Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:2207837 original size:35 final size:36
Alignment explanation
Indices: 2207790--2207860 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
2207780 TATATATATA
* * *
2207790 TATATATATATATATATTCGAAAATGTTTTCTAAAT
1 TATATATATATATATATTCCAAAACGTTTTCAAAAT
*
2207826 TATATAT-TATATATTTTCCAAAACGTTTTCAAAAT
1 TATATATATATATATATTCCAAAACGTTTTCAAAAT
2207861 GTTTTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.46
Consensus pattern (36 bp):
TATATATATATATATATTCCAAAACGTTTTCAAAAT
Found at i:2207951 original size:44 final size:43
Alignment explanation
Indices: 2207893--2207975 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
2207883 AAACTATTTA
*
2207893 ATATATATTTTCAAAAAAAAATTTCAAAACTATATAATATATAT
1 ATATATATATTC-AAAAAAAATTTCAAAACTATATAATATATAT
****
2207937 ATATATATATTCAAAATCGTTTTCAAAACTATATAATAT
1 ATATATATATTCAAAAAAAATTTCAAAACTATATAATAT
2207976 GTATTTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 23 0.68
44 11 0.32
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (43 bp):
ATATATATATTCAAAAAAAATTTCAAAACTATATAATATATAT
Found at i:2207986 original size:35 final size:35
Alignment explanation
Indices: 2207930--2208170 Score: 197
Period size: 35 Copynumber: 6.6 Consensus size: 35
2207920 AACTATATAA
*
2207930 TATATATATATATATATTCAAAATCGTTTTCAAAAC
1 TATATA-ATATATATTTTCAAAATCGTTTTCAAAAC
* * * *
2207966 TATATAATATGTATTTTCAAAAACGTTTTTAAAAAAA
1 TATATAATATATATTTTCAAAATCG-TTTT-CAAAAC
*
2208003 TATATATTATATATTTTTTCAAAAT-GTTTTCAAAAC
1 TATATA--ATATATATTTTCAAAATCGTTTTCAAAAC
*
2208039 TATATAATATATTTTTTCAAAAT-GTTTTCAAAAC
1 TATATAATATATATTTTCAAAATCGTTTTCAAAAC
* * **
2208073 TAATATATTATATATGTTT--AATTTTTTTTCAAAAAC
1 T-ATATAATATATAT-TTTCAAAATCGTTTTC-AAAAC
2208109 TATATAATATATATCTATTTTTCAAAAATCGTTTTCAAAAAC
1 TATAT-A-ATATA--TA-TTTTC-AAAATCGTTTTC-AAAAC
*
2208151 TATAT-A-GTATATTTTCAAAA
1 TATATAATATATATTTTCAAAA
2208171 ATTGATTTTT
Statistics
Matches: 170, Mismatches: 19, Indels: 34
0.76 0.09 0.15
Matches are distributed among these distances:
34 36 0.21
35 41 0.24
36 32 0.19
37 18 0.11
38 3 0.02
39 20 0.12
40 1 0.01
42 19 0.11
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (35 bp):
TATATAATATATATTTTCAAAATCGTTTTCAAAAC
Found at i:2209313 original size:85 final size:85
Alignment explanation
Indices: 2209053--2209557 Score: 577
Period size: 85 Copynumber: 5.9 Consensus size: 85
2209043 TACCATGCGA
* * * * * * * ****
2209053 TTGATATGTCATCGAGCTGATTGGAATCAAACTCGACA-ATTTTTTTTGACAGATAGTTTTTCTC
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGA-AGGTTTTTGTTGACAGATAACCCTTCTC
* * *
2209117 GACTTAAGCTATGTTGTAAAT
65 GCCTTGAGCTATGCTGTAAAT
* * *
2209138 TTGATATGTTCTTGAGCTGAATGTAATCGAACTCGAAGG--TTTGTTGACAGATAGCCCTTCTCT
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCG
2209201 CCTTGAGCTATGCTGTAAAT
66 CCTTGAGCTATGCTGTAAAT
* * * * *
2209221 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTATTGGCATATAATCCTTCTCG
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCG
* *
2209286 CTTTGAGTTATGCTGTAAAT
66 CCTTGAGCTATGCTGTAAAT
* *
2209306 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTGGTTAACAGATAACCCTTCTCG
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCG
*
2209371 CCTTGAGCTATGATGTAAAT
66 CCTTGAGCTATGCTGTAAAT
* * *
2209391 TTGATATGTCCTTGAGCT-AAGTGTACTCGAACTCGAAGGTTTTGGTTGACAAGATAGCCCTTCT
1 TTGATATGTCCTTGAGCTGAA-TGTAATCGAACTCGAAGGTTTTTGTTGAC-AGATAACCCTTCT
*
2209455 CACCTTGAGCTATGCTGTAAAT
64 CGCCTTGAGCTATGCTGTAAAT
* * * * * * * * *
2209477 TTGATATCTTCTTGAGTTGAGTGTAATCAAACTCGAAGGTTTTTTTGCTGGCAGATAGCCCTTAT
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGG--TTTTTGTTGACAGATAACCCTTCT
2209542 CGCCTTGAGCTATGCT
64 CGCCTTGAGCTATGCT
2209558 ACAAATAGTT
Statistics
Matches: 361, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
83 73 0.20
84 3 0.01
85 186 0.52
86 63 0.17
87 28 0.08
88 8 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (85 bp):
TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCG
CCTTGAGCTATGCTGTAAAT
Found at i:2210913 original size:99 final size:99
Alignment explanation
Indices: 2210742--2210938 Score: 349
Period size: 99 Copynumber: 2.0 Consensus size: 99
2210732 GGACAACTCA
*
2210742 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATT
1 ATATTATAATCACCTTCATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATT
* *
2210807 GCTCTAGAGGGACGGTTCAAGCTTTATTGTATAG
66 GCTCTAGAGGGACAGCTCAAGCTTTATTGTATAG
* *
2210841 ATATTATAATCATCTTCATCAGGCTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATT
1 ATATTATAATCACCTTCATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATT
2210906 GCTCTAGAGGGACAGCTCAAGCTTTATTGTATA
66 GCTCTAGAGGGACAGCTCAAGCTTTATTGTATA
2210939 CTTATAATAT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (99 bp):
ATATTATAATCACCTTCATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATT
GCTCTAGAGGGACAGCTCAAGCTTTATTGTATAG
Found at i:2214889 original size:26 final size:26
Alignment explanation
Indices: 2214867--2214922 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
2214857 ACGAAATATT
2214867 AAATAAATCAAAAGGAAAAAAATAAA
1 AAATAAATCAAAAGGAAAAAAATAAA
*
2214893 AAATAAATCAAAGGGAAAAAGAA-AAA
1 AAATAAATCAAAAGGAAAAA-AATAAA
2214919 AAAT
1 AAAT
2214923 CGAAGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.75, C:0.04, G:0.11, T:0.11
Consensus pattern (26 bp):
AAATAAATCAAAAGGAAAAAAATAAA
Found at i:2214932 original size:21 final size:21
Alignment explanation
Indices: 2214885--2214943 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
2214875 CAAAAGGAAA
2214885 AAAATAAAAAATAAATCAAAGGG
1 AAAA-AAAAAA-AAATCAAAGGG
*
2214908 AAAAAGAAAAAAAATCGAA-GG
1 AAAAA-AAAAAAAATCAAAGGG
2214929 AAAAAATAAAAAAAT
1 AAAAAA-AAAAAAAT
2214944 ATTAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
22 8 0.24
23 9 0.27
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAAAAAAAATCAAAGGG
Found at i:2214976 original size:26 final size:25
Alignment explanation
Indices: 2214867--2214978 Score: 75
Period size: 26 Copynumber: 4.2 Consensus size: 25
2214857 ACGAAATATT
*
2214867 AAATAAATCAAA-AGGAAAAAAATAAA
1 AAATAAATCAAAGA-AAAAAAAAT-AA
*
2214893 AAATAAATCAAAGGGAAAAAGAAA-AA
1 AAATAAATCAAA--GAAAAAAAAATAA
* ** * *
2214919 AAATCGAAGGAAAAAATAAAAAAATATT
1 AAAT-AAATCAAAGAA-AAAAAAATA-A
2214947 AAATAAATCAAATGAAAAAAAAATAA
1 AAATAAATCAAA-GAAAAAAAAATAA
2214973 AAATAA
1 AAATAA
2214979 CAAAATTTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
25 2 0.03
26 30 0.46
27 20 0.31
28 12 0.18
29 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (25 bp):
AAATAAATCAAAGAAAAAAAAATAA
Found at i:2215012 original size:15 final size:15
Alignment explanation
Indices: 2214929--2215065 Score: 75
Period size: 15 Copynumber: 8.9 Consensus size: 15
2214919 AAATCGAAGG
*
2214929 AAAAAATAAAAAAAT
1 AAAAAATAATAAAAT
** *
2214944 ATTAAATAAATCAAAT
1 AAAAAAT-AATAAAAT
*
2214960 GAAAAAAAAATAAAAAT
1 -AAAAAATAAT-AAAAT
* *
2214977 AACAAAAT-TTAAATTT
1 AA-AAAATAATAAA-AT
*
2214993 TAAAAATAATAAAAT
1 AAAAAATAATAAAAT
*
2215008 AAAAAATAATAAGGAGT
1 AAAAAATAATAA--AAT
*
2215025 AAAAAAT-ATAAAAC
1 AAAAAATAATAAAAT
*
2215039 AAATAATAAT-AAAT
1 AAAAAATAATAAAAT
*
2215053 AAAAGA-AATAAAA
1 AAAAAATAATAAAA
2215066 AACATGCTAA
Statistics
Matches: 90, Mismatches: 22, Indels: 21
0.68 0.17 0.16
Matches are distributed among these distances:
13 3 0.03
14 17 0.19
15 27 0.30
16 22 0.24
17 21 0.23
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAAAATAATAAAAT
Found at i:2215055 original size:28 final size:30
Alignment explanation
Indices: 2214994--2215065 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
2214984 TTTAAATTTT
*
2214994 AAAAATAATAAAATAAAAAATAATAAGGAGTA
1 AAAAAT-ATAAAACAAAAAATAATAA-GAGTA
*
2215026 AAAAATATAAAACAAATAATAATAA-A-TA
1 AAAAATATAAAACAAAAAATAATAAGAGTA
2215054 AAAGAA-ATAAAA
1 AAA-AATATAAAA
2215066 AACATGCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 11 0.30
29 3 0.08
31 17 0.46
32 6 0.16
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (30 bp):
AAAAATATAAAACAAAAAATAATAAGAGTA
Found at i:2215577 original size:16 final size:17
Alignment explanation
Indices: 2215556--2215589 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2215546 TTCCCCGGCG
*
2215556 TGCTT-GCTTTTTGTTT
1 TGCTTGGCTTTTGGTTT
2215572 TGCTTGGCTTTTGGTTT
1 TGCTTGGCTTTTGGTTT
2215589 T
1 T
2215590 TTTGTGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.65
Consensus pattern (17 bp):
TGCTTGGCTTTTGGTTT
Found at i:2216118 original size:5 final size:5
Alignment explanation
Indices: 2216108--2216167 Score: 63
Period size: 5 Copynumber: 12.4 Consensus size: 5
2216098 GACCAAATTG
*
2216108 AAATA AAAT- AAAT- AAA-A AAATA AAATA AAATA AAATA AATTAA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A AAATA
* *
2216156 AATTA AATTA AA
1 AAATA AAATA AA
2216168 TGAAATAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
4 10 0.20
5 35 0.71
6 4 0.08
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:2216141 original size:27 final size:27
Alignment explanation
Indices: 2216108--2216200 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 27
2216098 GACCAAATTG
2216108 AAATAAAATAAATAAAAAAATAAAATA
1 AAATAAAATAAATAAAAAAATAAAATA
* *
2216135 AAATAAAATAAATTAAAAATAAATTAAATT
1 AAATAAAATAAA-T-AAAA-AAATAAAATA
* * ** *
2216165 AAATGAAATAAGTAAGTAAATATAATA
1 AAATAAAATAAATAAAAAAATAAAATA
2216192 GAAATAAAA
1 -AAATAAAA
2216201 ACTTATTTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
27 19 0.37
28 10 0.19
29 5 0.10
30 18 0.35
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (27 bp):
AAATAAAATAAATAAAAAAATAAAATA
Found at i:2216153 original size:16 final size:16
Alignment explanation
Indices: 2216108--2216167 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
2216098 GACCAAATTG
*
2216108 AAATAAAATAAATAAAA
1 AAATAAAATAAA-AATA
2216125 AAATAAAAT-AAAATA
1 AAATAAAATAAAAATA
*
2216140 AAATAAATTAAAAATA
1 AAATAAAATAAAAATA
* *
2216156 AATTAAATTAAA
1 AAATAAAATAAA
2216168 TGAAATAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
15 11 0.28
16 19 0.49
17 9 0.23
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAAAATA
Found at i:2216159 original size:11 final size:11
Alignment explanation
Indices: 2216129--2216162 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2216119 ATAAAAAAAT
*
2216129 AAAATAAAAT-
1 AAAATAAATTA
2216139 AAAATAAATTA
1 AAAATAAATTA
2216150 AAAATAAATTA
1 AAAATAAATTA
2216161 AA
1 AA
2216163 TTAAATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:2216173 original size:26 final size:26
Alignment explanation
Indices: 2216108--2216167 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
2216098 GACCAAATTG
*
2216108 AAATAAAATAAATAAAAAAATAAAATA
1 AAATAAAATAAAT-TAAAAATAAAATA
*
2216135 AAATAAAATAAATTAAAAATAAATTA
1 AAATAAAATAAATTAAAAATAAAATA
*
2216161 AATTAAA
1 AAATAAA
2216168 TGAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (26 bp):
AAATAAAATAAATTAAAAATAAAATA
Found at i:2216285 original size:30 final size:28
Alignment explanation
Indices: 2216249--2216305 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
2216239 TTTTAAAATG
2216249 TTTTTAAAAACGTTTTCGAAATATTATATA
1 TTTTTAAAAACGTTTTC-AAA-ATTATATA
*
2216279 TTTTTAAAAAGGTTTTCAAAATTATAT
1 TTTTTAAAAACGTTTTCAAAATTATAT
2216306 TATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.27
29 3 0.12
30 16 0.62
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (28 bp):
TTTTTAAAAACGTTTTCAAAATTATATA
Found at i:2216431 original size:36 final size:36
Alignment explanation
Indices: 2216371--2216663 Score: 132
Period size: 36 Copynumber: 7.6 Consensus size: 36
2216361 TTCCAAAATG
*
2216371 TTTTCAAAAATGTTTTTTCAAAACTTTATAATATATA
1 TTTTCAAAAAT-TATTTTCAAAACTTTATAATATATA
2216408 TTTTCAAAAATTATTTTCAAAACTATAATATATATATATA
1 TTTTCAAAAATTATTTTCAAAACT-T--TATA-ATATATA
* * * *
2216448 TATATAT-ATATATTCAAAATCGTTTTCAAAACTATATAATATGTA
1 T-T-T-TCAAAAATT----A---TTTTCAAAACTTTATAATATATA
* * * * *
2216493 TTTTCAAAAGCGTT-TTTTAAAAACTATATATTATATTTT
1 TTTTCAAAA--ATTATTTTCAAAACT-T-TATAATATATA
* *
2216532 TTTTC-AAAA-TATTTTCAAAACTATATAATATATTT
1 TTTTCAAAAATTATTTTCAAAACTTTATAATATA-TA
* * *
2216567 TTTTC-AAAA-TGTTTTCAAAACTAATATATTATATA
1 TTTTCAAAAATTATTTTCAAAACT-TTATAATATATA
* *
2216602 TGTTT-AAAAAATATTTTAAAAACTATTTAATATATATATA
1 T-TTTCAAAAATTATTTTCAAAAC--TTT-ATA-ATATATA
* *
2216642 TATTCAAAAATCATTTTCAAAA
1 TTTTCAAAAATTATTTTCAAAA
2216664 ACCAATTTTT
Statistics
Matches: 197, Mismatches: 29, Indels: 57
0.70 0.10 0.20
Matches are distributed among these distances:
34 7 0.04
35 26 0.13
36 38 0.19
37 32 0.16
38 4 0.02
39 23 0.12
40 29 0.15
41 1 0.01
42 7 0.04
43 4 0.02
44 1 0.01
45 9 0.05
46 5 0.03
49 11 0.06
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (36 bp):
TTTTCAAAAATTATTTTCAAAACTTTATAATATATA
Found at i:2216442 original size:2 final size:2
Alignment explanation
Indices: 2216431--2216460 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2216421 TTTTCAAAAC
2216431 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2216461 TCAAAATCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2216501 original size:35 final size:34
Alignment explanation
Indices: 2216444--2216638 Score: 174
Period size: 36 Copynumber: 5.4 Consensus size: 34
2216434 AATATATATA
*
2216444 TATATATATATATATATTCAAAATCGTTTTCAAAAC
1 TATATA-ATATATATTTTCAAAAT-GTTTTCAAAAC
* * *
2216480 TATATAATATGTATTTTCAAAAGCGTTTTTTAAAAAC
1 TATATAATATATATTTTCAAAA---TGTTTTCAAAAC
* * *
2216517 TATATATTATATTTTTTTTCAAAATATTTTCAAAAC
1 TATATA--ATATATATTTTCAAAATGTTTTCAAAAC
*
2216553 TATATAATATATTTTTTTCAAAATGTTTTCAAAAC
1 TATATAATATA-TATTTTCAAAATGTTTTCAAAAC
* * * *
2216588 TAATATATTATATATGTTTAAAAAATATTTTAAAAAC
1 T-ATATAATATATAT-TTT-CAAAATGTTTTCAAAAC
*
2216625 TATTTAATATATAT
1 TATATAATATATAT
2216639 ATATATTCAA
Statistics
Matches: 133, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
34 4 0.03
35 39 0.29
36 45 0.34
37 30 0.23
38 1 0.01
39 14 0.11
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (34 bp):
TATATAATATATATTTTCAAAATGTTTTCAAAAC
Found at i:2216549 original size:85 final size:84
Alignment explanation
Indices: 2216310--2216551 Score: 208
Period size: 85 Copynumber: 2.8 Consensus size: 84
2216300 TTATATTATA
* * * ** * * *
2216310 TATATATATATATATATTCGAAAA-TGTTTTCTAAATTATATATTATA-TATTTTCCAAAATGTT
1 TATATA-ATATATATTTTCAAAAATTATTTTAAAAACTATATATTATATTATTTTTCAAAATATT
2216373 TTCAAAAATGTTTTTTCAAAAC
65 TTC-AAAATG-TTTTTCAAAAC
* * * * *
2216395 TTTATAATATATATTTTCAAAAATTATTTTCAAAACTATA-ATATATATATATATAT-ATATATA
1 TATATAATATATATTTTCAAAAATTATTTTAAAAACTATATAT-TATAT-TATTTTTCA-AAATA
*
2216458 TATTCAAAATCG-TTTTCAAAAC
63 TTTTCAAAAT-GTTTTTCAAAAC
* * *
2216480 TATATAATATGTATTTTCAAAAGCGTT-TTTTAAAAACTATATATTATATTTTTTTTCAAAATAT
1 TATATAATATATATTTTCAAAA--ATTATTTTAAAAACTATATATTATATTATTTTTCAAAATAT
2216544 TTTCAAAA
64 TTTCAAAA
2216552 CTATATAATA
Statistics
Matches: 126, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
84 17 0.13
85 68 0.54
86 25 0.20
87 16 0.13
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (84 bp):
TATATAATATATATTTTCAAAAATTATTTTAAAAACTATATATTATATTATTTTTCAAAATATTT
TCAAAATGTTTTTCAAAAC
Found at i:2216624 original size:72 final size:72
Alignment explanation
Indices: 2216470--2216650 Score: 204
Period size: 72 Copynumber: 2.5 Consensus size: 72
2216460 TTCAAAATCG
* * * *
2216470 TTTTCAAAACTATATAATAT-GTATTTTCAAAAGCGTTTTTTAAAAACTATATATTATATTTTTT
1 TTTTCAAAACTATATAATATATTATTTTCAAAA--GTGTTTTAAAAACTATATATTATATATGTT
**
2216534 TTCAAAATA
64 TAAAAAATA
* *
2216543 TTTTCAAAACTATATAATATATTTTTTTCAAAA-TGTTTTCAAAACTAATATATTATATATGTTT
1 TTTTCAAAACTATATAATATATTATTTTCAAAAGTGTTTTAAAAACT-ATATATTATATATGTTT
2216607 AAAAAATA
65 AAAAAATA
* *
2216615 TTTTAAAAACTATTTAATATATATATATATTCAAAA
1 TTTTCAAAACTATATAATATAT-TAT-T-TTCAAAA
2216651 ATCATTTTCA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
71 11 0.12
72 41 0.45
73 22 0.24
74 11 0.12
75 7 0.08
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (72 bp):
TTTTCAAAACTATATAATATATTATTTTCAAAAGTGTTTTAAAAACTATATATTATATATGTTTA
AAAAATA
Found at i:2219051 original size:22 final size:22
Alignment explanation
Indices: 2219026--2219074 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2219016 ATATATTTAT
2219026 TAATATTTCTAATAATATAATA
1 TAATATTTCTAATAATATAATA
* *
2219048 TAATATTTTTAATATTATAATA
1 TAATATTTCTAATAATATAATA
*
2219070 AAATA
1 TAATA
2219075 ATCAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTCTAATAATATAATA
Found at i:2219089 original size:23 final size:25
Alignment explanation
Indices: 2219059--2219111 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
2219049 AATATTTTTA
*
2219059 ATATTATAATAA-A-ATAATCAATT
1 ATATTATAATAATATATAATCAAAT
2219082 ATATTATAATAATATATAATCAAAT
1 ATATTATAATAATATATAATCAAAT
2219107 ATATT
1 ATATT
2219112 TTTATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 12 0.44
24 1 0.04
25 14 0.52
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATTATAATAATATATAATCAAAT
Found at i:2219126 original size:31 final size:29
Alignment explanation
Indices: 2219035--2219140 Score: 94
Period size: 31 Copynumber: 3.7 Consensus size: 29
2219025 TTAATATTTC
* *
2219035 TAATAATATAATATAA-TATTTTTAATATTA
1 TAAT-ATATAATA-AATTATTTTTATTATAA
* * *
2219065 TAATA-A-AAT-AATCAATTATATTATAA
1 TAATATATAATAAATTATTTTTATTATAA
*
2219091 TAATATATAATCAAATATATTTTTATTTTAA
1 TAATATATAAT-AAAT-TATTTTTATTATAA
2219122 TAATATATAATAAATTATT
1 TAATATATAATAAATTATT
2219141 AATAAAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
25 2 0.03
26 14 0.23
27 4 0.07
28 4 0.07
29 5 0.08
30 11 0.18
31 21 0.34
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATATATAATAAATTATTTTTATTATAA
Found at i:2219212 original size:19 final size:19
Alignment explanation
Indices: 2219176--2219256 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
2219166 TTCATAGAAA
*
2219176 TAAT-ATTATTAA-ATTAT
1 TAATAATTAATAATATTAT
*
2219193 TAATAATGAATAATATTAT
1 TAATAATTAATAATATTAT
* * *
2219212 TTATACATTTAATAGTAATA-
1 TAATA-A-TTAATAATATTAT
2219232 TAATAATCTAATAATATT-T
1 TAATAAT-TAATAATATTAT
2219251 TAATAA
1 TAATAA
2219257 AGATATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.08
18 7 0.14
19 24 0.49
20 5 0.10
21 9 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATAATTAATAATATTAT
Found at i:2219231 original size:27 final size:26
Alignment explanation
Indices: 2219151--2219231 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
2219141 AATAAAATTT
* *
2219151 ATATTATTTATTAATTTCATAGAAATA
1 ATATTATTTA-TAATTTAATAGTAATA
*
2219178 ATATTA-TTA-AATTATTAATAATGAATA
1 ATATTATTTATAA-T-TTAATAGT-AATA
2219205 ATATTATTTATACATTTAATAGTAATA
1 ATATTATTTATA-ATTTAATAGTAATA
2219232 TAATAATCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
24 2 0.05
25 1 0.02
26 8 0.18
27 20 0.45
28 10 0.23
29 2 0.05
30 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
ATATTATTTATAATTTAATAGTAATA
Found at i:2219451 original size:24 final size:23
Alignment explanation
Indices: 2219367--2219451 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 23
2219357 TAATATTTTA
2219367 ATAATAAATAA-ATTATTTTAATATT
1 ATAATAAATAATATTA-TTT-AT-TT
* * *
2219392 TTAA-AAATAATAATATTAAGTTTT
1 ATAATAAATAATATTATTTA--TTT
*
2219416 ATGATAAATAATATTATTTATTGT
1 ATAATAAATAATATTATTTATT-T
2219440 ATAATAAATAAT
1 ATAATAAATAAT
2219452 TTTTAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
23 3 0.06
24 24 0.51
25 20 0.43
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
ATAATAAATAATATTATTTATTT
Found at i:2219567 original size:14 final size:14
Alignment explanation
Indices: 2219550--2219583 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2219540 AAATATAATT
2219550 CATTTTACGGAAAA
1 CATTTTACGGAAAA
*
2219564 CATTTTTCGGAAAA
1 CATTTTACGGAAAA
*
2219578 CGTTTT
1 CATTTT
2219584 CAGTGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (14 bp):
CATTTTACGGAAAA
Found at i:2222966 original size:22 final size:22
Alignment explanation
Indices: 2222941--2222987 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
2222931 CATTGTGACC
2222941 TTGCATTCTCATTTGACATACA
1 TTGCATTCTCATTTGACATACA
2222963 TTGCATTCTCATTTGACATACA
1 TTGCATTCTCATTTGACATACA
2222985 TTG
1 TTG
2222988 GGAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (22 bp):
TTGCATTCTCATTTGACATACA
Found at i:2223745 original size:2 final size:2
Alignment explanation
Indices: 2223734--2223813 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
2223724 TATTTATGAT
2223734 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2223775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2223814 TGGTTCTAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2229321 original size:14 final size:14
Alignment explanation
Indices: 2229302--2229340 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
2229292 CTTTCATCTA
*
2229302 ATCTCTCTATCTCT
1 ATCTCTATATCTCT
2229316 ATCTCTATATCTCT
1 ATCTCTATATCTCT
2229330 ATCTCTATATC
1 ATCTCTATATC
2229341 CTCCACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.49
Consensus pattern (14 bp):
ATCTCTATATCTCT
Found at i:2232441 original size:22 final size:22
Alignment explanation
Indices: 2232399--2232441 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2232389 AAAGTCAACG
* * *
2232399 GTCAACGGTCGGGTTGGGTCGA
1 GTCAACAGTCGGGTCGAGTCGA
2232421 GTCAACAGTCGGGTCGAGTCG
1 GTCAACAGTCGGGTCGAGTCG
2232442 GGTCGGTCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.21, G:0.42, T:0.21
Consensus pattern (22 bp):
GTCAACAGTCGGGTCGAGTCGA
Found at i:2239736 original size:14 final size:14
Alignment explanation
Indices: 2239717--2239745 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2239707 CAACGGTCAA
2239717 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
2239731 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
2239745 C
1 C
2239746 AGACCGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.55, T:0.21
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:2247520 original size:3 final size:3
Alignment explanation
Indices: 2247505--2247546 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
2247495 CTATATAATA
* *
2247505 TAT TAT ATAT TAT TAT TAT TGT TAT TAT TAT TA- AAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2247547 AAGACCCGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 29 0.88
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2248590 original size:29 final size:29
Alignment explanation
Indices: 2248535--2248591 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
2248525 TGAAATCAGG
*
2248535 TTTTATGTATTTTTAATTTGGGTTTTGCA
1 TTTTATGTATTTTTAATTTGAGTTTTGCA
* *
2248564 TTTTATTTATTTTT-ATTTTAGTCTTTGC
1 TTTTATGTATTTTTAATTTGAGT-TTTGC
2248592 TTGTCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (29 bp):
TTTTATGTATTTTTAATTTGAGTTTTGCA
Found at i:2256438 original size:60 final size:60
Alignment explanation
Indices: 2256337--2256449 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
2256327 TTTCTCACAA
*
2256337 ATTTGTAAATCCTCCGGGTTATTTGTAAATCCTACATGTCATTTGTAAATCCTACGGGTC
1 ATTTGTAAATCCTCCGGGTCATTTGTAAATCCTACATGTCATTTGTAAATCCTACGGGTC
*
2256397 ATTTGTAAATCCTCCGGGTCATTTGTAAATCCTTC-TGGTCATTTGTAAATCCT
1 ATTTGTAAATCCTCCGGGTCATTTGTAAATCCTACAT-GTCATTTGTAAATCCT
2256450 TCGGTTATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
59 1 0.02
60 49 0.98
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (60 bp):
ATTTGTAAATCCTCCGGGTCATTTGTAAATCCTACATGTCATTTGTAAATCCTACGGGTC
Found at i:2256451 original size:20 final size:20
Alignment explanation
Indices: 2256337--2256449 Score: 163
Period size: 20 Copynumber: 5.7 Consensus size: 20
2256327 TTTCTCACAA
* *
2256337 ATTTGTAAATCCTCCGGGTT
1 ATTTGTAAATCCTACGGGTC
**
2256357 ATTTGTAAATCCTACATGTC
1 ATTTGTAAATCCTACGGGTC
2256377 ATTTGTAAATCCTACGGGTC
1 ATTTGTAAATCCTACGGGTC
*
2256397 ATTTGTAAATCCTCCGGGTC
1 ATTTGTAAATCCTACGGGTC
* *
2256417 ATTTGTAAATCCTTCTGGTC
1 ATTTGTAAATCCTACGGGTC
2256437 ATTTGTAAATCCT
1 ATTTGTAAATCCT
2256450 TCGGTTATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTTGTAAATCCTACGGGTC
Found at i:2259701 original size:19 final size:20
Alignment explanation
Indices: 2259679--2259719 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
2259669 TTTTTTGAAA
*
2259679 TTTTGGCTTTTTT-TTTTTT
1 TTTTGCCTTTTTTGTTTTTT
2259698 TTTTGCCTTTTTTGTTTTTT
1 TTTTGCCTTTTTTGTTTTTT
2259718 TT
1 TT
2259720 AAAATAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (20 bp):
TTTTGCCTTTTTTGTTTTTT
Found at i:2261040 original size:35 final size:35
Alignment explanation
Indices: 2260990--2261146 Score: 181
Period size: 35 Copynumber: 4.5 Consensus size: 35
2260980 CTCAATCTTT
* *
2260990 ACGGAATAGTTGTGAAGTAGAACAAACCAACCTTC
1 ACGGAAGAGTAGTGAAGTAGAACAAACCAACCTTC
**
2261025 ACGGAAGAGTAGTGAAGTAGAACAAGTCAACCTTC
1 ACGGAAGAGTAGTGAAGTAGAACAAACCAACCTTC
* ** *
2261060 ACGGAAGAGTAGTGAAGTCA-ATCATTCCAGCCTTC
1 ACGGAAGAGTAGTGAAGT-AGAACAAACCAACCTTC
* * ** *
2261095 AAGGAAGAGTAGTGAATTAGAACATCCCAGCCTTC
1 ACGGAAGAGTAGTGAAGTAGAACAAACCAACCTTC
2261130 ACGGAAGAGTAGTGAAG
1 ACGGAAGAGTAGTGAAG
2261147 CAAGATCAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 103 0.98
36 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (35 bp):
ACGGAAGAGTAGTGAAGTAGAACAAACCAACCTTC
Found at i:2261361 original size:9 final size:8
Alignment explanation
Indices: 2261332--2261379 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
2261322 CTATATATTA
2261332 TATTATAT
1 TATTATAT
*
2261340 TATTATTAC
1 TATTA-TAT
2261349 TATTACTAT
1 TATTA-TAT
2261358 TATTATTAT
1 TATTA-TAT
*
2261367 TATTAAAT
1 TATTATAT
2261375 TATTA
1 TATTA
2261380 CAAGACCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 12 0.35
9 22 0.65
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTATAT
Found at i:2261379 original size:3 final size:3
Alignment explanation
Indices: 2261327--2261371 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
2261317 GTTTTCTATA
* *
2261327 TAT TA- TAT TA- TAT TAT TAT TAC TAT TAC TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2261372 AATTATTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2261468 original size:19 final size:19
Alignment explanation
Indices: 2261444--2261487 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2261434 CCCAGTCCAC
*
2261444 AACCCAGTTCAAGCCCAAT
1 AACCCAGTTCAAGCCCAAA
*
2261463 AACCCAGTTCAGGCCCAAA
1 AACCCAGTTCAAGCCCAAA
2261482 AACCCA
1 AACCCA
2261488 CAGGCTTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.39, G:0.11, T:0.11
Consensus pattern (19 bp):
AACCCAGTTCAAGCCCAAA
Found at i:2262427 original size:28 final size:29
Alignment explanation
Indices: 2262372--2262438 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
2262362 GAAATCAGGT
* * *
2262372 TTTTATATATTTTTAATTTGGTTTTTGCA
1 TTTTATTTATTTTTAATTTAGTTCTTGCA
*
2262401 TTTTATTTA-TTTTATTTTAGTTCTTGCA
1 TTTTATTTATTTTTAATTTAGTTCTTGCA
*
2262429 TGTCTATTTA
1 T-TTTATTTA
2262439 CATATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (29 bp):
TTTTATTTATTTTTAATTTAGTTCTTGCA
Found at i:2263982 original size:23 final size:23
Alignment explanation
Indices: 2263928--2263993 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
2263918 TAAATTTATT
***
2263928 ATTATTTTATTATATAATTTTGT
1 ATTATTTTATTATATAATTTAAA
2263951 ATTATTTTATTATATAATTCTAAA
1 ATTATTTTATTATATAATT-TAAA
*
2263975 ATTATTTAATT-TAT-ATTTA
1 ATTATTTTATTATATAATTTA
2263994 TTATTTGCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 3 0.08
23 22 0.58
24 11 0.29
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTATTTTATTATATAATTTAAA
Found at i:2265105 original size:15 final size:14
Alignment explanation
Indices: 2265085--2265121 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
2265075 TAGAGCTACA
2265085 TTTTTTAATTTTAAT
1 TTTTTTAA-TTTAAT
2265100 TTTTTTAATTTAAT
1 TTTTTTAATTTAAT
2265114 TGTTTTTA
1 T-TTTTTA
2265122 TATAATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTTTTAATTTAAT
Found at i:2267936 original size:8 final size:8
Alignment explanation
Indices: 2267903--2267991 Score: 79
Period size: 8 Copynumber: 11.1 Consensus size: 8
2267893 TAGGAGACAT
*
2267903 TTTGAGAA
1 TTTGAGAG
2267911 TTTGAGAG
1 TTTGAGAG
*
2267919 TTTGAAAG
1 TTTGAGAG
2267927 TTTGAGAG
1 TTTGAGAG
**
2267935 TTACAGAG
1 TTTGAGAG
*
2267943 TTTCAGAG
1 TTTGAGAG
*
2267951 TTAGAGAG
1 TTTGAGAG
*
2267959 TTTGAGAA
1 TTTGAGAG
* *
2267967 TTTAAGAT
1 TTTGAGAG
*
2267975 TTTAAGAG
1 TTTGAGAG
*
2267983 ATTGAGAG
1 TTTGAGAG
2267991 T
1 T
2267992 CGGGGAATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 65 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (8 bp):
TTTGAGAG
Found at i:2269286 original size:56 final size:58
Alignment explanation
Indices: 2269168--2269319 Score: 164
Period size: 56 Copynumber: 2.6 Consensus size: 58
2269158 AATGATATTT
* * ** * * *
2269168 TTTTAATTTTTATTTTAAATTATTAAATCTATTTTCTTCTTGTCTTAACCTAAAAATATA
1 TTTT-ATTTTTATTTT-AACTATTAAATATATTTTAATCTTATCATAACATAAAAATATA
2269228 TTTTATTTTTATTTTAACT-TTAAATATA-TTTAATCTTATCATAACATAAAAATATA
1 TTTTATTTTTATTTTAACTATTAAATATATTTTAATCTTATCATAACATAAAAATATA
* * *
2269284 TTTTATTTTTATCTTAATTTTTAAAATTATATTTTA
1 TTTTATTTTTATTTTAACTATT-AAA-TATATTTTA
2269320 TTTTTATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
56 40 0.51
57 10 0.13
58 6 0.08
59 15 0.19
60 8 0.10
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (58 bp):
TTTTATTTTTATTTTAACTATTAAATATATTTTAATCTTATCATAACATAAAAATATA
Found at i:2269367 original size:30 final size:30
Alignment explanation
Indices: 2269328--2269398 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
2269318 TATTTTTATT
* *
2269328 TTAACTTATTACATATATTATATTATTA-A
1 TTAAATTATTACATATATTATAATATTACA
* * *
2269357 CTTAAATTATTAGATATATTTTAATCTTACA
1 -TTAAATTATTACATATATTATAATATTACA
2269388 TTAAATTATTA
1 TTAAATTATTA
2269399 AATACAGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAAATTATTACATATATTATAATATTACA
Found at i:2269498 original size:20 final size:20
Alignment explanation
Indices: 2269470--2269528 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2269460 ATGTATATAT
2269470 ATATTTTTTTTATTTTAAAA
1 ATATTTTTTTTATTTTAAAA
* ** *
2269490 ATATATTTTAAATTTAAAAA
1 ATATTTTTTTTATTTTAAAA
*
2269510 ATATTTTATTTTATCTTAA
1 ATATTTT-TTTTATTTTAA
2269529 TTTAAAATAT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTTTTTTATTTTAAAA
Found at i:2269626 original size:29 final size:29
Alignment explanation
Indices: 2269540--2269659 Score: 120
Period size: 29 Copynumber: 4.1 Consensus size: 29
2269530 TTAAAATATT
* * *
2269540 ATAAGAATAAAATATAAATATTTAAGGTAAG
1 ATAAGAATAAAATAT--ATTTTTAAGTTAAA
* *
2269571 GTAACAATAAAATAT-TTTTTAAGTTAATA
1 ATAAGAATAAAATATATTTTTAAGTTAA-A
2269600 A-AA-AATTAAAATATATTTTTAAGTTAAA
1 ATAAGAA-TAAAATATATTTTTAAGTTAAA
*
2269628 ATAAGAATAAAATATATTTTTAATTTTAAA
1 ATAAGAATAAAATATATTTTTAA-GTTAAA
2269658 AT
1 AT
2269660 TTTAATTTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.03
28 22 0.29
29 30 0.39
30 9 0.12
31 13 0.17
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (29 bp):
ATAAGAATAAAATATATTTTTAAGTTAAA
Found at i:2270366 original size:10 final size:11
Alignment explanation
Indices: 2270348--2270387 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2270338 TTATATTATT
2270348 TAATATTAAAA
1 TAATATTAAAA
2270359 TAAT-TTAAAA
1 TAATATTAAAA
*
2270369 TAAATAATAAAA
1 T-AATATTAAAA
2270381 TAATATT
1 TAATATT
2270388 CCTAACCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 7 0.28
11 12 0.48
12 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:2272231 original size:13 final size:13
Alignment explanation
Indices: 2272213--2272252 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2272203 GATAACAGTG
2272213 AAAAAATATTAAT
1 AAAAAATATTAAT
* *
2272226 AAAAAATAATATT
1 AAAAAATATTAAT
2272239 AATAAAATATTAAT
1 AA-AAAATATTAAT
2272253 TAATACATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:2272238 original size:16 final size:15
Alignment explanation
Indices: 2272213--2272245 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
2272203 GATAACAGTG
2272213 AAAAAATATTAATAA
1 AAAAAATATTAATAA
2272228 AAAATAATATTAATAA
1 AAAA-AATATTAATAA
2272244 AA
1 AA
2272246 TATTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAATATTAATAA
Found at i:2277436 original size:19 final size:20
Alignment explanation
Indices: 2277403--2277450 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
2277393 AATGATTTTC
*
2277403 TTTTG-AAAACAAAAT-TAG
1 TTTTGAAAAACAAAATGAAG
2277421 ATTTTGAAAAAC-AAATGAAG
1 -TTTTGAAAAACAAAATGAAG
2277441 TTTTGAAAAA
1 TTTTGAAAAA
2277451 TGATTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAACAAAATGAAG
Found at i:2283661 original size:18 final size:18
Alignment explanation
Indices: 2283640--2283691 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
2283630 TTTATTTTTT
2283640 TTTTTTTTTTTTTTTCCC
1 TTTTTTTTTTTTTTTCCC
** *
2283658 TTTTTCATTTTTTCTCCC
1 TTTTTTTTTTTTTTTCCC
2283676 TTTTTTTTTTTTTTTC
1 TTTTTTTTTTTTTTTC
2283692 TTTATTTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCCC
Found at i:2283699 original size:9 final size:8
Alignment explanation
Indices: 2283628--2283702 Score: 55
Period size: 8 Copynumber: 9.0 Consensus size: 8
2283618 TTCTTTTTCC
*
2283628 TTTTTATT
1 TTTTTCTT
2283636 TTTTT-TT
1 TTTTTCTT
2283643 TTTTT-TT
1 TTTTTCTT
**
2283650 TTTTTCCC
1 TTTTTCTT
2283658 TTTTTCATT
1 TTTTTC-TT
2283667 TTTTCTCCCTT
1 TTTT-T--CTT
*
2283678 TTTTTTTT
1 TTTTTCTT
2283686 TTTTTCTT
1 TTTTTCTT
2283694 TATTTTCTT
1 T-TTTTCTT
2283703 CATGTGTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
7 14 0.25
8 21 0.38
9 11 0.20
10 2 0.04
11 6 0.11
12 1 0.02
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:2289900 original size:20 final size:21
Alignment explanation
Indices: 2289867--2289907 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2289857 AAAGTTTATC
2289867 TTCTCTGATAAAAC-TTGTCA
1 TTCTCTGATAAAACATTGTCA
2289887 TTCTCCTGAT-AAACATTGTCA
1 TTCT-CTGATAAAACATTGTCA
2289908 AGTGTGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (21 bp):
TTCTCTGATAAAACATTGTCA
Found at i:2294411 original size:14 final size:14
Alignment explanation
Indices: 2294392--2294423 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2294382 ATAATAAAAC
*
2294392 TAAACAAGGGTAAA
1 TAAACAAAGGTAAA
2294406 TAAACAAAGGTAAA
1 TAAACAAAGGTAAA
2294420 TAAA
1 TAAA
2294424 TAAATACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.16, T:0.16
Consensus pattern (14 bp):
TAAACAAAGGTAAA
Found at i:2296578 original size:3 final size:3
Alignment explanation
Indices: 2296570--2296637 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
2296560 TTCGAAAAAC
2296570 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2296618 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
2296638 CTATCTTTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2309567 original size:20 final size:22
Alignment explanation
Indices: 2309515--2309567 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
2309505 ACTGAAAGGG
*
2309515 AGTATCGATACCATAGTATATA
1 AGTACCGATACCATAGTATATA
*
2309537 AGTATCGATACCAT-G-ATA-A
1 AGTACCGATACCATAGTATATA
2309556 AGGTACCGATAC
1 A-GTACCGATAC
2309568 TATTGAGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 1 0.03
22 14 0.48
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (22 bp):
AGTACCGATACCATAGTATATA
Found at i:2318406 original size:54 final size:54
Alignment explanation
Indices: 2318322--2318740 Score: 543
Period size: 54 Copynumber: 7.8 Consensus size: 54
2318312 TACTCTAACA
* *
2318322 ATAATGTATTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCTCGGAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
* *
2318376 ATAATGTGTTTATGAACGACCGTATTGGCACTAAGTGTGCAGCCCATC-GAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCA-CGGAATTC
* * * *
2318430 ATAATGCGTTTATGAACGACTGTATCGACACTAAGTGTGCAACCCAAGGAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
* * * **
2318484 ATAATGTGTTTATAAACGACCGTATCGTCACTAAGTTTGCAACCCATAGAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
** * * * **
2318538 ATAATGTGTTTATGAACGACCGTATTAGTACTAAGTGTGTAATCCACAAAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
* * * *
2318592 ATAATGTGTGTATGAACGACCGCATCGGCACTAAGTGTACAACCCACGAAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
* *
2318646 ATAATGTGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCACGAAATTC
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
* * * **
2318700 ATAATGAGCTTATGAATGACCGTATCGGCACTGCGTGTGCA
1 ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCA
2318741 CCCTAGAGAA
Statistics
Matches: 317, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
54 316 1.00
55 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (54 bp):
ATAATGTGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACGGAATTC
Found at i:2325704 original size:54 final size:54
Alignment explanation
Indices: 2325244--2325690 Score: 653
Period size: 54 Copynumber: 8.3 Consensus size: 54
2325234 TTATTAGCAG
* * *
2325244 TAAGTGTGAAACCCACGAAATTCATAATGTGTTTATGAATGATCGTATCGGCAC
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
* *
2325298 TAAGTGTGTAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGAAC
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
* *
2325352 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGACAG
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
* *
2325406 TAAGTGTGCAACCCACGAAATTCGTAATGTGTTTATGAACGATCGTATCGGCAC
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
** *
2325460 TAAGTGTATAACCCACGGAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
* ** * * *
2325514 TAAGTGTGCAATCCACGGGATTCATAATGTGTTTATAAATGATCGTATCGGCAC
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
*
2325568 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCAGCAC
1 TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
* * * *
2325622 TAAGTGTGCAACCCAC-ATAATTCATAATGAGCTTATGAATGACCGTATTGGCAC
1 TAAGTGTGCAACCCACGA-AATTCATAATGTGTTTATGAACGACCGTATCGGCAC
* *
2325676 TACGTGTGCACCCCA
1 TAAGTGTGCAACCCA
2325691 GAGAACTTAT
Statistics
Matches: 354, Mismatches: 38, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 353 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (54 bp):
TAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCGTATCGGCAC
Found at i:2331393 original size:3 final size:3
Alignment explanation
Indices: 2331374--2331432 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
2331364 TTGTAATTTT
** **
2331374 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TTT TAA TTT TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2331421 TAA TAA TAA TAA
1 TAA TAA TAA TAA
2331433 GCTTAAATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:2331689 original size:76 final size:76
Alignment explanation
Indices: 2331590--2332581 Score: 1797
Period size: 76 Copynumber: 13.0 Consensus size: 76
2331580 GGTCTTATGA
*
2331590 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCC-GAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* *
2331654 TAGGGCTTACAG
65 AAGGACTTACAG
*
2331666 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
2331731 AGGGCTTACAG
66 AGGACTTACAG
*
2331742 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
2331807 AGGGCTTACAG
66 AGGACTTACAG
*
2331818 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2331883 AGGACTTACAG
66 AGGACTTACAG
*
2331894 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2331959 AGGACTTACAG
66 AGGACTTACAG
2331970 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332035 AGGACTTACAG
66 AGGACTTACAG
2332046 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332111 AGGACTTACAG
66 AGGACTTACAG
* *
2332122 ATGACCCGAAGGATTTGAAAATATCAAAAATCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332187 AGGACTTACAG
66 AGGACTTACAG
2332198 ATGACCCGAAGGATTTGAAAACATTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGATTTGAAAACA-TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
2332263 AAGGACTTACAG
65 AAGGACTTACAG
* *
2332275 ATGACCCGAAGGCTTTTAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332340 AGGACTTACAG
66 AGGACTTACAG
* *
2332351 ATGACTCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332416 AGGACTTACAG
66 AGGACTTACAG
2332427 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332492 AGGACTTACAG
66 AGGACTTACAG
* * *
2332503 ATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGACGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
2332568 AGGACTTACAG
66 AGGACTTACAG
2332579 ATG
1 ATG
2332582 TGAGAAATAG
Statistics
Matches: 896, Mismatches: 18, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
75 1 0.00
76 822 0.92
77 73 0.08
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:2333733 original size:54 final size:54
Alignment explanation
Indices: 2333644--2333853 Score: 339
Period size: 54 Copynumber: 3.9 Consensus size: 54
2333634 ATAATCACTG
* * *
2333644 GTTCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
* * * * *
2333698 GTTCATAAAACATTTGACCACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
2333752 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
*
2333806 GTTCGTGAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
2333854 CAAGATTTCT
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 144 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
Found at i:2335398 original size:92 final size:91
Alignment explanation
Indices: 2335152--2335691 Score: 729
Period size: 92 Copynumber: 6.0 Consensus size: 91
2335142 CTTATTTCTA
* * * * *
2335152 CTATGAGCAAAATTCATCTTTCAAATCCAATGATTGATTT-TGGAGTTCATACCAAATCATATCA
1 CTATGAGC-ACATTCATCTTTCAAATTCAATGATTGGTTTGT-G-GTTCATACCAAACCAGATCA
* * *
2335216 AATAATTCAAAGAACACTTCCCAAAAGATG
63 GATAACTCAAAGAACACTT-CCAGAAGATG
* * * *
2335246 CTATGAGCACATTCATCTTCCAAATCCAATGATTGATTT-TGGAGTTCATACCAAATCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTGT-G-GTTCATACCAAACCAGATCAG
2335310 ATAACTCAAAGAACACTTCCAGAAGATG
64 ATAACTCAAAGAACACTTCCAGAAGATG
*
2335338 CTATGAGCACATTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTT-TGTGGTTCATACCAAACCAGATCAGA
2335403 TAACTCAAAGAACACTTCCAGAAGATG
65 TAACTCAAAGAACACTTCCAGAAGATG
*
2335430 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTT-TGTGGTTCATACCAAACCAGATCAGA
2335495 TAACTCAAAGAACACTTCCAGAAGATG
65 TAACTCAAAGAACACTTCCAGAAGATG
* *
2335522 CTATAAGTACATTCATCTTTCAAATTCAATGATT-G---GT--TT--TACCAAACCAGATCAGAT
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTGTGGTTCATACCAAACCAGATCAGAT
2335579 AACTCAAAGAACACTTCCAGAAGATG
66 AACTCAAAGAACACTTCCAGAAGATG
2335605 CTATGAGCACATTCATCTTTCAAATTCAATGATT-G---GT--TT--TACCAAACCAGATCAGAT
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTGTGGTTCATACCAAACCAGATCAGAT
*
2335662 AACTCAAAAAACACTTCCAGAAGATG
66 AACTCAAAGAACACTTCCAGAAGATG
2335688 CTAT
1 CTAT
2335692 AAGTATATTG
Statistics
Matches: 425, Mismatches: 19, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
83 128 0.30
85 2 0.00
87 2 0.00
91 1 0.00
92 212 0.50
93 71 0.17
94 9 0.02
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (91 bp):
CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTGTGGTTCATACCAAACCAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATG
Found at i:2335575 original size:83 final size:83
Alignment explanation
Indices: 2335478--2335696 Score: 411
Period size: 83 Copynumber: 2.6 Consensus size: 83
2335468 CTGTGGTTCA
2335478 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGTACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGTACATTCATCTTTC
2335543 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
* *
2335561 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGTACATTCATCTTTC
2335626 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
*
2335644 TACCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATAAGTA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGTA
2335697 TATTGCATTT
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 131 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATAAGTACATTCATCTTTC
AAATTCAATGATTGGTTT
Found at i:2342470 original size:15 final size:17
Alignment explanation
Indices: 2342437--2342478 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2342427 TTAATACCTG
*
2342437 AATAAAAACAATATTAAT
1 AATAAAAATAATA-TAAT
2342455 -ATAAAAATAATA-AAT
1 AATAAAAATAATATAAT
2342470 AATAAAAAT
1 AATAAAAAT
2342479 TTTAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 11 0.50
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAAATAATATAAT
Found at i:2342513 original size:20 final size:21
Alignment explanation
Indices: 2342463--2342514 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
2342453 ATATAAAAAT
2342463 AATAAAT-AA-TAAAAATTTTA
1 AATAAATGAATTAAAAA-TTTA
* *
2342483 AAGAAAAGAATTAAAAA-TTA
1 AATAAATGAATTAAAAATTTA
2342503 AATAAATGAATT
1 AATAAATGAATT
2342515 TTTAATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 18 0.69
21 2 0.08
22 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAAATGAATTAAAAATTTA
Found at i:2344734 original size:3 final size:3
Alignment explanation
Indices: 2344715--2344773 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
2344705 TTGTAATTTT
** **
2344715 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TTT TAA TTT TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2344762 TAA TAA TAA TAA
1 TAA TAA TAA TAA
2344774 GCTTAAATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:2354087 original size:18 final size:17
Alignment explanation
Indices: 2354064--2354116 Score: 81
Period size: 18 Copynumber: 3.1 Consensus size: 17
2354054 TAACCCCTCC
2354064 ACAAGTGTCACCCCTAA
1 ACAAGTGTCACCCCTAA
*
2354081 TACAAGTGTCACCCCTCA
1 -ACAAGTGTCACCCCTAA
2354099 A-AAGTGTCACCCCTAA
1 ACAAGTGTCACCCCTAA
2354115 AC
1 AC
2354117 TCTTACAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 15 0.47
17 1 0.03
18 16 0.50
ACGTcount: A:0.34, C:0.36, G:0.11, T:0.19
Consensus pattern (17 bp):
ACAAGTGTCACCCCTAA
Found at i:2354105 original size:16 final size:16
Alignment explanation
Indices: 2354056--2354112 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
2354046 TATTCAGGTA
*
2354056 ACCCCTCCACAAGTGTC
1 ACCCCT-CAAAAGTGTC
*
2354073 ACCCCTAATACAAGTGTC
1 ACCCCTCA-A-AAGTGTC
2354091 ACCCCTCAAAAGTGTC
1 ACCCCTCAAAAGTGTC
2354107 ACCCCT
1 ACCCCT
2354113 AAACTCTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 14 0.40
17 7 0.20
18 14 0.40
ACGTcount: A:0.28, C:0.42, G:0.11, T:0.19
Consensus pattern (16 bp):
ACCCCTCAAAAGTGTC
Found at i:2364670 original size:18 final size:18
Alignment explanation
Indices: 2364647--2364683 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2364637 CCATCAAATT
*
2364647 ATATTAATGGATAAAGAG
1 ATATTAATAGATAAAGAG
2364665 ATATTAATAGATAAAGAG
1 ATATTAATAGATAAAGAG
2364683 A
1 A
2364684 GTGTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (18 bp):
ATATTAATAGATAAAGAG
Found at i:2371114 original size:16 final size:16
Alignment explanation
Indices: 2371075--2371117 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2371065 ATTTATCCTA
2371075 TTATTAAAAA-ATTAT
1 TTATTAAAAATATTAT
* **
2371090 ATAAAAAAAATATTAT
1 TTATTAAAAATATTAT
2371106 TTATTAAAAATA
1 TTATTAAAAATA
2371118 CAGAAAAGAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTATTAAAAATATTAT
Found at i:2372707 original size:3 final size:3
Alignment explanation
Indices: 2372699--2372762 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
2372689 TTAATATATT
*
2372699 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2372747 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
2372763 TAATTAATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2373230 original size:113 final size:113
Alignment explanation
Indices: 2372994--2373990 Score: 1602
Period size: 113 Copynumber: 8.9 Consensus size: 113
2372984 GATAGAGTTA
* *
2372994 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGATTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G--TTCTTCTCATTAT
* * * * * *
2373059 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGA
63 GAACT-TTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
* *
2373110 TTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
2373175 CTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAA-ATGATGAATTCAGGTAAAAGG
2373224 -TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
2373288 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAA-ATGATGAATTCAGGTAAAAGG
2373337 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
2373402 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
*
2373450 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
2373515 CCTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
*
2373563 TTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-C-TCTTCAGATGAGTTCTTCTTATTATGA
1 -TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
2373626 ACCTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAGGTAAAAGG
65 ACTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
*
2373675 TTGAACAAATTC-TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
2373739 CCTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAGGT-AAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
2373786 TTGAACAAATTCTTCTCATTATGAACTTC-T-TTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
2373849 CTTTCTCT-GAAATGATGATCCATCAAATGATGGATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
2373896 TTG-ACAAATTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
2373959 CTTTCTCTGGAAATGATGATCCATCAAATGAT
66 CTTTCTCTGGAAATGATGATCCATCAAATGAT
2373991 AGATTTGAAT
Statistics
Matches: 845, Mismatches: 25, Indels: 27
0.94 0.03 0.03
Matches are distributed among these distances:
109 58 0.07
110 109 0.13
111 54 0.06
112 164 0.19
113 275 0.33
114 138 0.16
115 1 0.00
116 46 0.05
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG
Found at i:2373406 original size:227 final size:226
Alignment explanation
Indices: 2372994--2373990 Score: 1620
Period size: 227 Copynumber: 4.4 Consensus size: 226
2372984 GATAGAGTTA
* *
2372994 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGATTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G--TTCTTCTCATTAT
* * * * * * * *
2373059 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGATTAAACAAGTTCT
63 GAAC-CTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCT
2373123 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
127 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
* * *
2373188 AGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
192 TGATGATCCATCAA-ATGATGAATTCAGGTAAAAGG
2373224 -TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
2373288 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
66 CCTTCTCTGGAAATGATGATCCATCAA-ATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
2373353 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
130 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
2373418 TGATCCATCAAATGATGAATTCAGGTAAAAGG
195 TGATCCATCAAATGATGAATTCAGGTAAAAGG
*
2373450 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
2373515 CCTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTTGAACAAATTCTTCT
66 CCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGG-TTGAACAAATTCTTCT
* *
2373580 CATTATGAACTTCTTCTT-C-TCTTCAGATGAGTTCTTCTTATTATGAACCTTCTCTGGAAATGA
130 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
*
2373643 TGATCCATCAAATGATGGATTCAGGTAAAAGG
195 TGATCCATCAAATGATGAATTCAGGTAAAAGG
*
2373675 TTGAACAAATTC-TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
2373739 CCTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAGGT-AAAGGTTGAACAAATTCTTCTC
66 CCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTC
2373803 ATTATGAACTTC-T-TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAATGAT
131 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGAT
*
2373865 GATCCATCAAATGATGGATTCAGGTAAAAGG
196 GATCCATCAAATGATGAATTCAGGTAAAAGG
2373896 TTG-ACAAATTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
2373959 CTTTCTCTGGAAATGATGATCCATCAAATGAT
66 CCTTCTCTGGAAATGATGATCCATCAAATGAT
2373991 AGATTTGAAT
Statistics
Matches: 731, Mismatches: 29, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
220 72 0.10
221 63 0.09
222 63 0.09
223 5 0.01
224 94 0.13
225 88 0.12
226 74 0.10
227 226 0.31
228 1 0.00
229 45 0.06
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTC
ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGAT
GATCCATCAAATGATGAATTCAGGTAAAAGG
Found at i:2373708 original size:340 final size:338
Alignment explanation
Indices: 2372994--2373995 Score: 1617
Period size: 340 Copynumber: 3.0 Consensus size: 338
2372984 GATAGAGTTA
* *
2372994 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGATTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G--TTCTTCTCATTAT
* * * * * * * *
2373059 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGATTAAACAAGTTCT
63 GAACT-TTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCT
2373123 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
127 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
* * * *
2373188 AGATAATCCATCAATTTGATGAATTCAGGTAAAAGG-TGAACAAATTCTTCTCATTATGAACTTC
192 TGATGATCCATCAA-ATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
* * * *
2373252 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCATCAATT
256 TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCAA-A
*
2373317 TGATGAATTCAGGTAAAAGG
319 TGATGGATTCAGGTAAAAGG
2373337 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
2373402 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTC
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTC
* *
2373467 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACCTTCTCTGGAAATGAT
131 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGAT
2373532 GATCCATCAAATGATGGATTCAGGTAAAAGGTTTGAACAAATTCTTCTCATTATGAACTTCTTCT
196 GATCCATCAAATGATGGATTCAGGTAAAAGG-TTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
2373597 TC-TCTTCAGATGAGTTCTTCTTATTATGAACCTTCTCTGGAAATGATGATCCATCAAATGATGG
260 TCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCAAATGATGG
2373661 ATTCAGGTAAAAGG
325 ATTCAGGTAAAAGG
*
2373675 TTGAACAAATTC-TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
2373739 CCTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAGGT-AAAGGTTGAACAAATTCTTCTC
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTC
2373803 ATTATGAACTTC-T-TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAATGAT
131 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGAT
*
2373865 GATCCATCAAATGATGGATTCAGGTAAAAGGTTG-ACAAATTCTTCTCATTATGAACTTCTTCTC
196 GATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
* *
2373929 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATAGA
261 CTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCAAATGATGGA
2373994 TT
326 TT
2373996 TGAATCTTTT
Statistics
Matches: 624, Mismatches: 31, Indels: 19
0.93 0.05 0.03
Matches are distributed among these distances:
331 30 0.05
332 65 0.10
333 39 0.06
334 39 0.06
335 1 0.00
336 34 0.05
337 91 0.15
338 31 0.05
339 72 0.12
340 142 0.23
341 33 0.05
342 1 0.00
343 46 0.07
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (338 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTC
ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGAT
GATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
CTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAATGATGATCCATCAAATGATGGA
TTCAGGTAAAAGG
Found at i:2374851 original size:83 final size:83
Alignment explanation
Indices: 2374719--2375524 Score: 1491
Period size: 83 Copynumber: 9.7 Consensus size: 83
2374709 AGTTCTTACC
*
2374719 AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACACATTCATCTTCTAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAAT
2374783 TCAATGATTTGTTCTGCCA
65 TCAATGATTTGTTCTGCCA
2374802 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
2374867 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
2374885 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
2374950 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
2374968 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
2375033 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
2375051 AACCAGATCA-ATAACTCAAAGAACACTTCCAGAAGATGC--TG-ACACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
2375112 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
2375130 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
2375195 CAATGATTTGTTCTGCCA
66 CAATGATTTGTTCTGCCA
*
2375213 AACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
2375278 CAATGATTTGTTCT-CTCA
66 CAATGATTTGTTCTGC-CA
2375296 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAAACACATTCATCTTCTAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-AACACATTCATCTTCTAAAT
2375361 TCAATGATTTGTTCTGCCA
65 TCAATGATTTGTTCTGCCA
2375380 AACCAGATCAGATAAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAAT
1 AACCAGATCAGAT-AACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAAT
2375445 TCAATGATTTGTTCTGCCA
65 TCAATGATTTGTTCTGCCA
*
2375464 AACAAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACACATTCATCTTCTA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTA
2375525 GTTAATGTTG
Statistics
Matches: 709, Mismatches: 4, Indels: 20
0.97 0.01 0.03
Matches are distributed among these distances:
79 48 0.07
80 31 0.04
82 34 0.05
83 461 0.65
84 103 0.15
85 32 0.05
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAATT
CAATGATTTGTTCTGCCA
Found at i:2376664 original size:15 final size:13
Alignment explanation
Indices: 2376642--2376706 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 13
2376632 CCTTGACCCC
2376642 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
2376655 ACTCTTTTTCTTTTT
1 -CT-TTTTTCTTTTT
2376670 C-TTTTT-TTTTT
1 CTTTTTTCTTTTT
*
2376681 CTTTTCTTTTTTCTT
1 CTTTT-TTCTTT-TT
2376696 CATTTTTTCTT
1 C-TTTTTTCTT
2376707 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
11 6 0.14
12 8 0.18
13 2 0.05
14 6 0.14
15 18 0.41
16 4 0.09
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTTCTTTTT
Found at i:2376666 original size:6 final size:6
Alignment explanation
Indices: 2376657--2376691 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
2376647 TTCTTTTTAC
2376657 TCTTTT TCTTTT TCTTTT T-TTTT TC-TTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
2376692 TCTTCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TCTTTT
Found at i:2376679 original size:11 final size:11
Alignment explanation
Indices: 2376657--2376706 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
2376647 TTCTTTTTAC
2376657 TCTTTTTCTTTT
1 TCTTTTT-TTTT
2376669 TCTTTTTTTTT
1 TCTTTTTTTTT
2376680 TCTTTTCTTTTT
1 TCTTTT-TTTTT
**
2376692 TCTTCATTTTT
1 TCTTTTTTTTT
2376703 TCTT
1 TCTT
2376707 CAAGCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
11 19 0.54
12 16 0.46
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:2376701 original size:23 final size:22
Alignment explanation
Indices: 2376660--2376706 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
2376650 TTTTTACTCT
**
2376660 TTTTCTTTTTCTTTTTTTTTTC
1 TTTTCTTTTTCTTCATTTTTTC
2376682 TTTTCTTTTTTCTTCATTTTTTC
1 TTTTC-TTTTTCTTCATTTTTTC
2376705 TT
1 TT
2376707 CAAGCATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCTTTTTCTTCATTTTTTC
Found at i:2385913 original size:181 final size:174
Alignment explanation
Indices: 2385599--2385954 Score: 640
Period size: 181 Copynumber: 2.0 Consensus size: 174
2385589 ATTAATCCAC
2385599 ATATCTTTCTTAATTTCTTTCGGCCATTCTGCTCCAGAAATTCTTTAATGGTGAGTAATCCTTAA
1 ATATCTTTCTTAATTTCTTTCGGCCATTCTGCTCCAGAAATTCTTTAATGGTGAGTAATCCTTAA
2385664 AAGCGTCGGTATGAAACCTTTTCTGTCTTCCAGAATGACTACGGATCCAAACATATAACAACTGG
66 AAGCGTCGGTATGAAACCTTTTCTGTCTTCCAGAATGACTACGGATCCAAACATATAACAACTGG
2385729 GTACACCCTGAAAATCGTCCACCTCCAATCTTTCTACAAGCATTTA
131 GTACACCCTGAAAATCGTCCACCTCC-ATCTTT-TACAAGCATTTA
2385775 ATATCTTTCTTAATTTCTTTCGGCCATTCCTGCTCCAGAAATTCTTTTAATGGTGAGTAATCCGT
1 ATATCTTTCTTAATTTCTTTCGGCCATT-CTGCTCCAGAAATTC-TTTAATGGTGAGTAATCC-T
*
2385840 ATTAAAGCGTCGGTATGAAACCTTTTCTGTCTTCCAGAAATGACTACGGATCCAAACATATAACA
63 -TAAAAGCGTCGGTATGAAACCTTTTCTGTCTTCCAG-AATGACTACGGATCCAAACATATAACA
2385905 ACTGGGTACACCCTGAAAATCGTCCACCTCCATCTTTTACAAGCATTTA
126 ACTGGGTACACCCTGAAAATCGTCCACCTCCATCTTTTACAAGCATTTA
2385954 A
1 A
2385955 CGATCTGAAG
Statistics
Matches: 174, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
176 28 0.16
177 15 0.09
178 18 0.10
179 14 0.08
180 41 0.24
181 58 0.33
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (174 bp):
ATATCTTTCTTAATTTCTTTCGGCCATTCTGCTCCAGAAATTCTTTAATGGTGAGTAATCCTTAA
AAGCGTCGGTATGAAACCTTTTCTGTCTTCCAGAATGACTACGGATCCAAACATATAACAACTGG
GTACACCCTGAAAATCGTCCACCTCCATCTTTTACAAGCATTTA
Found at i:2387338 original size:15 final size:13
Alignment explanation
Indices: 2387306--2387345 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
2387296 ACCTTTGACA
*
2387306 GAAAAAAAATAAT
1 GAAATAAAATAAT
2387319 GAAATAAAATAATT
1 GAAATAAAATAA-T
2387333 GCAAATAAAATAA
1 G-AAATAAAATAA
2387346 AACATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 2 0.08
15 11 0.46
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (13 bp):
GAAATAAAATAAT
Found at i:2388700 original size:3 final size:3
Alignment explanation
Indices: 2388692--2388752 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
2388682 CCATTAATTA
* * *
2388692 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATA ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2388740 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
2388753 AATATATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2388760 original size:12 final size:11
Alignment explanation
Indices: 2388698--2388764 Score: 61
Period size: 12 Copynumber: 6.2 Consensus size: 11
2388688 ATTAATTATT
2388698 ATTATTATTATA
1 ATTATTATTA-A
2388710 ATTATTATTATA
1 ATTATTATTA-A
2388722 ATTATTATT--
1 ATTATTATTAA
* *
2388731 ATTATCATTATT
1 ATTATTATTA-A
2388743 ATTATTATTAA
1 ATTATTATTAA
2388754 A-TA-TATTAA
1 ATTATTATTAA
2388763 AT
1 AT
2388765 AAATATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 15 0.31
10 2 0.04
11 1 0.02
12 30 0.62
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTATTATTAA
Found at i:2391480 original size:32 final size:32
Alignment explanation
Indices: 2391434--2391496 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
2391424 TGCATGTTGC
*
2391434 ATCATTTAAGATAATAATGTGGTATATGTCAT
1 ATCATTTAAGATAATAATGTGATATATGTCAT
* * *
2391466 ATCATTTGATATAATAATGTGATATGTGTCA
1 ATCATTTAAGATAATAATGTGATATATGTCA
2391497 CAATGTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (32 bp):
ATCATTTAAGATAATAATGTGATATATGTCAT
Found at i:2391627 original size:265 final size:270
Alignment explanation
Indices: 2391150--2391960 Score: 915
Period size: 265 Copynumber: 3.0 Consensus size: 270
2391140 ATCCAAGGTA
* * *
2391150 ATGATATAGTACATGTTACGTCATCTAAAATAATTATGTGGTATGTGTCATATCATATGATATAA
1 ATGA-ATAG-ACATGTTGCGTCATCTAAGATAATAATGTGGTATGTGTCATATCATATGATATAA
* * * * * * *
2391215 TAATGTAACATGTGTTACAATGTCCAAAATAAGGACATGACATATTATGGAGTACAAAAATTAAG
64 TAATGTGATATGTGTCACAATGTCCAAAATAATGACGTGACATATTATGGAGTAAAAAAATAAAG
2391280 TCGAATTTGAGTATGTTTCTTGTTTGTTTAAAGATTGTAAACTATAATCAACACTTATTTATGTA
129 TCGAATTTGAGTATGTTTCTTGTTTGTTTAAAGATTGTAAACTATAATCAACACTTATTTATGTA
* * *
2391345 CTCATTGAGAAGTCAAAATCGGATAAACACCTTTCATTTTTGTGCAGTGAGTGCACAATCACTTT
194 CTCATTGAGAGGTCAAAATCAGATACACACCTTTCATTTTTGTGCAG-GAGTGCACAATCACTTT
2391410 GAATGA-TG-AT-
258 GAATGATTGAATG
* * * *
2391420 ATG-AT-G-CATGTTGCATCATTTAAGATAATAATGTGGTATATGTCATATCATTTGATATAATA
1 ATGAATAGACATGTTGCGTCATCTAAGATAATAATGTGGTATGTGTCATATCATATGATATAATA
* * * *
2391482 ATGTGATATGTGTCACAATGTCCAAAATAATAATGTGACATATTATGGAATAAAAAAATAAAGTT
66 ATGTGATATGTGTCACAATGTCCAAAATAATGACGTGACATATTATGGAGTAAAAAAATAAAGTC
* * * * * * *
2391547 GAATTTGAGTATGTTTATTATGTGTTTAGAGATTGCAAATTATAATCAACACTTATTTATGTGCT
131 GAATTTGAGTATGTTTCTTGTTTGTTTAAAGATTGTAAACTATAATCAACACTTATTTATGTACT
* * * * *
2391612 TATTAAGAGGTCAAAACCTG-TGACACACCTTT-ATTTTTTGTGCGGGGAGTGCACAATCACTTT
196 CATTGAGAGGTCAAAATCAGAT-ACACACCTTTCA-TTTTTGTGC-AGGAGTGCACAATCACTTT
2391675 GAATGATGTTTCGCTTTGAATG
258 GAATGA---------TTGAATG
* * * *
2391697 ATGATATAGTACATGTTGCGTC-TCCTAAGATAATGATGTGGTATGTGTCATCTCATCTAATATA
1 ATGA-ATAG-ACATGTTGCGTCAT-CTAAGATAATAATGTGGTATGTGTCATATCATATGATATA
* * * ** *
2391761 ATAATATGATATGTGTCACAATGTCTAAAATAATGACGTGGCATAAAATGGAGTACAAAAATTAA
63 ATAATGTGATATGTGTCACAATGTCCAAAATAATGACGTGACATATTATGGAGTA-AAAAAATAA
* * * * *
2391826 A-TCGAATTTTAGTATGTCTCTTGTTTATTTAAAGATTGTAAACTATAATCAACCCTTATTTGTG
127 AGTCGAATTTGAGTATGTTTCTTGTTTGTTTAAAGATTGTAAACTATAATCAACACTTATTTATG
* * *
2391890 TACTCATTGAGAGGTCAAAATCAGAGACACACCTTTCATTTTTGTG-TGGGGTGCACAATCACTT
192 TACTCATTGAGAGGTCAAAATCAGATACACACCTTTCATTTTTGTGCAGGAGTGCACAATCACTT
2391954 TGAATGA
257 TGAATGA
2391961 CGTTTCGCTC
Statistics
Matches: 449, Mismatches: 68, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
264 2 0.00
265 217 0.48
266 1 0.00
267 1 0.00
268 2 0.00
270 3 0.01
275 2 0.00
276 2 0.00
277 3 0.01
279 2 0.00
280 24 0.05
281 1 0.00
282 179 0.40
283 10 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (270 bp):
ATGAATAGACATGTTGCGTCATCTAAGATAATAATGTGGTATGTGTCATATCATATGATATAATA
ATGTGATATGTGTCACAATGTCCAAAATAATGACGTGACATATTATGGAGTAAAAAAATAAAGTC
GAATTTGAGTATGTTTCTTGTTTGTTTAAAGATTGTAAACTATAATCAACACTTATTTATGTACT
CATTGAGAGGTCAAAATCAGATACACACCTTTCATTTTTGTGCAGGAGTGCACAATCACTTTGAA
TGATTGAATG
Found at i:2391921 original size:282 final size:280
Alignment explanation
Indices: 2391406--2391969 Score: 713
Period size: 282 Copynumber: 2.0 Consensus size: 280
2391396 TGCACAATCA
* *
2391406 CTTTGAATGATGATATGATGCATGTTGCATCATTTAAGATAATAATGTGGTATATGTCATATCAT
1 CTTTGAATGATGATATGATACATGTTGCATCATCTAAGATAATAATGTGGTATATGTCATATCAT
* * * * **
2391471 TTGATATAATAATGTGATATGTGTCACAATGTCCAAAATAATAATGTGACATATTATGGAATAAA
66 CTAATATAATAATATGATATGTGTCACAATGTCCAAAATAATAACGTGACATAAAATGGAATAAA
* * * * *
2391536 AAAATAAAGTTGAATTTGAGTATGTTTATTATGTGTTTAGAGATTGCAAATTATAATCAACACTT
131 AAAATAAAGTCGAATTTGAGTATGTCTATTATGTATTTAAAGATTGCAAACTATAATCAACACTT
* * * *
2391601 ATTTATGTGCTTATTAAGAGGTCAAAACCTGTGACACACCTTT-ATTTTTTGTGCGGGGAGTGCA
196 ATTTATGTACTCATTAAGAGGTCAAAACCAGAGACACACCTTTCA-TTTTTGTG-GGGG-GTGCA
*
2391665 CAATCACTTTGAATGATGTTTCG
258 CAATCACTTTGAATGACGTTTCG
* * * *
2391688 CTTTGAATGATGATAT-AGTACATGTTGCGTC-TCCTAAGATAATGATGTGGTATGTGTCATCTC
1 CTTTGAATGATGATATGA-TACATGTTGCATCAT-CTAAGATAATAATGTGGTATATGTCATATC
* * * *
2391751 ATCTAATATAATAATATGATATGTGTCACAATGTCTAAAATAATGACGTGGCATAAAATGGAGTA
64 ATCTAATATAATAATATGATATGTGTCACAATGTCCAAAATAATAACGTGACATAAAATGGAATA
* * * * * * *
2391816 CAAAAATTAAA-TCGAATTTTAGTATGTCTCTTGTTTATTTAAAGATTGTAAACTATAATCAACC
129 -AAAAAATAAAGTCGAATTTGAGTATGTCTATTATGTATTTAAAGATTGCAAACTATAATCAACA
* * * *
2391880 CTTATTTGTGTACTCATTGAGAGGTCAAAATCAGAGACACACCTTTCATTTTTGTGTGGGGTGCA
193 CTTATTTATGTACTCATTAAGAGGTCAAAACCAGAGACACACCTTTCATTTTTGTGGGGGGTGCA
2391945 CAATCACTTTGAATGACGTTTCG
258 CAATCACTTTGAATGACGTTTCG
2391968 CT
1 CT
2391970 CTAGTTAGAA
Statistics
Matches: 241, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
280 29 0.12
281 5 0.02
282 197 0.82
283 10 0.04
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (280 bp):
CTTTGAATGATGATATGATACATGTTGCATCATCTAAGATAATAATGTGGTATATGTCATATCAT
CTAATATAATAATATGATATGTGTCACAATGTCCAAAATAATAACGTGACATAAAATGGAATAAA
AAAATAAAGTCGAATTTGAGTATGTCTATTATGTATTTAAAGATTGCAAACTATAATCAACACTT
ATTTATGTACTCATTAAGAGGTCAAAACCAGAGACACACCTTTCATTTTTGTGGGGGGTGCACAA
TCACTTTGAATGACGTTTCG
Found at i:2392754 original size:19 final size:18
Alignment explanation
Indices: 2392717--2392756 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2392707 TTTTTTTTTA
*
2392717 TTTTTATTATAGTATTAT
1 TTTTTATTATAGTACTAT
*
2392735 TTTTTATTATATTTACTAT
1 TTTTTATTATA-GTACTAT
2392754 TTT
1 TTT
2392757 AATAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTTATTATAGTACTAT
Found at i:2398354 original size:110 final size:110
Alignment explanation
Indices: 2398159--2398910 Score: 1103
Period size: 110 Copynumber: 6.9 Consensus size: 110
2398149 GATGGTGGTT
** * *
2398159 GCTCAACTTCACAGCGAAGGGGCGACTGAAGGTCAACAAATAACTTTTTAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
2398224 AATTTCAACTTCACATCGAAGGATATTGGACTCTAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * *
2398269 GCTCAACTTCACTGTGAAGGGGCCACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAATC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
2398334 AATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * *
2398379 GCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCATTTAGAGCC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
2398444 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* *
2398489 GCTCAACTTCACAGCGAAGGGGC-AGCTGGCTGTCAACAAACAACTTTCCAG--T--TTCAGAGT
1 GCTCAACTTCACAGCGAAGGGGCGA-CTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
2398549 CAATTTCAACTTCA-AGGCGAAGGATATTGGCCTCGAAACAACACAA
65 CAATTTCAACTTCACA-GCGAAGGATATTGGACTCGAGACAACACAA
*
2398595 GCTCAACTTCACAGCGAAGGGGCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * *
2398660 AATTTCAACTTCACAACGAATGATATTGGACTCGAGACAACACAC
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * *
2398705 GCTCAACTTCACAGCAAAAGGGCGACTGACGGTCAACAAACAACTTTTCAGTTTCATTCAGAGCC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
2398770 AATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * *
2398815 GCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAATAACTTTCCAG--T--TTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
2398876 AATTTCAACTTCAC-GACGAAGGATATTGGCCTCGA
66 AATTTCAACTTCACAG-CGAAGGATATTGGACTCGA
2398911 AATAGCACAA
Statistics
Matches: 580, Mismatches: 53, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
105 2 0.00
106 134 0.23
107 1 0.00
108 3 0.01
109 1 0.00
110 438 0.76
111 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
Found at i:2398760 original size:326 final size:326
Alignment explanation
Indices: 2398159--2398912 Score: 1179
Period size: 326 Copynumber: 2.3 Consensus size: 326
2398149 GATGGTGGTT
** **
2398159 GCTCAACTTCACAGCGAAGGGGCGACTGAAGGTCAACAAATAACTTTTTAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTCCAG--T--TTCAGAGTC
* * * * * *
2398224 AATTTCAACTTCACA-TCGAAGGATATTGGACTCTAGACAACACAAGCTCAACTTCACTGTGAAG
62 AATTTCAACTTCA-AGACGAAGGATATTGGCCTCGAAACAACACAAGCTCAACTTCACAGCGAAG
* *
2398288 GGGCCACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAATCAATTTCAACTTCACAGCGA
126 GGGCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAATCAATTTCAACTTCACAACGA
** * *
2398353 AGGATATTGAACTCGAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAA
191 AGGATATTGAACTCGAGACAACACAAGCTCAACTTCACAGCAAAAGGGCGACTGACGGTCAACAA
* *
2398418 ACAACTTTTTAGTTTCATTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACA
256 ACAACTTTTCAGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACA
2398483 ACACAA
321 ACACAA
* *
2398489 GCTCAACTTCACAGCGAAGGGGC-AGCTGGCTGTCAACAAACAACTTTCCAGTTTCAGAGTCAAT
1 GCTCAACTTCACAGCGAAGGGGCGA-CTGACTGTCAACAAATAACTTTCCAGTTTCAGAGTCAAT
*
2398553 TTCAACTTCAAGGCGAAGGATATTGGCCTCGAAACAACACAAGCTCAACTTCACAGCGAAGGGGC
65 TTCAACTTCAAGACGAAGGATATTGGCCTCGAAACAACACAAGCTCAACTTCACAGCGAAGGGGC
* * *
2398618 AACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATGA
130 AACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAATCAATTTCAACTTCACAACGAAGGA
* *
2398683 TATTGGACTCGAGACAACACACGCTCAACTTCACAGCAAAAGGGCGACTGACGGTCAACAAACAA
195 TATTGAACTCGAGACAACACAAGCTCAACTTCACAGCAAAAGGGCGACTGACGGTCAACAAACAA
*
2398748 CTTTTCAGTTTCATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACAC
260 CTTTTCAGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACAC
2398813 AA
325 AA
*
2398815 GCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAATAACTTTCCAGTTTCAGAGTCAATT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTCCAGTTTCAGAGTCAATT
*
2398880 TCAACTTCACGACGAAGGATATTGGCCTCGAAA
66 TCAACTTCAAGACGAAGGATATTGGCCTCGAAA
2398913 TAGCACAAAT
Statistics
Matches: 390, Mismatches: 31, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
325 1 0.00
326 343 0.88
327 1 0.00
328 1 0.00
329 1 0.00
330 43 0.11
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (326 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTCCAGTTTCAGAGTCAATT
TCAACTTCAAGACGAAGGATATTGGCCTCGAAACAACACAAGCTCAACTTCACAGCGAAGGGGCA
ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAATCAATTTCAACTTCACAACGAAGGAT
ATTGAACTCGAGACAACACAAGCTCAACTTCACAGCAAAAGGGCGACTGACGGTCAACAAACAAC
TTTTCAGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
A
Found at i:2399274 original size:84 final size:84
Alignment explanation
Indices: 2399027--2399794 Score: 663
Period size: 84 Copynumber: 9.2 Consensus size: 84
2399017 AATCGTGCCC
* *
2399027 ACCAAATG-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
1 ACCAAA-GACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAG
* **
2399091 TCAAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTGCTG
* * * * * *
2399111 ACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGTATAACTTAAG
* *
2399176 GCTAGAAGGGTTATCTG-TG
65 TCGAGAAGGGTTATCTGCTG
* * * * *
2399195 ACCAAAAGACCTTTGAGTTTGACTACACTCAGCTCCAAGTCATATCATTTGCAGCATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAG
**
2399260 TCGAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTGCTG
* * * * *
2399280 ACCAAAGACATTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGT
*
2399345 CGAGAAGGGCTA--T-CTG
66 CGAGAAGGGTTATCTGCTG
* * * * * * * *
2399361 -CCAAAGATCC-TCGAGTTCGATTGCACTCAACTTCGAGGGCACATCATTTACAATATAACTCAA
1 ACCAAAGA-CCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGTATAACTTAA
* * *
2399424 GGCTAGAAGGGTTATC-GTTG
64 GTCGAGAAGGGTTATCTGCTG
* * * *
2399444 ACCAAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAG
* **
2399509 TCGATAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTGCTG
** * * ** * *
2399529 ACCAAAGACCTTCGAGTTCGACTATGCTCAACTCTAAGATACATCATTTGTAGTATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGT
*
2399594 CGAGAAGGGCTA--T-CTG
66 CGAGAAGGGTTATCTGCTG
* * * * * * * * *
2399610 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACGGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGTATAACTTAAG
* * * *
2399674 GCTAGAAGGGTTATATG-TC
65 TCGAGAAGGGTTATCTGCTG
* * * * *
2399693 AACAAAGACCTTGGAGTTCGACT-CTACTCAGCTCAAAGGCACCATCATTTGCAGTATAGCTCAA
1 ACCAAAGACCTTCGAGTTCGACTAC-ACTCAGCTCCAAGGCA-CATCATTTGCAGTATAACTTAA
* *
2399757 GGCAAGAAGGGTTA--T-CTG
64 GTCGAGAAGGGTTATCTGCTG
*
2399775 -CCAAAGAACTTCGAGTTCGA
1 ACCAAAGACCTTCGAGTTCGA
2399795 TTCCATTCGG
Statistics
Matches: 543, Mismatches: 120, Indels: 45
0.77 0.17 0.06
Matches are distributed among these distances:
80 51 0.09
81 89 0.16
82 4 0.01
83 12 0.02
84 292 0.54
85 95 0.17
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGT
CGAGAAGGGTTATCTGCTG
Found at i:2399462 original size:165 final size:163
Alignment explanation
Indices: 2399035--2399796 Score: 698
Period size: 165 Copynumber: 4.6 Consensus size: 163
2399025 CCACCAAATG
* *
2399035 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGG
1 CCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGG
* * * *
2399100 GTTATCTGCCAACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 GTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATCATTTACAG
* * *
2399165 TATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA
129 TATAACTTAAGTCGAGAAGGGTTATC--TG-CC-AAAGA
* * * * * *
2399204 CCTTTGAGTTTGACTACACTCAGCTCCAAGTCATATCATTTGCAGCATAACTTAAGTCGAGAAGG
1 CCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGG
*
2399269 GTTATCTGCCAACCAAAGACATTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTACAGT
66 GTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTACAGT
* *
2399334 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
130 ATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGA
* * * * * ** * * *
2399368 TCC-TCGAGTTCGATTGCACTCAACTTCGAGGGCACATCATTTACAATATAACTCAAGGCTAGAA
1 -CCTTCGAGTTCGACTACACTCAAC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAA
* * *
2399432 GGGTTATCGTTGACCAA-AAA-ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
64 GGGTTATC--TG-CCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTA
* *
2399495 CAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAAAGA
126 CAGTATAACTTAAGTCGAGAAGGGTTATCTG----CCAAAGA
** * ** * * * *
2399537 CCTTCGAGTTCGACTATGCTCAACTCTAAGATACATCATTTGTAGTATAGCTTAAGTCGAGAAGG
1 CCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGG
* * * * * * * *
2399602 GCTATCTG-C--CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACGGC
66 GTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATCATTTACAGT
* * * *
2399664 ATAACTCAAGGCTAGAAGGGTTATATGTCAACAAAGA
130 ATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAGA
* * * * * * *
2399701 CCTTGGAGTTCGACT-CTACTCAGCTCAAAGGCACCATCATTTGCAGTATAGCTCAAGGCAAGAA
1 CCTTCGAGTTCGACTAC-ACTCAACTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTCAAGAA
*
2399765 GGGTTATCTG-C--CAAAGAACTTCGAGTTCGATT
64 GGGTTATCTGCCAACAAAGACCTTCGAGTTCGATT
2399797 CCATTCGGCT
Statistics
Matches: 492, Mismatches: 84, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
162 1 0.00
163 3 0.01
164 75 0.15
165 200 0.41
166 7 0.01
167 2 0.00
168 81 0.16
169 123 0.25
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (163 bp):
CCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGG
GTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTACAGTA
TAACTTAAGTCGAGAAGGGTTATCTGCCAAAGA
Found at i:2399479 original size:249 final size:248
Alignment explanation
Indices: 2399037--2399778 Score: 1049
Period size: 249 Copynumber: 3.0 Consensus size: 248
2399027 ACCAAATGCC
* * * *
2399037 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGT
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGC
2399102 TATCTGCCAACCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTA
66 TATCTG----CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTA
* * *
2399167 TAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTTGACTACACTCAGCTCCA
127 TAACTCAAGGCTAGAAGGGTTATCT-TGACCAAAAAACCTTCGAGTTCGACTACACTCAGCTCCA
*
2399232 AGTCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACA
191 AGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACA
* *
2399290 TTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGC
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGC
* * * *
2399355 TATCTGCCAAAGATCCTCGAGTTCGATTGCACTCAACTTCGAGGGCACATCATTTACAATATAAC
66 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAAC
*
2399420 TCAAGGCTAGAAGGGTTATCGTTGACCAAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
131 TCAAGGCTAGAAGGGTTATC-TTGACCAAAAAACCTTCGAGTTCGACTACACTCAGCTCCAAGGC
* *
2399485 ATATCATTTGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACC
195 ATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACA
* * * ** *
2399539 TTCGAGTTCGACTATGCTCAACTCTAAGATACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGC
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGC
* * *
2399604 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACGGCATAAC
66 TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAAC
* * * *
2399669 TCAAGGCTAGAAGGGTTAT-ATG-TCAACAAAGACCTTGGAGTTCGACT-CTACTCAGCTCAAAG
131 TCAAGGCTAGAAGGGTTATCTTGACCAA-AAA-ACCTTCGAGTTCGACTAC-ACTCAGCTCCAAG
* * * * * *
2399731 GCACCATCATTTGCAGTATAGCTCAAGGCAAGAAGGGTTATCTGCCAA
193 GCA-TATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
2399779 AGAACTTCGA
Statistics
Matches: 440, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
246 3 0.01
247 6 0.01
248 29 0.07
249 336 0.76
250 1 0.00
253 65 0.15
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (248 bp):
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGC
TATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAAC
TCAAGGCTAGAAGGGTTATCTTGACCAAAAAACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA
TATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACA
Found at i:2400162 original size:4 final size:4
Alignment explanation
Indices: 2400139--2400176 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
2400129 ATAAAAACAT
*
2400139 TTTA -TTA TATTA TATA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TT
2400177 ATTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:2400163 original size:12 final size:11
Alignment explanation
Indices: 2400143--2400211 Score: 63
Period size: 12 Copynumber: 6.2 Consensus size: 11
2400133 AAACATTTTA
2400143 TTATATTATATAT
1 TTAT-TTAT-TAT
2400156 TTATTTATTTAT
1 TTATTTA-TTAT
2400168 TTATTTATTA-
1 TTATTTATTAT
2400178 TTA-TTATTAT
1 TTATTTATTAT
* *
2400188 TAATATATT-T
1 TTATTTATTAT
2400198 TTATTTTATTAT
1 TTA-TTTATTAT
2400210 TT
1 TT
2400212 TTGTGGGCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.13
10 8 0.17
11 12 0.26
12 16 0.34
13 5 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:2400187 original size:28 final size:28
Alignment explanation
Indices: 2400139--2400211 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
2400129 ATAAAAACAT
* *
2400139 TTTATTA-TATTATATATTTATTTATTTA
1 TTTATTATTATTAT-TATTTATTAATATA
2400167 TTTATTTATTATTATTA-TTATTAATATA
1 TTTA-TTATTATTATTATTTATTAATATA
2400195 TTT-TTATT-TTATTATTT
1 TTTATTATTATTATTATTT
2400212 TTGTGGGCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 6 0.15
26 7 0.17
28 16 0.40
29 5 0.12
30 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTATTATTATTATTATTTATTAATATA
Found at i:2400302 original size:33 final size:33
Alignment explanation
Indices: 2400260--2400328 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
2400250 TTCAGAAAAT
*
2400260 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTAAAACACTA
2400293 AAACCAACGTATTTGAGTCCTATTAAAACACTA
1 AAACCAACGTATTTGAGTCCTATTAAAACACTA
2400326 AAA
1 AAA
2400329 TCGAAGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.26
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTAAAACACTA
Found at i:2416997 original size:31 final size:31
Alignment explanation
Indices: 2416937--2416997 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
2416927 TGCTCACATT
*
2416937 TTAATTAAAACGAAACGAAACTGACCAAATC
1 TTAATTAAAACAAAACGAAACTGACCAAATC
* * * *
2416968 TTAATTAAAATAAAATGAAAGTGATCAAAT
1 TTAATTAAAACAAAACGAAACTGACCAAAT
2416998 ATTATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.25
Consensus pattern (31 bp):
TTAATTAAAACAAAACGAAACTGACCAAATC
Found at i:2420046 original size:31 final size:29
Alignment explanation
Indices: 2419998--2420056 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
2419988 ATTTCAAAAT
2419998 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
2420029 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
2420057 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Found at i:2420151 original size:20 final size:19
Alignment explanation
Indices: 2420112--2420153 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2420102 TTTCTTCGAT
2420112 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
2420131 ATTAAAACAATTAATACATA
1 ATTAAAA-AATAAATAAATA
2420151 ATT
1 ATT
2420154 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:2420264 original size:120 final size:119
Alignment explanation
Indices: 2420032--2420257 Score: 307
Period size: 120 Copynumber: 1.9 Consensus size: 119
2420022 ATTTATATAT
* *
2420032 ATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACA
1 ATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACTTCCAGGTGCCTTAAGACA
*
2420097 GCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAATACATA
66 GCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAATACATA
** * **
2420151 ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGA-TATCCAGTTGTTTTAAG
1 ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACT-TCCAGGTGCCTTAAG
* *
2420215 ACTGCTC-TTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
63 ACAGCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACA
2420258 GGATTAAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
118 9 0.10
119 25 0.27
120 40 0.43
121 20 0.21
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (119 bp):
ATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACTTCCAGGTGCCTTAAGACA
GCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAATACATA
Found at i:2421653 original size:3 final size:3
Alignment explanation
Indices: 2421645--2421714 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
2421635 ATATTTATTA
*
2421645 AAT AAT AAT AAT AAT ATAT AAT ATAT AAT ATT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
**
2421692 TTT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
2421715 AACGAAATGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:2421925 original size:76 final size:76
Alignment explanation
Indices: 2421833--2422006 Score: 312
Period size: 76 Copynumber: 2.3 Consensus size: 76
2421823 TCTTTTGAGT
* * *
2421833 TGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGTTTTT
1 TGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
2421898 TGGAAACATCA
66 TGGAAACATCA
*
2421909 TGCACTGTAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
1 TGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
2421974 TGGAAACATCA
66 TGGAAACATCA
2421985 TGCACTGTAGGACTTACAGATG
1 TGCACTGTAGGACTTACAGATG
2422007 TGGGAAATAG
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 93 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (76 bp):
TGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
TGGAAACATCA
Found at i:2422367 original size:75 final size:76
Alignment explanation
Indices: 2422131--2422340 Score: 388
Period size: 75 Copynumber: 2.8 Consensus size: 76
2422121 TCAAAATAAC
2422131 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
2422196 AAGGCTTTGAA
66 AAGGCTTTGAA
*
2422207 AACATCAAAAAGCTCCCGAAGGCTTTTTGGATACATC-TGCACTGTAGGACTTACAGATGACCCT
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
2422271 AAGGCTTTGAA
66 AAGGCTTTGAA
*
2422282 AACATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGTAAGACTTACAGATG
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
2422341 TGGGAAATAG
Statistics
Matches: 130, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
74 21 0.16
75 73 0.56
76 36 0.28
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCT
AAGGCTTTGAA
Found at i:2422444 original size:334 final size:336
Alignment explanation
Indices: 2421833--2422452 Score: 1136
Period size: 334 Copynumber: 1.9 Consensus size: 336
2421823 TCTTTTGAGT
* *
2421833 TGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGTTTTT
1 TGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
2421898 TGGAAACATCATGCACTGTAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
66 TGGAAACATCATGCACTGTAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
* *
2421963 CGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGTGGGAAATAGTTTACTAAGTA
131 CGAAGGCTTTTTGGAAACATCATGCACTGTAAGACTTACAGATGTGGGAAATAGTTTACTAAATA
* * *
2422028 AAAAAACTAAGGAAATCGTTTTCTTACTTTTTAACAATTTTATTTTAGAAAAGATAAAGTGAGAA
196 AAAAAACTAAGGAAATCATTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGATAAAATGAGAA
2422093 ACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACAACATCAAAAAGCTCCCGAAGGCTTTT
261 ACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACAACATCAAAAAGCTCCCGAAGGCTTTT
2422158 TGGAAACATCA
326 TGGAAACATCA
*
2422169 TGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
1 TGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
* *
2422234 TGGATACATC-TGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT-C
66 TGGAAACATCATGCACTGTAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
2422297 CGAAGGCTTTTTGGAAACATCATGCACTGTAAGACTTACAGATGTGGGAAATAGTTTACTAAATA
131 CGAAGGCTTTTTGGAAACATCATGCACTGTAAGACTTACAGATGTGGGAAATAGTTTACTAAATA
2422362 AAAAAACTAAGGAAATCATTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGATAAAATGAGAA
196 AAAAAACTAAGGAAATCATTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGATAAAATGAGAA
2422427 ACTATGGAAATCGTTTTCTCATTATT
261 ACTATGGAAATCGTTTTCTCATTATT
2422453 ATTATTATTA
Statistics
Matches: 274, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
334 152 0.55
335 51 0.19
336 71 0.26
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (336 bp):
TGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTT
TGGAAACATCATGCACTGTAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCC
CGAAGGCTTTTTGGAAACATCATGCACTGTAAGACTTACAGATGTGGGAAATAGTTTACTAAATA
AAAAAACTAAGGAAATCATTTTCTTACTTTTTAACAATTTCATTTTAGAAAAGATAAAATGAGAA
ACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACAACATCAAAAAGCTCCCGAAGGCTTTT
TGGAAACATCA
Found at i:2423112 original size:22 final size:22
Alignment explanation
Indices: 2423035--2423109 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
2423025 TAAAGCTTTT
2423035 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
2423057 ATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
2423079 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
2423101 ATCTTTGAA
1 ATCTTTGAA
2423110 GAGTGTAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:2423609 original size:54 final size:53
Alignment explanation
Indices: 2423474--2423628 Score: 183
Period size: 54 Copynumber: 3.0 Consensus size: 53
2423464 AGAATAACTG
* * *
2423474 GTTCGTAAAACATTTGACAACACATGCAT-CATCTCATGTGGTTTCTGCTCAGA
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTC-TGTGGTTTCTGCTCAGA
* * *
2423527 --T-GTAAAACACTTGACAACACATTTATCCTTTTCTGTGGTTTCTACTCAGA
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGA
* * *
2423577 TGTTCGTAAAGCATTTGACAACATATTCATCCTTTTCTGTGGCTTCTGCTCA
1 -GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCA
2423629 AATTTCTCAA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
50 38 0.45
51 5 0.06
53 1 0.01
54 41 0.48
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGA
Found at i:2425896 original size:114 final size:114
Alignment explanation
Indices: 2425696--2425916 Score: 352
Period size: 114 Copynumber: 1.9 Consensus size: 114
2425686 GATCATGCAG
* * * * *
2425696 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAAA
1 TTCATCTTTCAAATCCAATGATTAGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAAA
2425761 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACTATAAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACTATAAGCAAA
* * *
2425810 TTCATCTTTCAAATCCAATGATTAGTTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTAGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAAA
* *
2425875 ACACTTCCAGAAGATGTTATTGGGTCTCCTTATTTCTACTAT
66 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACTAT
2425917 GAGAACGTGG
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTAGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAAA
ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACTATAAGCAAA
Found at i:2428077 original size:7 final size:7
Alignment explanation
Indices: 2428065--2428173 Score: 69
Period size: 7 Copynumber: 14.6 Consensus size: 7
2428055 TTCAATTCTC
2428065 CTTTTTT
1 CTTTTTT
2428072 CTTTTTTT
1 C-TTTTTT
*
2428080 CCTTTTT
1 CTTTTTT
**
2428087 -TTTCAT
1 CTTTTTT
2428093 -TTTTTT
1 CTTTTTT
*
2428099 CATTTTTC
1 C-TTTTTT
2428107 CTTTTTCAT
1 CTTTTT--T
*
2428116 ATTTTTT
1 CTTTTTT
*
2428123 CTTTTCT
1 CTTTTTT
2428130 CTTTTTT
1 CTTTTTT
2428137 CTCATTTTT
1 CT--TTTTT
2428146 CTTTTTTCAT
1 C-TTTTT--T
2428156 CTTTTTT
1 CTTTTTT
2428163 CTTTTTT
1 CTTTTTT
2428170 CTTT
1 CTTT
2428174 CTTTGTTGGA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
6 7 0.09
7 37 0.46
8 17 0.21
9 16 0.20
10 3 0.04
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (7 bp):
CTTTTTT
Found at i:2428084 original size:9 final size:9
Alignment explanation
Indices: 2428066--2428105 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
2428056 TCAATTCTCC
2428066 TTTTTTC-T
1 TTTTTTCAT
*
2428074 TTTTTTCCTT
1 TTTTTT-CAT
2428084 TTTTTTCAT
1 TTTTTTCAT
2428093 TTTTTTCAT
1 TTTTTTCAT
2428102 TTTT
1 TTTT
2428106 CCTTTTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 6 0.21
9 16 0.55
10 7 0.24
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:2428095 original size:19 final size:18
Alignment explanation
Indices: 2428066--2428169 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 18
2428056 TCAATTCTCC
*
2428066 TTTTTTCTTTTTTTCCTT
1 TTTTTTCTTTTTTTCATT
2428084 TTTTTTCATTTTTTTCATT
1 TTTTTTC-TTTTTTTCATT
*
2428103 TTTCCTTT-TTCATATTT--TT
1 TTT--TTTCTT--TTTTTCATT
* *
2428122 TCTTTTCTCTTTTTTC-TC
1 TTTTTTCT-TTTTTTCATT
* *
2428140 ATTTTTC-TTTTTTCATC
1 TTTTTTCTTTTTTTCATT
2428157 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
2428170 CTTTCTTTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
16 7 0.10
17 15 0.22
18 19 0.28
19 20 0.29
21 7 0.10
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCATT
Found at i:2428115 original size:23 final size:24
Alignment explanation
Indices: 2428085--2428150 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
2428075 TTTTTCCTTT
2428085 TTTTTCAT-TTTTTTCATTTT-TCC
1 TTTTTCATATTTTTTC-TTTTCTCC
*
2428108 TTTTTCATATTTTTTCTTTTCTCT
1 TTTTTCATATTTTTTCTTTTCTCC
2428132 TTTTTC-TCA-TTTTTCTTTT
1 TTTTTCAT-ATTTTTTCTTTT
2428151 TTCATCTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 23 0.59
24 16 0.41
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTCATATTTTTTCTTTTCTCC
Found at i:2428136 original size:9 final size:9
Alignment explanation
Indices: 2428060--2428169 Score: 64
Period size: 8 Copynumber: 13.1 Consensus size: 9
2428050 CTTGATTCAA
2428060 TTCTCCTTTT
1 TTCT-CTTTT
2428070 TTCT-TTTT
1 TTCTCTTTT
2428078 TTC-CTTTT
1 TTCTCTTTT
*
2428086 TTTTCATTTT
1 TTCTC-TTTT
*
2428096 TT-TCATTT
1 TTCTCTTTT
2428104 TTC-C-TTT
1 TTCTCTTTT
*
2428111 TTCAT-ATTT
1 TTC-TCTTTT
2428120 TT-TC--TT
1 TTCTCTTTT
2428126 TTCTCTTTT
1 TTCTCTTTT
*
2428135 TTCTC-ATT
1 TTCTCTTTT
2428143 TT-TCTTTT
1 TTCTCTTTT
2428151 TTCATCTTTT
1 TTC-TCTTTT
2428161 TTCT-TTTT
1 TTCTCTTTT
2428169 T
1 T
2428170 CTTTCTTTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 30
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.05
7 11 0.13
8 32 0.39
9 16 0.20
10 19 0.23
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (9 bp):
TTCTCTTTT
Found at i:2428152 original size:40 final size:39
Alignment explanation
Indices: 2428092--2428173 Score: 128
Period size: 40 Copynumber: 2.1 Consensus size: 39
2428082 TTTTTTTTCA
2428092 TTTTTTTCATTTTTCCTTTTTCATATTTTTTCTTTTCTC
1 TTTTTTTCATTTTTCCTTTTTCATATTTTTTCTTTTCTC
* * *
2428131 TTTTTTCTCATTTTTCTTTTTTCATCTTTTTTCTTTTTTC
1 TTTTTT-TCATTTTTCCTTTTTCATATTTTTTCTTTTCTC
2428171 TTT
1 TTT
2428174 CTTTGTTGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (39 bp):
TTTTTTTCATTTTTCCTTTTTCATATTTTTTCTTTTCTC
Found at i:2430925 original size:20 final size:20
Alignment explanation
Indices: 2430896--2430944 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2430886 TTATGCAAAG
*
2430896 ATGCAAATACAAACATGAAA
1 ATGCAAATACAAACATAAAA
* *
2430916 ATGTAAATACAAACGTAAAA
1 ATGCAAATACAAACATAAAA
2430936 ATGCAAATA
1 ATGCAAATA
2430945 TGCAAAATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.18
Consensus pattern (20 bp):
ATGCAAATACAAACATAAAA
Found at i:2430969 original size:35 final size:34
Alignment explanation
Indices: 2430900--2430969 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
2430890 GCAAAGATGC
*
2430900 AAATACAAACATGAAAATGTAAATACAAACGTAA
1 AAATACAAACATGAAAATGCAAATACAAACGTAA
* * * *
2430934 AAATGCAAATATGCAAAATGCAAATGCAAATGTAA
1 AAATACAAACATG-AAAATGCAAATACAAACGTAA
2430969 A
1 A
2430970 TATATGAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (34 bp):
AAATACAAACATGAAAATGCAAATACAAACGTAA
Done.