950847 original size:92 final size:92
Alignment explanation
Indices: 95950724--95950896 Score: 265
Period size: 92 Copynumber: 1.9 Consensus size: 92
95950714 GAACAGATTG
* * * *
95950724 AAGTTACAAATCTCATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCGAGAAATCCTATGCCTC
1 AAGTCACAAATCTCATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCAACAAATCCTATGCCTC
*
95950789 TGAAGTTGCAGTGGGTCGGATTAAATC
66 TAAAGTTGCAGTGGGTCGGATTAAATC
* * **
95950816 AAGTCACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGGAGCAACAAATCCTATGCCTC
1 AAGTCACAAATCTCATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCAACAAATCCTATGCCTC
95950881 TAAAGTTGCAGTGGGT
66 TAAAGTTGCAGTGGGT
95950897 TAGAATGAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 72 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (92 bp):
AAGTCACAAATCTCATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCAACAAATCCTATGCCTC
TAAAGTTGCAGTGGGTCGGATTAAATC
Found at i:95950884 original size:44 final size:44
Alignment explanation
Indices: 95950747--95950894 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 44
95950737 CATCTCCCTG
* * * *
95950747 AAGTTGCAGTAGAGTAGATTAAAGCGAGAAATCCTATGCCTCTG
1 AAGTTGCAGTGGAGTAGATTAAAGCAACAAATCCTATGCCTCTA
* * * *
95950791 AAGTTGCAGTGG-GTCGGATTAAATCAAGTCACAAATCTTAT-CTCCCTA
1 AAGTTGCAGTGGAGT-AGATTAAAGC-A---ACAAATCCTATGC-CTCTA
**
95950839 AAGTTGCAGTGGAGTAGATTGGAGCAACAAATCCTATGCCTCTA
1 AAGTTGCAGTGGAGTAGATTAAAGCAACAAATCCTATGCCTCTA
95950883 AAGTTGCAGTGG
1 AAGTTGCAGTGG
95950895 GTTAGAATGA
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
43 2 0.02
44 45 0.55
45 1 0.01
47 2 0.02
48 30 0.37
49 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
AAGTTGCAGTGGAGTAGATTAAAGCAACAAATCCTATGCCTCTA
Found at i:95953587 original size:45 final size:45
Alignment explanation
Indices: 95953519--95953608 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
95953509 GTTCGCGTTG
95953519 TTAGAATTTTACCCTCCTCTTGTAATTCAAAAAAAATTCTCTACA
1 TTAGAATTTTACCCTCCTCTTGTAATTCAAAAAAAATTCTCTACA
* * * *
95953564 TTAGAATTTTACCTTCCTTTTGTAATTTAACAAAAATTCTCTACA
1 TTAGAATTTTACCCTCCTCTTGTAATTCAAAAAAAATTCTCTACA
95953609 CCTCTTCGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.41
Consensus pattern (45 bp):
TTAGAATTTTACCCTCCTCTTGTAATTCAAAAAAAATTCTCTACA
Found at i:95954504 original size:40 final size:39
Alignment explanation
Indices: 95954428--95954522 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
95954418 TCATCTCTGT
* * *
95954428 CCAACCCAACACACC-ATGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCAATATGGGGATAGAATCAACCCAC
** *
95954466 CCAACCCTACACACCAAGTATGGGGATTTAATCAACCCAT
1 CCAACCCTACACACCAA-TATGGGGATAGAATCAACCCAC
*
95954506 CCAACCCTATACACCAA
1 CCAACCCTACACACCAA
95954523 CTGGTACCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 14 0.29
39 1 0.02
40 33 0.69
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.15
Consensus pattern (39 bp):
CCAACCCTACACACCAATATGGGGATAGAATCAACCCAC
Found at i:95955001 original size:17 final size:17
Alignment explanation
Indices: 95954979--95955016 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
95954969 CAGCCATGTA
95954979 GGCCTACATGCCCGTAT
1 GGCCTACATGCCCGTAT
*
95954996 GGCCTACATGGCCGTAT
1 GGCCTACATGCCCGTAT
95955013 GGCC
1 GGCC
95955017 CACACGACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (17 bp):
GGCCTACATGCCCGTAT
Found at i:95972350 original size:131 final size:130
Alignment explanation
Indices: 95972102--95972385 Score: 288
Period size: 131 Copynumber: 2.2 Consensus size: 130
95972092 TTAAACAGTT
* * * * * * *
95972102 TTTAGAGAACGTGAGTGAAATTCCGAAGGAATCTTCGATTGTTTTGAACAAATGAAAATGCGCAA
1 TTTAGAAAACATGAGTGAAA-TCCAAAGGAATATTCAATCGTTTTGAACAAATGAAAATGCACAA
* * * *
95972167 CCCAGCATGATAGGGTACGATTCTCAAATCACCAACCATAGAAGATAACCTTCGTTTTGAAAGG-
65 CCCAGCACGATAGGGCACGATTCTCAAATCACCAAACATAGAAGATAACCTTCATTTT-AAAGGA
95972231 TA
129 TA
95972233 TTTA-ATAAACATGAGTGAAATCCTAAAGGAATATTCAATCGTTTTGAACAAATGAGAAAT-CAC
1 TTTAGA-AAACATGAGTGAAATCC-AAAGGAATATTCAATCGTTTTGAACAAATGA-AAATGCAC
* * * *** * **
95972296 AACCCAGTACGATAGGGCATGATTCTCGAATTGTCAAACATCG-AGTATTGCCTTCATTTTAAAG
63 AACCCAGCACGATAGGGCACGATTCTCAAATCACCAAACATAGAAG-ATAACCTTCATTTTAAAG
*
95972360 GATTT
127 GA-TA
95972365 TTTAGAAAACATGAGTGAAAT
1 TTTAGAAAACATGAGTGAAAT
95972386 TTTGAAGGGA
Statistics
Matches: 125, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
130 11 0.09
131 89 0.71
132 24 0.19
133 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (130 bp):
TTTAGAAAACATGAGTGAAATCCAAAGGAATATTCAATCGTTTTGAACAAATGAAAATGCACAAC
CCAGCACGATAGGGCACGATTCTCAAATCACCAAACATAGAAGATAACCTTCATTTTAAAGGATA
Found at i:95972616 original size:131 final size:130
Alignment explanation
Indices: 95972353--95972632 Score: 346
Period size: 131 Copynumber: 2.1 Consensus size: 130
95972343 TTGCCTTCAT
* * * ** *
95972353 TTTAAAGGATTTTTTAGAAAACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAAC
1 TTTAAAGGA-TTTTTA-AAAACATGAGTGAAATTCTAAAGGGACATGCGATTATATTAAGCAAAC
* * * * * *
95972418 GAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATAATGCACATCGCCTT
64 GAGAAATTGCAACCCAACACGTTAAGGCACGATTCCACGAATTACCAAATAATGAACATCACCTT
95972483 CG
129 CG
* *
95972485 TTTAAGGGATTTTTAAAAGACATGAGTGAAATTCTAAAGGGACATGCGATTATATTGAGCAAACG
1 TTTAAAGGATTTTTAAAA-ACATGAGTGAAATTCTAAAGGGACATGCGATTATATTAAGCAAACG
* * * *
95972550 AGAAATTGCAACCCAACACGTTAAGGCACGATTCCATGAATTACCAAGT-ATCGAATATCACTTT
65 AGAAATTGCAACCCAACACGTTAAGGCACGATTCCACGAATTACCAAATAAT-GAACATCACCTT
95972614 CG
129 CG
95972616 TTTCAAAGGATTTTTAA
1 TTT-AAAGGATTTTTAA
95972633 TAGTTGTGAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 5 0.04
131 101 0.80
132 20 0.16
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (130 bp):
TTTAAAGGATTTTTAAAAACATGAGTGAAATTCTAAAGGGACATGCGATTATATTAAGCAAACGA
GAAATTGCAACCCAACACGTTAAGGCACGATTCCACGAATTACCAAATAATGAACATCACCTTCG
Found at i:95973784 original size:2 final size:2
Alignment explanation
Indices: 95973777--95973805 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95973767 TTTACACATC
95973777 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 A
95973806 AATAACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95976202 original size:133 final size:130
Alignment explanation
Indices: 95975953--95976367 Score: 480
Period size: 132 Copynumber: 3.1 Consensus size: 130
95975943 CGACTGTAAC
* * * *
95975953 TTCAGGGAAACAAGATCTACAATTTTAACCTATTCCACTACAACTTTAGGGAACTA-GATTGGTG
1 TTCAGGGAAACAAGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGA-TGGTG
** * * *
95976017 GCGTAAATCTACTTCACTGCAACTTCAGGAAGATTAGATTTG-CCGTCATTGATCCGCTCCACTA
65 GC-TAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCCGT--TTGATCTGATCCACTA
95976081 CAAT
127 CAAT
* *
95976085 TTCAGGGAAACGAA-ATCTACAATCTTCAGCCTACTCCACTACAATTTTAGAGAGCTAGGATGGT
1 TTCAGGGAAAC-AAGATCTACAAT-TTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGT
* * * * * *
95976149 TGCTCAAATCTGCTTCACTGCCACTTCAGGAAGCCAAGATTCGCCACGTTTGATCTGTTCCACTG
64 GGCT-AAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCC-CGTTTGATCTGATCCACTA
*
95976214 CAAC
127 CAAT
* *
95976218 TTCAGGGAGACAAGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTGGGATGGTGG
1 TTCAGGGAAACAAGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGG
* * *
95976283 CTTAAATCTACTTCATTGCAACTTTAGGAAGACAAGATTCG-CCGTCGTCGATCTGATCCACTAC
66 C-TAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCCGT--TTGATCTGATCCACTAC
95976347 AAT
128 AAT
95976350 TTCA-GGAAGACAAGATCT
1 TTCAGGGAA-ACAAGATCT
95976368 GTAAAATTTT
Statistics
Matches: 240, Mismatches: 32, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
130 3 0.01
131 4 0.02
132 124 0.52
133 103 0.43
134 3 0.01
135 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (130 bp):
TTCAGGGAAACAAGATCTACAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGG
CTAAATCTACTTCACTGCAACTTCAGGAAGACAAGATTCGCCCGTTTGATCTGATCCACTACAAT
Found at i:95976538 original size:64 final size:64
Alignment explanation
Indices: 95976437--95976557 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
95976427 TCTGTATCTA
**
95976437 TGTTTATGCCAAATAATTAGGGTGCCATGATCAAAATGAATCAAGTG-TCCCTAACTAGATGTGG
1 TGTTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAGTGCT-CCTAACTAGATGTGG
* * *
95976501 TGTTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAGTGCTCCTAACTA
1 TGTTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAGTGCTCCTAACTA
95976558 AATGAATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (64 bp):
TGTTTATGCCAAATAATTAGAATGCCATGATCAAAATGAATCAAGTGCTCCTAACTAGATGTGG
Found at i:95981329 original size:2 final size:2
Alignment explanation
Indices: 95981322--95981348 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95981312 TTTACACATC
95981322 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 A
95981349 AATAACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95988807 original size:21 final size:22
Alignment explanation
Indices: 95988781--95988834 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
95988771 TTCAACTTGG
*
95988781 GTCTTGAGACATGTC-TAGT-AT
1 GTCTTGAGACATATCAT-GTCAT
* *
95988802 GTCTTGAAAAATATCATGTCAT
1 GTCTTGAGACATATCATGTCAT
95988824 GTCTTGAGACA
1 GTCTTGAGACA
95988835 AGTTTGTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (22 bp):
GTCTTGAGACATATCATGTCAT
Found at i:95990068 original size:71 final size:71
Alignment explanation
Indices: 95989984--95990125 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
95989974 ATTGATATCA
95989984 AACACTCTCTTGAAGTCCTCCGTGCTGGCGTGTGTCACTCTTGCTTCGTTGTCACCAAGAGTGCC
1 AACACTCTCTTGAAGTCCTCCGTGCTGGCGTGTGTCACTCTTGCTTCGTTGTCACCAAGAGTGCC
95990049 GGCATT
66 GGCATT
95990055 AACACTCTCTTGAAGTCCTCCGTGCTGGCGTGTGTCACTCTTGCTTCGTTGTCACCAAGAGTGCC
1 AACACTCTCTTGAAGTCCTCCGTGCTGGCGTGTGTCACTCTTGCTTCGTTGTCACCAAGAGTGCC
95990120 GGCATT
66 GGCATT
95990126 GTTGAACATG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.31
Consensus pattern (71 bp):
AACACTCTCTTGAAGTCCTCCGTGCTGGCGTGTGTCACTCTTGCTTCGTTGTCACCAAGAGTGCC
GGCATT
Found at i:95991477 original size:12 final size:13
Alignment explanation
Indices: 95991460--95991488 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95991450 TCAATCAAGT
95991460 AATTTTTT-ATCA
1 AATTTTTTCATCA
95991472 AATTTTTTCATCA
1 AATTTTTTCATCA
95991485 AATT
1 AATT
95991489 AAGTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTTTTCATCA
Found at i:95998286 original size:7 final size:7
Alignment explanation
Indices: 95998274--95998310 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
95998264 CTTATAAATT
95998274 AAATTTG
1 AAATTTG
95998281 AAATTT-
1 AAATTTG
*
95998287 CAATTTG
1 AAATTTG
95998294 AAATTTG
1 AAATTTG
95998301 AAATTTG
1 AAATTTG
95998308 AAA
1 AAA
95998311 AATAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (7 bp):
AAATTTG
Found at i:95998317 original size:13 final size:13
Alignment explanation
Indices: 95998272--95998310 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
95998262 CACTTATAAA
95998272 TTAAATTTGAAAT
1 TTAAATTTGAAAT
*
95998285 TTCAATTTGAAAT
1 TTAAATTTGAAAT
95998298 TTGAAATTTGAAA
1 TT-AAATTTGAAA
95998311 AATAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (13 bp):
TTAAATTTGAAAT
Found at i:96004883 original size:42 final size:40
Alignment explanation
Indices: 96004820--96004943 Score: 117
Period size: 39 Copynumber: 3.1 Consensus size: 40
96004810 GGGCCATGAG
* ** * *
96004820 CCTAGCAGGCATAATGCCGGTGAATGAGTTTCAGACTTAATG
1 CCTAGCAGGCCTCGTGCCGGTGAATAAG-TTCAG-CTTAATA
* * * *
96004862 TCTAGCAGGCCTCGTGTCGGTG-ATAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAGTTCAGCTTAATA
* *
96004901 CCTAGCAGGCCTCGTGCCGGTG-ATAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGAATAAGTTCAGCTTAATA
96004940 CCTA
1 CCTA
96004944 TCAAGCTAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
39 45 0.63
40 5 0.07
41 4 0.06
42 17 0.24
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCTAGCAGGCCTCGTGCCGGTGAATAAGTTCAGCTTAATA
Found at i:96004913 original size:39 final size:39
Alignment explanation
Indices: 96004863--96004943 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
96004853 GACTTAATGT
*
96004863 CTAGCAGGCCTCGTGTCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
96004902 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
96004941 CTA
1 CTA
96004944 TCAAGCTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
Found at i:96004961 original size:39 final size:39
Alignment explanation
Indices: 96004863--96004962 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
96004853 GACTTAATGT
* *
96004863 CTAGCAGGCCTCGTGTCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAAGCCTAGTGTCGGTGATAAGTTCAGGTTTATAC
* * *
96004902 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAAGCCTAGTGTCGGTGATAAGTTCAGGTTTATAC
* *
96004941 CTATCAAG-CTAATTGTCGGTGA
1 CTAGCAAGCCT-AGTGTCGGTGA
96004963 AATAATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 2 0.04
39 52 0.96
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
CTAGCAAGCCTAGTGTCGGTGATAAGTTCAGGTTTATAC
Found at i:96014560 original size:2 final size:2
Alignment explanation
Indices: 96014547--96014580 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
96014537 CATCAAACTC
*
96014547 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96014581 CATCTCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:96018616 original size:17 final size:17
Alignment explanation
Indices: 96018590--96018622 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
96018580 CTTATACGAA
*
96018590 CCTTTTTATGTGAACCT
1 CCTTTATATGTGAACCT
96018607 CCTTTATATGTGAACC
1 CCTTTATATGTGAACC
96018623 CCCTACTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (17 bp):
CCTTTATATGTGAACCT
Found at i:96020432 original size:22 final size:22
Alignment explanation
Indices: 96020407--96020461 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
96020397 TTAATTTTAA
*
96020407 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
96020429 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
96020450 TATTATCTATTA
1 TATTATCTATTA
96020462 GCATTGGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.31
22 20 0.69
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:96021037 original size:16 final size:14
Alignment explanation
Indices: 96021008--96021063 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
96020998 TATTATGTTT
96021008 TTTTTAATACTATA
1 TTTTTAATACTATA
96021022 TTTTTAATACTATA
1 TTTTTAATACTATA
* *
96021036 -TATT-GTA-TATA
1 TTTTTAATACTATA
96021047 TTTTTAATAACTATA
1 TTTTTAAT-ACTATA
96021062 TT
1 TT
96021064 ATGTATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 5 0.15
13 4 0.12
14 15 0.44
15 6 0.18
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:96021050 original size:25 final size:25
Alignment explanation
Indices: 96021018--96021124 Score: 112
Period size: 26 Copynumber: 4.2 Consensus size: 25
96021008 TTTTTAATAC
96021018 TATATTTTTAATACTATA-TATTGTA
1 TATATTTTTAATACTATATTA-TGTA
96021043 TATATTTTTAATAACTATATTATGTA
1 TATATTTTTAAT-ACTATATTATGTA
* *
96021069 TATATTTATATATA-TATATCATGTATA
1 TATATTTTTA-ATACTATATTATG--TA
* *
96021096 TATATTTTTAATATTATATT-TTTA
1 TATATTTTTAATACTATATTATGTA
96021120 TATAT
1 TATAT
96021125 ATTATGTATA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
24 7 0.10
25 20 0.28
26 24 0.34
27 20 0.28
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:96021080 original size:2 final size:2
Alignment explanation
Indices: 96021058--96021137 Score: 51
Period size: 2 Copynumber: 41.5 Consensus size: 2
96021048 TTTTAATAAC
* * *
96021058 TA TA T- TA TG TA TA TA TT TA TA TA TA TA TA TCA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * * * *
96021100 TT TT TA -A TA T- TA TA TT TT TA TA TA TA T- TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96021138 TTCTAATATC
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
1 4 0.07
2 55 0.90
3 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (2 bp):
TA
Found at i:96021085 original size:40 final size:39
Alignment explanation
Indices: 96020994--96021127 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
96020984 TACTTATATG
* * *
96020994 TATATATTATGT-TTTTTTTAATACTATATTTTTAATAC
1 TATATATTATATATATTTTTAATACTATATTTGTAATAC
*
96021032 TATATATTGTATATATTTTTAATAACTATATTATGT-ATA-
1 TATATATTATATATATTTTTAAT-ACTATATT-TGTAATAC
* * * * *
96021071 TATTTATATATATATATCATGT-ATA-TATATTTTTAATAT
1 TATATAT-TATATATAT-TTTTAATACTATATTTGTAATAC
*
96021110 TATATTTTTATATATATT
1 TATA-TATTATATATATT
96021128 ATGTATATAT
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
37 2 0.03
38 19 0.25
39 28 0.37
40 23 0.30
41 4 0.05
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (39 bp):
TATATATTATATATATTTTTAATACTATATTTGTAATAC
Found at i:96021135 original size:37 final size:40
Alignment explanation
Indices: 96021069--96021146 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 40
96021059 ATATTATGTA
*
96021069 TATATTTATATATATATATCATGTATATATATTTTTAATAT
1 TATATTTATATATATATATCATG-ATATATATTTCTAATAT
*
96021110 TATATTT-T-TATATATATTATG-TATATATTTCTAATAT
1 TATATTTATATATATATATCATGATATATATTTCTAATAT
96021147 CACGTTATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 15 0.43
39 12 0.34
40 1 0.03
41 7 0.20
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (40 bp):
TATATTTATATATATATATCATGATATATATTTCTAATAT
Found at i:96029671 original size:2 final size:2
Alignment explanation
Indices: 96029655--96029737 Score: 50
Period size: 2 Copynumber: 43.5 Consensus size: 2
96029645 GATATTAGAA
* * * * *
96029655 AT AT AT AC AT A- AT AT AT AT AA AA AT AT A- AT AT -T AA AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
96029694 AT AT AT AC AT GAT AT AT AT AT AT AT A- AA AT AT AT AC AT A- AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96029735 AT A
1 AT A
96029738 GTTATTAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
1 5 0.08
2 57 0.89
3 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (2 bp):
AT
Found at i:96029673 original size:13 final size:13
Alignment explanation
Indices: 96029655--96029737 Score: 80
Period size: 13 Copynumber: 6.2 Consensus size: 13
96029645 GATATTAGAA
96029655 ATATATACATAAT
1 ATATATACATAAT
*
96029668 ATATATA-AAAAT
1 ATATATACATAAT
*
96029680 ATAATATTA-AAAAT
1 AT-ATA-TACATAAT
96029694 ATATATACATGATAT
1 ATATATACAT-A-AT
* *
96029709 ATATATATATAAA
1 ATATATACATAAT
96029722 ATATATACATAAT
1 ATATATACATAAT
96029735 ATA
1 ATA
96029738 GTTATTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
12 8 0.14
13 29 0.49
14 11 0.19
15 11 0.19
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:96029753 original size:28 final size:26
Alignment explanation
Indices: 96029665--96029777 Score: 113
Period size: 26 Copynumber: 4.2 Consensus size: 26
96029655 ATATATACAT
* *
96029665 AATATATATAAAAATATAATATTAAA
1 AATATATATAATAATATATTATTAAA
*
96029691 AATATATATACATGATATATATATATATAA
1 AATATATATA-ATAATATAT-TAT-TA-AA
*
96029721 AATATATA-CATAATATAGTTATTAAA
1 AATATATATAATAATATA-TTATTAAA
* *
96029747 AATATATACAAT-ATATAGTATTAAA
1 AATATATATAATAATATATTATTAAA
96029772 AATATA
1 AATATA
96029778 GTATTAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
25 13 0.18
26 25 0.34
27 10 0.14
28 13 0.18
29 3 0.04
30 10 0.14
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (26 bp):
AATATATATAATAATATATTATTAAA
Found at i:96029789 original size:16 final size:14
Alignment explanation
Indices: 96029732--96029787 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
96029722 ATATATACAT
96029732 AATATAGTTATTAAA
1 AATATAG-TATTAAA
*
96029747 AATATA-TA--CAA
1 AATATAGTATTAAA
*
96029758 TATATAGTATTAAA
1 AATATAGTATTAAA
96029772 AATATAGTATTAAA
1 AATATAGTATTAAA
96029786 AA
1 AA
96029788 AACATAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 7 0.21
12 2 0.06
13 2 0.06
14 17 0.50
15 6 0.18
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (14 bp):
AATATAGTATTAAA
Found at i:96030009 original size:23 final size:22
Alignment explanation
Indices: 96029983--96030027 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
96029973 TTGACAACAT
* *
96029983 ATATACATAGTATTAGTATTTAA
1 ATATACATAATA-TAATATTTAA
*
96030006 ATATATATAATATAATATTTAA
1 ATATACATAATATAATATTTAA
96030028 GAAAAACTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATACATAATATAATATTTAA
Found at i:96030383 original size:22 final size:22
Alignment explanation
Indices: 96030330--96030405 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
96030320 ATACCAATGC
96030330 TAATAGATAAT-AAATATAATAA
1 TAATA-ATAATAAAATATAATAA
*
96030352 TAATAGTAATAAAATATAATAGTA
1 TAATAATAATAAAATATAATA--A
*
96030376 TACATAATATTAAAAT-TAA-AA
1 TA-ATAATAATAAAATATAATAA
96030397 TAA-AATAAT
1 TAATAATAAT
96030406 GAGAAACAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 7 0.15
22 15 0.33
23 1 0.02
24 6 0.13
25 11 0.24
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (22 bp):
TAATAATAATAAAATATAATAA
Found at i:96031940 original size:24 final size:24
Alignment explanation
Indices: 96031908--96031957 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
96031898 AAATCACATG
96031908 GGGTTCGCATGTCATAAACAATTA
1 GGGTTCGCATGTCATAAACAATTA
96031932 GGGTTCGCATGTCATAAACAATTA
1 GGGTTCGCATGTCATAAACAATTA
96031956 GG
1 GG
96031958 CCATGGATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (24 bp):
GGGTTCGCATGTCATAAACAATTA
Found at i:96036573 original size:85 final size:85
Alignment explanation
Indices: 96036466--96036965 Score: 434
Period size: 85 Copynumber: 6.1 Consensus size: 85
96036456 AGAAGTGAGT
** *
96036466 TGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCAGTTTTTCAATTTATGTTTCAAAAATCAAC
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTCAAAAATCAAC
*
96036531 TCATATTGCGAGAGGTGAGT
66 TCATATTGTGAGAGGTGAGT
* *
96036551 TGAGCCTCGGGACACGTTGAGGTATTTTCAATTTCTG---TT--ATTTA-----AAAAAATCAAG
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTCAAAAATCAA-
*
96036606 CACATATTGTGAGAGGTGAGT
65 CTCATATTGTGAGAGGTGAGT
* ** * * *
96036627 TTAGCCTCGACTCACATGCTGAGGTATTTTCAGTTTCTGTTTTTCAATTTCTGTTCGTC-AAAAT
1 TGAGCCTCG--GGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTT--TCAAAAAT
*
96036691 CAA--C-TA---CGAGAGGTGAGT
62 CAACTCATATTGTGAGAGGTGAGT
* * *
96036709 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTTTTTTAATTTATGTTTCAAAAATCAAC
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTCAAAAATCAAC
96036774 TCATATTGTGAGAGGTGAGT
66 TCATATTGTGAGAGGTGAGT
*
96036794 TGAGCCTCGGGACACGCTGAGGTA---T---TTTCT-ATTTT---TTT-T-TTT--AAAATCAAG
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTCAAAAATCAA-
* *
96036845 CTCATATTGCGAAAGGTGAGT
65 CTCATATTGTGAGAGGTGAGT
* * *
96036866 TGAGCCTCGGGACACGCTGAGGTATTTTCAGTTTCTGATTTTTAAATTT-TGTTTTTATCAAAAG
1 TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTG-TTTTTCAATTTATG---TT-TCAAAAA
* ** *
96036930 TCAGCTCATATTGCAAGAGGTAAGT
61 TCAACTCATATTGTGAGAGGTGAGT
96036955 TGAGCCTCGGG
1 TGAGCCTCGGG
96036966 TCACATGCCG
Statistics
Matches: 337, Mismatches: 37, Indels: 78
0.75 0.08 0.17
Matches are distributed among these distances:
71 8 0.02
72 43 0.13
73 3 0.01
74 1 0.00
75 13 0.04
76 27 0.08
78 34 0.10
79 12 0.04
80 46 0.14
81 3 0.01
82 23 0.07
83 8 0.02
85 69 0.20
86 1 0.00
87 2 0.01
88 1 0.00
89 37 0.11
90 6 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (85 bp):
TGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTCAAAAATCAAC
TCATATTGTGAGAGGTGAGT
Found at i:96036722 original size:158 final size:157
Alignment explanation
Indices: 96036436--96036753 Score: 410
Period size: 158 Copynumber: 2.0 Consensus size: 157
96036426 TTTCTGTTTC
* *
96036436 AAAAATCAACTCATATTGTAAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACACATATTGTAAGAAGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTCAATTTC
*
96036501 AGTTTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
66 AGTTTTTCAATTTATGTTTCAAAAATCAAC-CATA-T-CGAGAGGTGAGTTGAGCCTCAGGACAC
*
96036566 GTTGAGGTATTTTCAATTTCTGTTATTTAA
128 GCTGAGGTATTTTCAATTTCTGTTATTTAA
* * * * * *
96036596 AAAAATCAAGCACATATTGTGAGAGGTGAGTTTAGCCTCGACTCACATGCTGAGGTATTTTCAGT
1 AAAAATCAA-CACATATTGTAAGAAGTGAGTTGAGCCTC-A-ACACACGCTGAGGTATTTTCAAT
* *
96036661 TTCTGTTTTTCAATTTCTGTTCGTC-AAAATCAA-C-TA-CGAGAGGTGAGTTGAGCCTCAGGAC
63 TTCAGTTTTTCAATTTATGTT--TCAAAAATCAACCATATCGAGAGGTGAGTTGAGCCTCAGGAC
* *
96036722 ACGCTGAGGTATTTTCAATTTTTGTTTTTTAA
126 ACGCTGAGGTATTTTCAATTTCTGTTATTTAA
96036754 TTTATGTTTC
Statistics
Matches: 139, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
158 53 0.38
160 9 0.06
161 27 0.19
162 2 0.01
163 38 0.27
164 8 0.06
165 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (157 bp):
AAAAATCAACACATATTGTAAGAAGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTCAATTTC
AGTTTTTCAATTTATGTTTCAAAAATCAACCATATCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTTATTTAA
Found at i:96038472 original size:27 final size:28
Alignment explanation
Indices: 96038435--96038574 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
96038425 AGCATGGCTG
* *
96038435 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
96038461 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
96038489 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
96038516 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
96038543 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
96038570 CCAGA
1 CCAGA
96038575 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:96040300 original size:26 final size:26
Alignment explanation
Indices: 96040191--96040292 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
96040181 CATGAAATTC
96040191 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
96040217 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96040243 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
96040269 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
96040293 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96041664 original size:15 final size:16
Alignment explanation
Indices: 96041644--96041679 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
96041634 TTATGTATAC
96041644 TATTATATTTATTA-T
1 TATTATATTTATTATT
96041659 TATTATATTTATTATT
1 TATTATATTTATTATT
96041675 TATTA
1 TATTA
96041680 GCATTAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATATTTATTATT
Found at i:96042203 original size:16 final size:14
Alignment explanation
Indices: 96042174--96042228 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
96042164 TTAGTATTAT
96042174 TTTTTAATACTATA
1 TTTTTAATACTATA
96042188 TTTTTAATACTATA
1 TTTTTAATACTATA
* *
96042202 -TATT-GTA-TATA
1 TTTTTAATACTATA
96042213 TTTTTAATAACTATA
1 TTTTTAAT-ACTATA
96042228 T
1 T
96042229 AATGTATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 5 0.15
13 4 0.12
14 15 0.45
15 5 0.15
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:96042229 original size:2 final size:2
Alignment explanation
Indices: 96042224--96042307 Score: 54
Period size: 2 Copynumber: 44.5 Consensus size: 2
96042214 TTTTAATAAC
* *
96042224 TA TA TA -A TG TA TA TA T- TA TA TA TA TA TA TA TA TCA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * *
96042265 TA TA TT TT TA -A TA T- TA TA T- TT TT TA TA TA TA T- TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96042303 TA TA T
1 TA TA T
96042308 TTCTAATATC
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
1 6 0.09
2 58 0.88
3 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (2 bp):
TA
Found at i:96042251 original size:13 final size:14
Alignment explanation
Indices: 96042224--96042307 Score: 63
Period size: 15 Copynumber: 6.2 Consensus size: 14
96042214 TTTTAATAAC
96042224 TATATA-ATGTATA
1 TATATATATGTATA
*
96042237 TAT-TATATATATA
1 TATATATATGTATA
96042250 TATATATCATGTATA
1 TATATAT-ATGTATA
*
96042265 TATAT-T-TTTA-A
1 TATATATATGTATA
* *
96042276 TAT-TATATTTTTTA
1 TATATATA-TGTATA
96042290 TATATATTATGTATA
1 TATATA-TATGTATA
96042305 TAT
1 TAT
96042308 TTCTAATATC
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
10 1 0.02
11 5 0.09
12 5 0.09
13 15 0.27
14 8 0.14
15 20 0.36
16 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (14 bp):
TATATATATGTATA
Found at i:96042299 original size:9 final size:9
Alignment explanation
Indices: 96042198--96042305 Score: 69
Period size: 9 Copynumber: 11.8 Consensus size: 9
96042188 TTTTTAATAC
*
96042198 TATATATTG
1 TATATATTA
96042207 TATATATT-
1 TATATATTA
* *
96042215 TTTA-ATAA
1 TATATATTA
* *
96042223 CTATATAATG
1 -TATATATTA
96042233 TATATATTA
1 TATATATTA
96042242 TATATATATA
1 TATATAT-TA
96042252 TATATCATGTA
1 TATAT-AT-TA
96042263 TATATATT-
1 TATATATTA
*
96042271 TTTAATATTA
1 TAT-ATATTA
* *
96042281 TATTTTTTA
1 TATATATTA
96042290 TATATATTA
1 TATATATTA
*
96042299 TGTATAT
1 TATATAT
96042306 ATTTCTAATA
Statistics
Matches: 76, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 48 0.63
10 12 0.16
11 9 0.12
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (9 bp):
TATATATTA
Found at i:96042385 original size:50 final size:49
Alignment explanation
Indices: 96042279--96042386 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 49
96042269 TTTTTAATAT
* * *
96042279 TATATTTTTTATATATATTATGTATATATTTCTAATATCACGTTATTCA
1 TATATTTTTTATATATATTATGTAAATATTTCTAATATCACATTATGCA
* *
96042328 TACATTTTTTATAT-TATCTCATGTAAATACTTTC-AATA-CTATATTATGCA
1 TATATTTTTTATATATAT-T-ATGTAAATA-TTTCTAATATC-ACATTATGCA
96042378 TATATTTTT
1 TATATTTTT
96042387 GTCCATATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
48 3 0.06
49 15 0.31
50 27 0.55
51 4 0.08
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (49 bp):
TATATTTTTTATATATATTATGTAAATATTTCTAATATCACATTATGCA
Found at i:96044425 original size:6 final size:6
Alignment explanation
Indices: 96044405--96044444 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
96044395 AAATAATAAA
96044405 ATATATT AT-TTT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATAT-TT ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
96044445 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 4 0.12
6 26 0.81
7 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:96048019 original size:50 final size:51
Alignment explanation
Indices: 96047942--96048070 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
96047932 GACCATGGCA
* * *
96047942 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAAGACAAATG
*
96047993 A-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAAGACAAATG
* * *
96048043 ACAAGTGAAAAGTGGTAGCTCCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCAGCTAC
96048071 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAAGACAAATG
Found at i:96048084 original size:31 final size:31
Alignment explanation
Indices: 96048046--96048124 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
96048036 ACAAATGACA
96048046 AGTGAAAAGTGGTAGCTCCAG-CTACCTGATC
1 AGTGAAAAGTGGTAGCTCC-GCCTACCTGATC
*
96048077 AGTGAAAAATGGTAGCTCCGCCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGCCTACCTGATC
*
96048108 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
96048125 TCGGCTACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGCCTACCTGATC
Found at i:96048272 original size:46 final size:48
Alignment explanation
Indices: 96048201--96048323 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 48
96048191 TGCTACTGTA
* * * * *
96048201 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGCGCTATAGCATCATATGAGATATGTGATTACGTG
* *
96048247 TAAGACCATAGCTGCGCTATCGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGCGCTATAGCATC-ATATGAGATATGTGATTACGTG
96048296 TAAGACCATAGCTGCGCTATAGCATCAT
1 TAAGACCATAGCTGCGCTATAGCATCAT
96048324 TATGTGAAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 22 0.33
47 1 0.01
48 15 0.22
49 29 0.43
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGCGCTATAGCATCATATGAGATATGTGATTACGTG
Found at i:96048302 original size:49 final size:48
Alignment explanation
Indices: 96048232--96048330 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 48
96048222 GCATCAGTGA
*
96048232 GATATGTGATTCGTGTAAGACCATAGCTGCGCTATCGCATCGA-TATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGCGCTATAGCATC-ATTATGT
96048280 GATATGTGATTACGTGTAAGACCATAGCTGCGCTATAGCATCATTATGT
1 GATATGTGATT-CGTGTAAGACCATAGCTGCGCTATAGCATCATTATGT
96048329 GA
1 GA
96048331 AGATGTGTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
48 12 0.25
49 36 0.75
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGCGCTATAGCATCATTATGT
Done.