Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 103 of 311
Found at i:33945913 original size:49 final size:49
Alignment explanation
Indices: 33945848--33945975 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
33945838 ATCAAAGTCA
* * *
33945848 ATGCCATG-CCCAGACAGGTCTTACTCTGACTTTCATATATCGAG-GCCG
1 ATGCCGTGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGCCG
* * * * *
33945896 ATGCCGTGTCCGAGACAGGCCTTACACTGGCTCTCATCTATCAGTGTCG
1 ATGCCGTGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCG
33945945 ATGCCGTGTCCCAGACAGGTCTTACACTGAC
1 ATGCCGTGTCCCAGACAGGTCTTACACTGAC
33945976 ACACAACAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
48 9 0.13
49 58 0.87
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (49 bp):
ATGCCGTGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCG
Found at i:33946770 original size:20 final size:18
Alignment explanation
Indices: 33946733--33946783 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
33946723 CTATAGCAAC
33946733 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
33946750 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
33946770 TTACAACTTTACAA
1 TCACAA-TTTACAA
33946784 GATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:33947590 original size:25 final size:26
Alignment explanation
Indices: 33947493--33947590 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
33947483 GAGGAAGTGC
*
33947493 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
33947519 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
33947545 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
33947571 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
33947591 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:33947816 original size:42 final size:42
Alignment explanation
Indices: 33947736--33947823 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
33947726 TAGTCTCCCA
** *** *
33947736 AAATGGGCTTGCATACATTTATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATATGATATTG
*
33947778 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATATGATATTG
33947820 AAAT
1 AAAT
33947824 AGGCCTATGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTAACATTACATATGATATTG
Found at i:33947889 original size:31 final size:31
Alignment explanation
Indices: 33947854--33947929 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
33947844 TTACAGTAAC
33947854 GGCTTCGGCCCAGTGAAATGATTTATGAAAA
1 GGCTTCGGCCCAGTGAAATGATTTATGAAAA
*
33947885 GGCTTCGGCCCAGTGATATGATTTATGAAAA
1 GGCTTCGGCCCAGTGAAATGATTTATGAAAA
*
33947916 GGCTTCAGCCCAGT
1 GGCTTCGGCCCAGT
33947930 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
GGCTTCGGCCCAGTGAAATGATTTATGAAAA
Found at i:33949787 original size:20 final size:20
Alignment explanation
Indices: 33949762--33949833 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
33949752 CGGGTAGAGG
33949762 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
33949782 ACACGGACGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
33949802 ACACGGGCGTGTCCTAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
33949822 ACACGGGAGTGT
1 ACACGGGCGTGT
33949834 GCTATCTCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:33956593 original size:59 final size:59
Alignment explanation
Indices: 33956522--33956641 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
33956512 ATTTTGAGTT
*
33956522 AGAACGAGGAAAAGAGAAAATGTTAGATTAGTAGATTTTACATACACGAACATTTATCG
1 AGAACGAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACATACACGAACATTTATCG
*
33956581 AGAACGAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACGTACACGAACATTTATCG
1 AGAACGAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACATACACGAACATTTATCG
33956640 AG
1 AG
33956642 GTAAGTTCGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (59 bp):
AGAACGAGGAAAAAAGAAAATGTTAGATTAGTAGATTTTACATACACGAACATTTATCG
Found at i:33957108 original size:26 final size:26
Alignment explanation
Indices: 33957072--33957143 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
33957062 GGCTATCTGA
33957072 AGCTT-CTGATTAAAGGCTCTTCGTG
1 AGCTTCCTGATTAAAGGCTCTTCGTG
* * *
33957097 AGCTTCCTGATTAAAAGTTCTTTGTG
1 AGCTTCCTGATTAAAGGCTCTTCGTG
* *
33957123 AACTTCCTGATT-ATGGCTCTT
1 AGCTTCCTGATTAAAGGCTCTT
33957144 ATGGGCTTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 11 0.28
26 28 0.72
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (26 bp):
AGCTTCCTGATTAAAGGCTCTTCGTG
Found at i:33965423 original size:17 final size:18
Alignment explanation
Indices: 33965397--33965445 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
33965387 AGAATGAAAA
33965397 AGAGTAAAAAGAG-ATTG
1 AGAGTAAAAAGAGAATTG
*
33965414 AGAGTGAAAAGAGAATTG
1 AGAGTAAAAAGAGAATTG
33965432 A-AG-AAAGAAGAGAA
1 AGAGTAAA-AAGAGAA
33965446 AATGAATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.07
17 21 0.75
18 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.12
Consensus pattern (18 bp):
AGAGTAAAAAGAGAATTG
Found at i:33966843 original size:17 final size:18
Alignment explanation
Indices: 33966816--33966853 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
33966806 GTTGTAAAGT
*
33966816 TTTATTTTTATTTATTTA
1 TTTATTTTTATTTACTTA
33966834 TTTA-TTTTATTTACTTA
1 TTTATTTTTATTTACTTA
33966851 TTT
1 TTT
33966854 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTATTTACTTA
Found at i:33966844 original size:13 final size:13
Alignment explanation
Indices: 33966816--33966855 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
33966806 GTTGTAAAGT
*
33966816 TTTATTTTTATTTA
1 TTTATTTAT-TTTA
33966830 TTTATTTATTTTA
1 TTTATTTATTTTA
*
33966843 TTTACTTATTTTA
1 TTTATTTATTTTA
33966856 AATTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:33980491 original size:33 final size:33
Alignment explanation
Indices: 33980454--33980519 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
33980444 ACAAGAAAGG
33980454 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
1 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
33980487 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
1 AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
33980520 TGATCACCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.21
Consensus pattern (33 bp):
AAAAGCAGAAAATGAAATCAAATTGGGTGGATT
Found at i:33983925 original size:107 final size:107
Alignment explanation
Indices: 33983730--33983936 Score: 245
Period size: 107 Copynumber: 1.9 Consensus size: 107
33983720 AATGTTTAAA
* * * * *
33983730 TGTAAGACCATAACTGGGCTATGGCATTTTAGTGAAAAGACCATAACTGGGTTATGGCACCGCGA
1 TGTAAGACCATAACTAGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCACGA
* * *
33983795 ACATAAAACTATAGTTGGACCATGGCAGTATATGTATATGTG
66 ACATAAAACCATAGTAGGACCATGGCAATATATGTATATGTG
* * *
33983837 TGTAAGACCATAGCTAGGCTATGACATTCTAATGATAAA-ACCATAATTGGGTTATGGCACTACG
1 TGTAAGACCATAACTAGGCTATGACATTCTAATGA-AAAGACCATAACTGGGTTATGGCACCACG
*** * * *
33983901 AGTGTAAGACCATGGTAGGGCCATGGCAATATATGT
65 AACATAAAACCATAGTAGGACCATGGCAATATATGT
33983937 GTAAGACCAT
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
107 79 0.96
108 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (107 bp):
TGTAAGACCATAACTAGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCACGA
ACATAAAACCATAGTAGGACCATGGCAATATATGTATATGTG
Found at i:33987136 original size:33 final size:33
Alignment explanation
Indices: 33987055--33987139 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 33
33987045 ACATCATCAG
*
33987055 TCCAACCAAACACACCAGATGCTCACTCGAGCCAA
1 TCCAACC-AACACACCA-ATGCTCACTAGAGCCAA
* * * *
33987090 TCCATCTATCACACCAATGCTCA-TAAGAGCTAA
1 TCCAACCAACACACCAATGCTCACT-AGAGCCAA
*
33987123 TCCAACCAGCACACCAA
1 TCCAACCAACACACCAA
33987140 ATAGAGAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.02
33 27 0.66
34 8 0.20
35 5 0.12
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.15
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCACTAGAGCCAA
Found at i:33989303 original size:29 final size:29
Alignment explanation
Indices: 33989264--33989328 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
33989254 ATATCGGAGT
*
33989264 CACATATCGATGCCATGGTCTTACTCTCA
1 CACATATCGATGCCATGGTCTTACTCGCA
*
33989293 CACATATCGATGTCATGGTCTTACTCGCA
1 CACATATCGATGCCATGGTCTTACTCGCA
33989322 CACATAT
1 CACATAT
33989329 ATTGTAATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
CACATATCGATGCCATGGTCTTACTCGCA
Found at i:34006869 original size:50 final size:50
Alignment explanation
Indices: 34006794--34007134 Score: 326
Period size: 50 Copynumber: 6.8 Consensus size: 50
34006784 ACCGAAGCTC
* * *
34006794 TCTGGCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
** * * *
34006844 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * ** *
34006894 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* ** ** * *
34006946 -CGGGTACGTATAGTAGCCTGCACTTAGTACTGTACATGCGACATATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * * *** *
34006995 TCTGGTACACGTAGTAACCTACACTTAGTACTATACACGTGATAGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* * *
34007047 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
*
34007096 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
34007135 TGACTCATAA
Statistics
Matches: 228, Mismatches: 57, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
49 6 0.03
50 150 0.66
51 68 0.30
52 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:34006998 original size:101 final size:101
Alignment explanation
Indices: 34006805--34007137 Score: 445
Period size: 101 Copynumber: 3.3 Consensus size: 101
34006795 CTGGCACGCA
* * ** * * *
34006805 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCATAGTAGCCTGCAC
*** * * * *
34006868 TTAGTACTACACACATGACTTAACCATCTGATACACG
65 TTAGTACTACACATGCGACATATCAATCTGGTACACG
*
34006905 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGTATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCCTGCACT
**
34006970 TAGTACTGTACATGCGACATATCAATCTGGTACACG
66 TAGTACTACACATGCGACATATCAATCTGGTACACG
* * * *
34007006 TAGTAACCTACACTTAGTACTATACACGTGATAGAAGTTAACGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCCTGCACT
*
34007071 TAGTACTACACATGCGACCTATCAATCTGGTACACG
66 TAGTACTACACATGCGACATATCAATCTGGTACACG
34007107 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
34007138 CTCATAACGA
Statistics
Matches: 203, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
100 29 0.14
101 171 0.84
102 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCCTGCACT
TAGTACTACACATGCGACATATCAATCTGGTACACG
Found at i:34007071 original size:51 final size:51
Alignment explanation
Indices: 34006905--34007078 Score: 199
Period size: 51 Copynumber: 3.4 Consensus size: 51
34006895 CTGATACACG
* * *
34006905 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTATACACGTGATAGAAGTTAACGGGTACGCA
* * * * * * * * *
34006956 TAGTAGCCTGCACTTAGTACTGTACATGCGACA-TA-TCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTATACACGTGATAGAAGTTAA-CGGGTACGCA
* *
34007006 TAGTAACCTACACTTAGTACTATACACGTGATAGAAGTTAACGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTATACACGTGATAGAAGTTAACGGGTACGCA
34007057 TAGTAGCCTGCACTTAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
34007079 CACATGCGAC
Statistics
Matches: 95, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
49 3 0.03
50 34 0.36
51 55 0.58
52 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTATACACGTGATAGAAGTTAACGGGTACGCA
Found at i:34007103 original size:151 final size:152
Alignment explanation
Indices: 34006794--34007132 Score: 398
Period size: 151 Copynumber: 2.2 Consensus size: 152
34006784 ACCGAAGCTC
* *
34006794 TCTGGCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACATAGT
* * * * * *
34006859 AGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
66 AACCTACACTTAGTACTACACACATGACTGAACCAACGGATACACATAGTAGCCTGCACTTAGTA
* * *
34006924 CTACACACGTGATCGAAGTTAA
131 CTACACACGCGATCCAAGTCAA
* * ** *
34006946 -CGGGTACGTATAGTAGCCTGCACTTAGTACTGTACATGCGACATATCAATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACATAGT
* * ** * *
34007010 AACCTACACTTAGTACTATACACGTGA-TAGAAGTTAACGGGTACGCATAGTAGCCTGCACTTAG
66 AACCTACACTTAGTACTACACACATGACT-GAA-CCAACGGATACACATAGTAGCCTGCACTTAG
* *
34007074 TACTACACATGCGA-CCTA-TCAA
129 TACTACACACGCGATCCAAGTCAA
* *
34007096 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA
34007133 CGTGACTCAT
Statistics
Matches: 154, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
150 4 0.03
151 114 0.74
152 36 0.23
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (152 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACATATCAATCTGGTACACATAGT
AACCTACACTTAGTACTACACACATGACTGAACCAACGGATACACATAGTAGCCTGCACTTAGTA
CTACACACGCGATCCAAGTCAA
Found at i:34009309 original size:27 final size:27
Alignment explanation
Indices: 34009279--34009332 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
34009269 TTTTTTTAAA
*
34009279 AGTTAATTTCGGGTGTTTTGTATTATT
1 AGTTAATTTCGGGAGTTTTGTATTATT
34009306 AGTTAATTTCGGGAGTTTTGTATTATT
1 AGTTAATTTCGGGAGTTTTGTATTATT
34009333 TGGAATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.04, G:0.22, T:0.54
Consensus pattern (27 bp):
AGTTAATTTCGGGAGTTTTGTATTATT
Found at i:34009682 original size:25 final size:26
Alignment explanation
Indices: 34009649--34009699 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
34009639 TCACATAAAT
34009649 AATATATTAAAAATATATGTTATTAA
1 AATATATTAAAAATATATGTTATTAA
** *
34009675 AATA-ATTAACCATTTATGTTATTAA
1 AATATATTAAAAATATATGTTATTAA
34009700 TACTTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
AATATATTAAAAATATATGTTATTAA
Found at i:34020941 original size:13 final size:13
Alignment explanation
Indices: 34020923--34020956 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
34020913 AAATAAAAAT
34020923 TAAATTAAATTAA
1 TAAATTAAATTAA
34020936 TAAATTAAATTAA
1 TAAATTAAATTAA
34020949 TAAATTAA
1 TAAATTAA
34020957 GGCTCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATTAAATTAA
Found at i:34020942 original size:18 final size:16
Alignment explanation
Indices: 34020910--34020952 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
34020900 TTTTTATTTT
34020910 ATTAAATAAAAATTAA
1 ATTAAATAAAAATTAA
34020926 ATTAAATTAATAAATTAA
1 ATTAAA-TAA-AAATTAA
34020944 ATT-AATAAA
1 ATTAAATAAA
34020953 TTAAGGCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAATAAAAATTAA
Found at i:34025563 original size:12 final size:13
Alignment explanation
Indices: 34025536--34025568 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
34025526 AGTTGTAAAG
*
34025536 TTTATTTTTATTA
1 TTTATTTATATTA
34025549 TTTATTTAT-TTA
1 TTTATTTATATTA
34025561 TTTATTTA
1 TTTATTTA
34025569 CTTAGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:34034624 original size:29 final size:29
Alignment explanation
Indices: 34034590--34034663 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
34034580 TCATCAACCA
*
34034590 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
34034619 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
34034648 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
34034664 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:34044969 original size:25 final size:25
Alignment explanation
Indices: 34044941--34045011 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
34044931 GGAGGAAGTG
* *
34044941 CAAAAGGGCTATGCCCTAGTTTACC
1 CAAAAGGGCTTTGCCCCAGTTTACC
*
34044966 CAAAAGGGCTTTGCCCCAGTTTATC
1 CAAAAGGGCTTTGCCCCAGTTTACC
* *
34044991 AAAAAGGGCTTTGCCTCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
34045012 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
CAAAAGGGCTTTGCCCCAGTTTACC
Found at i:34045024 original size:24 final size:24
Alignment explanation
Indices: 34044966--34045038 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
34044956 CTAGTTTACC
*
34044966 CAAAAG-GGCTTTGCCCCAGTTTAT
1 CAAAAGAGGCTTTGCCTCAG-TTAT
34044990 CAAAA-AGGGCTTTGCCTCAGTTAT
1 CAAAAGA-GGCTTTGCCTCAGTTAT
* **
34045014 TAAAAGAGGCTAAGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCCT-CAGTTAT
34045039 ATGATAAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCTCAGTTAT
Found at i:34045268 original size:31 final size:31
Alignment explanation
Indices: 34045233--34045316 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
34045223 CGTTTGCAGT
*
34045233 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
34045264 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
34045295 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34045317 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:34054421 original size:11 final size:11
Alignment explanation
Indices: 34054405--34054430 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34054395 CAAAGCCCAC
34054405 ATCACAATAAT
1 ATCACAATAAT
34054416 ATCACAATAAT
1 ATCACAATAAT
34054427 ATCA
1 ATCA
34054431 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:34054935 original size:27 final size:27
Alignment explanation
Indices: 34054886--34054963 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
34054876 AGGGCAAAAC
* *
34054886 GGTCATTTTACCCTACAGGGGTATGTA
1 GGTCATTTTACACTACAAGGGTATGTA
* * * * *
34054913 TGTCATTTTACTCTACAAAGGTATTTC
1 GGTCATTTTACACTACAAGGGTATGTA
*
34054940 GGTAATTTTACACTACAAGGGTAT
1 GGTCATTTTACACTACAAGGGTAT
34054964 TTCGATAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTCATTTTACACTACAAGGGTATGTA
Found at i:34054964 original size:27 final size:27
Alignment explanation
Indices: 34054932--34055242 Score: 295
Period size: 27 Copynumber: 11.6 Consensus size: 27
34054922 ACTCTACAAA
*
34054932 GGTATTTCGGTAATTTTAC-ACTACAAG
1 GGTATTTCGGTAATTTTACAAAT-CAAG
* *
34054959 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAG
* ** *
34054986 GATATTTCAATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAG
* **
34055013 GGTGTTTCCATAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCAAG
* *
34055040 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAG
* ** * **
34055067 GGTGTTTCAATAATTTCACAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCAAG
** *
34055094 GGTATTTTAGTAATTTGACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCAAG
* * *
34055121 GGTATTTCAGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAG
*
34055147 GGTATTTCGGTAATTTTACAAATCATG
1 GGTATTTCGGTAATTTTACAAATCAAG
* * * *
34055174 GGTGTTTCGATAATTTCACAAATCAGG
1 GGTATTTCGGTAATTTTACAAATCAAG
* * *
34055201 GGTA-TTCGATAATTTTTCAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAG
*
34055227 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
34055243 CTCTTTATTA
Statistics
Matches: 241, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 45 0.19
27 194 0.80
28 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCAAG
Found at i:34054992 original size:54 final size:54
Alignment explanation
Indices: 34054932--34055243 Score: 339
Period size: 54 Copynumber: 5.8 Consensus size: 54
34054922 ACTCTACAAA
* * *
34054932 GGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAAT-CAAGGGTGTTTCGATAATTTCACAAATCGAG
* ** * * * *
34054986 GATATTTCAATAATTTTACAAATCGAGGGTGTTTCCATAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCGAG
* * * *
34055040 GGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTCAATAATTTCACAAATCGGG
1 GGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCGAG
** * *
34055094 GGTATTTTAGTAATTTGACAAATCAAGGGTATTTC-AGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGA-TAATTTCACAAATCGAG
*
34055147 GGTATTTCGGTAATTTTACAAATCATGGGTGTTTCGATAATTTCACAAATC-AGG
1 GGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCGA-G
* * * *
34055201 GGTA-TTCGATAATTTTTCAAATCGAGGGTATTTC-AGTAATTTC
1 GGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGA-TAATTTC
34055244 TCTTTATTAT
Statistics
Matches: 219, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.00
53 79 0.36
54 137 0.63
55 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCGAG
Found at i:34055027 original size:81 final size:81
Alignment explanation
Indices: 34054942--34055242 Score: 362
Period size: 81 Copynumber: 3.7 Consensus size: 81
34054932 GGTATTTCGG
* *
34054942 TAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGAGGATATTTCAATAATTTTACA
1 TAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACA
34055006 AATCGAGGGTGTTTCCA
65 AATCGAGGGTGTTTCCA
* * * *
34055023 TAATTTTACAAATCAAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTCAATAATTTCACAA
1 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAA
* * *
34055088 ATCGGGGGTATTT-TA
66 ATCGAGGGTGTTTCCA
* * **
34055103 GTAATTTGACAAATCAAGGGTATTTC-AGTAATTTCAC-AATCGAGGGTATTTCGGTAATTTTAC
1 -TAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCAATAATTTTAC
*
34055166 AAATC-ATGGGTGTTTCGA
64 AAATCGA-GGGTGTTTCCA
* * * *
34055184 TAATTTCACAAATCAGGGGTA-TTCGATAATTTTTCAAATCGAGGGTATTTCAGTAATTT
1 TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTT
34055243 CTCTTTATTA
Statistics
Matches: 188, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
79 10 0.05
80 77 0.41
81 99 0.53
82 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (81 bp):
TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAA
ATCGAGGGTGTTTCCA
Found at i:34055594 original size:29 final size:29
Alignment explanation
Indices: 34055562--34055621 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
34055552 CCCCTTTAGG
* *
34055562 CCCAATCTCGTTCACATGGCCCATCAGGC
1 CCCAATCACATTCACATGGCCCATCAGGC
*
34055591 CCCAATCACATTCATATGGCCCATCAGGC
1 CCCAATCACATTCACATGGCCCATCAGGC
34055620 CC
1 CC
34055622 AACTACTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.20
Consensus pattern (29 bp):
CCCAATCACATTCACATGGCCCATCAGGC
Found at i:34063209 original size:67 final size:63
Alignment explanation
Indices: 34063063--34063209 Score: 154
Period size: 67 Copynumber: 2.3 Consensus size: 63
34063053 ATATAGTTTG
* * * *
34063063 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTTAGAACCACCCATGCGACCTAGCCAGTATATCCCGTA
** * *
34063126 GCTCTCTTGT-CTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACA-TATATCC
1 GCTCTCTTGTAC-ACATGGTG---AACACTTAGAACCACCCATGCGACCTAGC--CAGTATATCC
34063189 CGTA
60 CGTA
34063193 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
34063210 ATGTGCACTC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.26
66 23 0.33
67 24 0.35
68 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTTAGAACCACCCATGCGACCTAGCCAGTATATCCCGTA
Found at i:34067564 original size:47 final size:47
Alignment explanation
Indices: 34067502--34067622 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 47
34067492 CTTACTCTCA
* *
34067502 CACATATATCA-AAATCACATATCGATGCCATGGTTTTACTCACACGT
1 CACATATAT-AGAAATCACATATCGATGCCATGGTCTTACTCACACAT
* * *
34067549 CGCATATATTGAAATCACATATCGATGCCATGGTCTTACTCCCACAT
1 CACATATATAGAAATCACATATCGATGCCATGGTCTTACTCACACAT
*
34067596 CACATGT-TAG-AATCACATATCGATGCC
1 CACATATATAGAAATCACATATCGATGCC
34067623 TCATACATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
45 17 0.26
46 2 0.03
47 46 0.71
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (47 bp):
CACATATATAGAAATCACATATCGATGCCATGGTCTTACTCACACAT
Found at i:34074168 original size:27 final size:27
Alignment explanation
Indices: 34074138--34074453 Score: 402
Period size: 27 Copynumber: 11.7 Consensus size: 27
34074128 TACTAAAATG
*
34074138 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
34074165 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
34074192 CCCTCGATTTATAGAATTA-C-TGTTTA
1 CCCTCGATTTATAGAATTACCAT-TTTA
*
34074218 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
34074245 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
34074272 CCCTCGATTTACAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
34074299 CTCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
34074326 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
34074353 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** *
34074380 CCCTTAATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* ** **
34074407 CCCTTGATTTGCAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
34074434 CCATCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
34074454 TAAAATACCC
Statistics
Matches: 263, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 237 0.90
28 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:34074462 original size:27 final size:27
Alignment explanation
Indices: 34074270--34074652 Score: 130
Period size: 27 Copynumber: 14.2 Consensus size: 27
34074260 ATTACTGTTT
* * ***
34074270 TACCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ****
34074297 TACTCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ****
34074324 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
34074351 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
** * ***
34074378 TACCCTTAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * *****
34074405 TACCCTTGATTTGCAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* *
34074432 TACCATCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
34074459 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
34074486 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * ** * *
34074513 TACCCT-GGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* ** *
34074539 TACCC-CTGGTTTGTAAAGTTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* *** *
34074566 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* ** *
34074593 TACCCTCAATTTGTAAAAATACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
34074620 TATCCCT-GATTTACAAAATTA-CAGAAA
1 TA-CCCTCGATTTACAAAATTACCA-AAA
34074647 TACCCT
1 TACCCT
34074653 TGACTTTCTA
Statistics
Matches: 295, Mismatches: 52, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.09
27 261 0.88
28 6 0.02
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:34074490 original size:81 final size:81
Alignment explanation
Indices: 34074163--34074495 Score: 209
Period size: 81 Copynumber: 4.1 Consensus size: 81
34074153 ATTACCATTT
* * * * * **** **
34074163 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTA-CTGTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTACAAAATTACCAAAATACCCTTAATT
* * ****
34074227 TATAGAATTACCGTTT
66 TACAAAATTACCAAAA
* * * * * *** * **
34074243 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTATCATTTTACTCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTACAAAATTACCAAAATACCCTTAATT
* * ****
34074308 TACAGAATTATCGTTT
66 TACAAAATTACCAAAA
* * * ***
34074324 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTAATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTACAAAATTACCAAAATACCCTTAATT
* ***
34074389 TACAGAATTACCATTT
66 TACAAAATTACCAAAA
* * * * **
34074405 TACCCTTGATTTGCAGAATTACTGTTTTACCATCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTACAAAATTACCAAAATACCCTTAATT
34074470 TACAAAATTACCAAAA
66 TACAAAATTACCAAAA
34074486 TACCCTCGAT
1 TACCCTCGAT
34074496 CAGTAAAATT
Statistics
Matches: 220, Mismatches: 32, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
80 45 0.20
81 175 0.80
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTACAAAATTACCAAAATACCCTTAATT
TACAAAATTACCAAAA
Found at i:34074495 original size:54 final size:53
Alignment explanation
Indices: 34074432--34074708 Score: 184
Period size: 54 Copynumber: 5.1 Consensus size: 53
34074422 ATTACTGTTT
* * *
34074432 TACCATCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCC-TGGTTTACAAAATTACCAAAA
* * ** * *
34074486 TACCCTCGA-TCAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTGGTTTACAAAATTACCAAAA
* * * * *** *
34074539 TACCC-CTGGTTTGTAAAGTTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACC-CTGGTTTACAAAATTACCAAAA
* * * *
34074593 TACCCTCAATTTGTAAAAATACCAAAATATCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATA-CCCTGGTTTACAAAATTACCA-AAA
* * * * * **
34074647 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTAGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTAT-AAAATTACCA-AAATACC-CTGGTTTACAAAATTACCAAAA
34074703 TACCCT
1 TACCCT
34074709 TGGTTTGTAG
Statistics
Matches: 172, Mismatches: 39, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
52 1 0.01
53 42 0.24
54 86 0.50
55 10 0.06
56 33 0.19
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTGGTTTACAAAATTACCAAAA
Found at i:34074585 original size:80 final size:80
Alignment explanation
Indices: 34074446--34074652 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
34074436 ATCGATTTAC
* *
34074446 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
34074511 AATACCCTGGTCTGT
66 AATACCCTGGTCTGT
* ** * ** * *
34074526 AAAATTGCTAAAATACCCCTGGTTTGTAAAGTTACCAAAATACCACTAG-TTTGTGAAATTACCG
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACC-CTAGATCAGTAAAATTACCA
** *
34074590 AAATACCCTCAATTTGT
65 AAATACCCT-GGTCTGT
* * * *
34074607 AAAAATACCAAAATATCCCTGATTTACAAAATTA-CAGAAATACCCT
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCA-AAATACCCT
34074653 TGACTTTCTA
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
80 63 0.61
81 40 0.39
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AATACCCTGGTCTGT
Found at i:34074702 original size:27 final size:28
Alignment explanation
Indices: 34074629--34074706 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
34074619 ATATCCCTGA
* *
34074629 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTGAC
*
34074657 TTT-CTAAAAATTA-TAGAAATACCATT-AG
1 TTTAC--AAAATTACT-GAAATACCATTGAC
34074685 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACTGAAATACC
34074707 CTTGGTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
27 16 0.38
28 8 0.19
29 18 0.43
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (28 bp):
TTTACAAAATTACTGAAATACCATTGAC
Found at i:34074714 original size:27 final size:27
Alignment explanation
Indices: 34074441--34074714 Score: 139
Period size: 27 Copynumber: 10.1 Consensus size: 27
34074431 TTACCATCGA
*
34074441 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
*
34074468 TTTACAAAATTACCAAAATACCC-TCG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
34074494 ATCAGTAAAATTACCAAAATACCC-TGG
1 TTTA-CAAAATTACCAAAATACCCTTGG
* ** * * *
34074521 TCTGTAAAATTGCTAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
34074548 TTTGTAAAGTTACCAAAATACCAC-TAG
1 TTTACAAAATTACCAAAATACC-CTTGG
*** * ***
34074575 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
34074602 TTTGTAAAAATACCAAAATATCCC-TGA
1 TTTACAAAATTACCAAAATA-CCCTTGG
*
34074629 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* * *
34074657 TTT-CTAAAAATTA-TAGAAATACCATTAG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
**
34074685 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
34074712 TTT
1 TTT
34074715 GTAGATTTAC
Statistics
Matches: 197, Mismatches: 38, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
26 27 0.14
27 140 0.71
28 11 0.06
29 19 0.10
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:34077252 original size:11 final size:11
Alignment explanation
Indices: 34077216--34077271 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34077206 CATGGTATAT
34077216 ATGATATGCAC
1 ATGATATGCAC
* *
34077227 ATGACATG--T
1 ATGATATGCAC
34077236 ATGATATGCAC
1 ATGATATGCAC
*
34077247 ATGATATG--T
1 ATGATATGCAC
34077256 ATGATATGCAC
1 ATGATATGCAC
34077267 ATGAT
1 ATGAT
34077272 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34077271 original size:20 final size:20
Alignment explanation
Indices: 34077205--34077271 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
34077195 ATTTTGATAA
* *
34077205 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
*
34077225 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34077245 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34077265 ACATGAT
1 ACATGAT
34077272 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34077346 original size:23 final size:23
Alignment explanation
Indices: 34077320--34077414 Score: 127
Period size: 23 Copynumber: 4.0 Consensus size: 23
34077310 GGAGGAAGTG
34077320 TAAAAGGGTTATGCCCCAGTTAT
1 TAAAAGGGTTATGCCCCAGTTAT
*
34077343 TAAAGGGGTTATGCCCCAGTTAT
1 TAAAAGGGTTATGCCCCAGTTAT
*
34077366 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGG-TTATGCCCCAGTTAT
* *
34077390 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAG-GGTTATGCC-CCAGTTAT
34077415 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
23 29 0.46
24 24 0.38
25 10 0.16
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (23 bp):
TAAAAGGGTTATGCCCCAGTTAT
Found at i:34077381 original size:24 final size:24
Alignment explanation
Indices: 34077320--34077414 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
34077310 GGAGGAAGTG
34077320 TAAAAGGG-TTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34077343 T-AAAGGGGTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34077366 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34077390 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
34077415 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
22 6 0.09
23 17 0.27
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:34077643 original size:31 final size:31
Alignment explanation
Indices: 34077608--34077671 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34077598 CGTTTACAGT
34077608 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
34077639 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34077670 AA
1 AA
34077672 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34085346 original size:11 final size:11
Alignment explanation
Indices: 34085310--34085365 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34085300 CATGGTATGT
34085310 ATGATATGCAC
1 ATGATATGCAC
* *
34085321 ATGACATG--T
1 ATGATATGCAC
34085330 ATGATATGCAC
1 ATGATATGCAC
*
34085341 ATGATATG--T
1 ATGATATGCAC
34085350 ATGATATGCAC
1 ATGATATGCAC
34085361 ATGAT
1 ATGAT
34085366 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34085365 original size:20 final size:20
Alignment explanation
Indices: 34085299--34085365 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
34085289 ATTTTGATAA
*
34085299 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34085319 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34085339 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34085359 ACATGAT
1 ACATGAT
34085366 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34085449 original size:23 final size:23
Alignment explanation
Indices: 34085416--34085533 Score: 209
Period size: 23 Copynumber: 5.1 Consensus size: 23
34085406 AGGAAGTGTA
*
34085416 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGGTTATGCCCCAGTTATT
34085439 AAAGGGGTTATGCCCCAGTTATT
1 AAAGGGGTTATGCCCCAGTTATT
*
34085462 AAAGGGGTTATGCCTCAGTTATT
1 AAAGGGGTTATGCCCCAGTTATT
34085485 AAAGGGGTTATGCCCCAGTTATT
1 AAAGGGGTTATGCCCCAGTTATT
*
34085508 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGGTTATGCCCCAGTTATT
34085531 AAA
1 AAA
34085534 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (23 bp):
AAAGGGGTTATGCCCCAGTTATT
Found at i:34085782 original size:31 final size:31
Alignment explanation
Indices: 34085747--34085810 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
34085737 CGTTTACAGT
34085747 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
34085778 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34085809 AA
1 AA
34085811 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34086591 original size:25 final size:25
Alignment explanation
Indices: 34086562--34086609 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34086552 TTGTAATGTG
* * *
34086562 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34086587 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34086610 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34086670 original size:20 final size:20
Alignment explanation
Indices: 34086636--34086708 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
34086626 GATACGTGGG
34086636 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
34086653 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
34086674 GTATGATATGCACATGATAT
1 GTATGATATGCACATGATAT
*
34086694 GTATGAAATGCACAT
1 GTATGATATGCACAT
34086709 AATGAATTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
17 1 0.02
18 8 0.16
20 40 0.78
21 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:34086672 original size:11 final size:11
Alignment explanation
Indices: 34086656--34086694 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
34086646 CATGATTGAT
34086656 ATGATATGCAC
1 ATGATATGCAC
*
34086667 ATGATATG--T
1 ATGATATGCAC
34086676 ATGATATGCAC
1 ATGATATGCAC
34086687 ATGATATG
1 ATGATATG
34086695 TATGAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34086790 original size:25 final size:26
Alignment explanation
Indices: 34086761--34086889 Score: 158
Period size: 26 Copynumber: 5.1 Consensus size: 26
34086751 GAGGAAGTGC
34086761 AAAAA-GGCTTATGCCCCAGTTTATT
1 AAAAAGGGCTTATGCCCCAGTTTATT
* * **
34086786 GAAAAGGGCTTATGCCCTAGTTTACC
1 AAAAAGGGCTTATGCCCCAGTTTATT
* *
34086812 GAAAAGGGCTTATGCCCTAGTTTATT
1 AAAAAGGGCTTATGCCCCAGTTTATT
**
34086838 AAAAAGGGCTT-TGCCCCAGTTTACC
1 AAAAAGGGCTTATGCCCCAGTTTATT
34086863 AAAAAGGGCTT-TGCCCCAG-TTATT
1 AAAAAGGGCTTATGCCCCAGTTTATT
34086887 AAA
1 AAA
34086890 GAGGCTAGGC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
24 6 0.07
25 34 0.37
26 51 0.56
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (26 bp):
AAAAAGGGCTTATGCCCCAGTTTATT
Found at i:34086843 original size:52 final size:51
Alignment explanation
Indices: 34086760--34086889 Score: 194
Period size: 52 Copynumber: 2.6 Consensus size: 51
34086750 AGAGGAAGTG
* *
34086760 CAAAAA-GGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTAC
1 CAAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAGTTTAC
* *
34086811 CGAAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTTTAC
34086862 CAAAAAGGGCTT-TGCCCCAG-TTATTAAA
1 CAAAAAGGGCTTATGCCCCAGTTTATTAAA
34086890 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 8 0.11
50 7 0.10
51 28 0.39
52 29 0.40
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (51 bp):
CAAAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:34088841 original size:27 final size:28
Alignment explanation
Indices: 34088757--34088854 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
34088747 CATGAGATTG
* * * *
34088757 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
34088786 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34088814 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34088841 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34088855 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34088865 original size:27 final size:27
Alignment explanation
Indices: 34088785--34088867 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
34088775 TAAATTGTAC
* *
34088785 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
34088813 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
34088840 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
34088867 A
1 A
34088868 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:34088868 original size:29 final size:27
Alignment explanation
Indices: 34088757--34088868 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
34088747 CATGAGATTG
** * *
34088757 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
34088786 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
34088814 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
34088841 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
34088869 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:34090477 original size:31 final size:31
Alignment explanation
Indices: 34090442--34090525 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
34090432 CGTTTACAAT
34090442 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34090473 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34090504 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34090526 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 4 0.08
31 47 0.92
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34103014 original size:20 final size:19
Alignment explanation
Indices: 34102989--34103029 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
34102979 TGACCTCTTT
*
34102989 TTTCTCTTGTTCGTTTTGTG
1 TTTCTCTGGTT-GTTTTGTG
*
34103009 TTTCTCTGGTTTTTTTGTG
1 TTTCTCTGGTTGTTTTGTG
34103028 TT
1 TT
34103030 GTGGAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.00, C:0.12, G:0.20, T:0.68
Consensus pattern (19 bp):
TTTCTCTGGTTGTTTTGTG
Found at i:34116488 original size:25 final size:25
Alignment explanation
Indices: 34116442--34116489 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
34116432 TGCGGTAATG
34116442 AATTTTTTTTTAATTTCTTACTGTC
1 AATTTTTTTTTAATTTCTTACTGTC
34116467 AATTCTTTCTTTT-ATTTC-TACTG
1 AATT-TTT-TTTTAATTTCTTACTG
34116490 GTGCTGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 9 0.43
26 8 0.38
27 4 0.19
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (25 bp):
AATTTTTTTTTAATTTCTTACTGTC
Found at i:34119893 original size:23 final size:22
Alignment explanation
Indices: 34119841--34119893 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34119831 TCCACGTCTT
*
34119841 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34119863 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34119886 TTTCTTTT
1 TTTCTTTT
34119894 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34122272 original size:4 final size:4
Alignment explanation
Indices: 34122263--34122289 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34122253 AAACTAAGTA
34122263 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
34122290 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:34125352 original size:95 final size:95
Alignment explanation
Indices: 34125189--34125361 Score: 310
Period size: 95 Copynumber: 1.8 Consensus size: 95
34125179 AAGCTTAGTC
*
34125189 GTAGAGAACATGAAATGATTCATCTCCCACCTTAACCCTAAAATAATCCTAAGCGCTAAGCTTAG
1 GTAGAGAACATGAAATGATTCATCTCCCACCTTAAACCTAAAATAATCCTAAGCGCTAAGCTTAG
34125254 CAGAAATTGCACCATCAGCAGTTTGTGGTT
66 CAGAAATTGCACCATCAGCAGTTTGTGGTT
* * *
34125284 GTAGAGAACATGATATGATTCATCTCCCACCTTAAATCTAAAATAATCCTATGCGCTAAGCTTAG
1 GTAGAGAACATGAAATGATTCATCTCCCACCTTAAACCTAAAATAATCCTAAGCGCTAAGCTTAG
34125349 CAGAAATTGCACC
66 CAGAAATTGCACC
34125362 TTCCTTGTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (95 bp):
GTAGAGAACATGAAATGATTCATCTCCCACCTTAAACCTAAAATAATCCTAAGCGCTAAGCTTAG
CAGAAATTGCACCATCAGCAGTTTGTGGTT
Found at i:34132790 original size:21 final size:21
Alignment explanation
Indices: 34132761--34132803 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34132751 TTTTGAAAAT
*
34132761 ATATAAAATATTAAAATTTTA
1 ATATAAAATATTAAAATGTTA
* *
34132782 ATATCAAATATTACAATGTTA
1 ATATAAAATATTAAAATGTTA
34132803 A
1 A
34132804 ATATTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATAAAATATTAAAATGTTA
Found at i:34133058 original size:23 final size:23
Alignment explanation
Indices: 34133032--34133080 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
34133022 AATAATAAAT
34133032 TTTTATATTATA-AAATAGGAATA
1 TTTTA-ATTATATAAATAGGAATA
* *
34133055 TTTTAATTATATAAATATGAGTA
1 TTTTAATTATATAAATAGGAATA
34133078 TTT
1 TTT
34133081 GTTTAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTTAATTATATAAATAGGAATA
Found at i:34133537 original size:20 final size:19
Alignment explanation
Indices: 34133477--34133604 Score: 87
Period size: 20 Copynumber: 6.4 Consensus size: 19
34133467 CGAAACCAAT
* *
34133477 ATTTTTAAGGATTTACCAGA
1 ATTTCTAAGGATTTA-CAAA
* * * *
34133497 ATATATAAGAATTTATTAAA
1 ATTTCTAAGGATTTA-CAAA
* *
34133517 ATTTCTAAAGTTTTACAAAA
1 ATTTCTAAGGATTTAC-AAA
34133537 ATTTCTAAGG-TTATACTAAA
1 ATTTCTAAGGATT-TAC-AAA
* *
34133557 ATATCTAAGGAATTACCAAA
1 ATTTCTAAGGATTTA-CAAA
*
34133577 ATTTTTAAGGATTTATCAAA
1 ATTTCTAAGGATTTA-CAAA
34133597 ATTTCTAA
1 ATTTCTAA
34133605 AATTGTTTTG
Statistics
Matches: 83, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
19 2 0.02
20 79 0.95
21 2 0.02
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (19 bp):
ATTTCTAAGGATTTACAAA
Found at i:34133557 original size:40 final size:39
Alignment explanation
Indices: 34133502--34133605 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 39
34133492 CCAGAATATA
* **
34133502 TAAGAATTTATTAAAATTTCTAAAGTTTTACAAAAATTTC
1 TAAGGATTTA-TAAAATTTCTAAAGAATTACAAAAATTTC
* * * *
34133542 TAAGG-TTATACTAAAATATCTAAGGAATTACCAAAATTTT
1 TAAGGATT-TA-TAAAATTTCTAAAGAATTACAAAAATTTC
34133582 TAAGGATTTATCAAAATTTCTAAA
1 TAAGGATTTAT-AAAATTTCTAAA
34133606 ATTGTTTTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
39 3 0.06
40 46 0.90
41 2 0.04
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (39 bp):
TAAGGATTTATAAAATTTCTAAAGAATTACAAAAATTTC
Found at i:34133674 original size:19 final size:20
Alignment explanation
Indices: 34133650--34133691 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
34133640 CATTCATTCA
*
34133650 TACCAA-ATTTTTAATGATT
1 TACCAACATTTTTAAAGATT
34133669 TACCAACATTTTTAAAGATT
1 TACCAACATTTTTAAAGATT
34133689 TAC
1 TAC
34133692 TTGTAACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (20 bp):
TACCAACATTTTTAAAGATT
Found at i:34135435 original size:99 final size:96
Alignment explanation
Indices: 34135325--34135504 Score: 274
Period size: 96 Copynumber: 1.8 Consensus size: 96
34135315 TACAAGAGGT
* *
34135325 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-TGATATGTGA-GAGCTAGTGTAAGAC
1 GTCAGTGTAAGACCATGTCTAAGACATGGCATC-G-ACGTG--ATG-GATGAGCCAGTGTAAGAC
34135388 CATGTCTGGGACATGACGTCGGCCTCGATTTCGATA
61 CATGTCTGGGACATGACGTCGGCCTCGATTTCGATA
*
34135424 GTCAGTGTAAGACCATGTCTAAGACATGGCATCGACGTGATGGATGAGCCAGTGTAAGATCATGT
1 GTCAGTGTAAGACCATGTCTAAGACATGGCATCGACGTGATGGATGAGCCAGTGTAAGACCATGT
34135489 CTGGGACATGACGTCG
66 CTGGGACATGACGTCG
34135505 ACATTATACC
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
95 2 0.03
96 37 0.49
97 2 0.03
98 3 0.04
99 32 0.42
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTAAGACATGGCATCGACGTGATGGATGAGCCAGTGTAAGACCATGT
CTGGGACATGACGTCGGCCTCGATTTCGATA
Found at i:34135450 original size:49 final size:50
Alignment explanation
Indices: 34135325--34135500 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
34135315 TACAAGAGGT
*
34135325 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGACATCGGCACTGATATGTGAGA
* * *
34135375 G-CTAGTGTAAGACCATGTCTGGGACATGACGTCGGC-CTCGAT-T-TCGATA
1 GTC-AGTGTAAGACCATGTCTAGGACATGACATCGGCACT-GATATGT-GAGA
* *
34135424 GTCAGTGTAAGACCATGTCTAAGACATGGCATC-G-AC-G-TGATG-GATGA
1 GTCAGTGTAAGACCATGTCTAGGACATGACATCGGCACTGAT-ATGTGA-GA
* * *
34135471 GCCAGTGTAAGATCATGTCTGGGACATGAC
1 GTCAGTGTAAGACCATGTCTAGGACATGAC
34135501 GTCGACATTA
Statistics
Matches: 103, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 27 0.26
48 3 0.03
49 34 0.33
50 35 0.34
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTAGGACATGACATCGGCACTGATATGTGAGA
Found at i:34135506 original size:47 final size:49
Alignment explanation
Indices: 34135327--34135506 Score: 154
Period size: 49 Copynumber: 3.7 Consensus size: 49
34135317 CAAGAGGTGT
* * * * *
34135327 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACT-GATATGTGA-GAGC
1 CAGTGTAAGACCATGTCTGGGACATGACGTCGAC-CTCGAT-T-CGATGAGC
* * *
34135377 TAGTGTAAGACCATGTCTGGGACATGACGTCGGCCTCGATTTCGAT-AGT
1 CAGTGTAAGACCATGTCTGGGACATGACGTCGACCTCGA-TTCGATGAGC
** * * * *
34135426 CAGTGTAAGACCATGTCTAAGACATGGCATCGACGT-GA-TGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGACGTCGACCTCGATTCGATGAGC
*
34135473 CAGTGTAAGATCATGTCTGGGACATGACGTCGAC
1 CAGTGTAAGACCATGTCTGGGACATGACGTCGAC
34135507 ATTATACCCT
Statistics
Matches: 106, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
46 4 0.04
47 31 0.29
48 2 0.02
49 35 0.33
50 33 0.31
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGACGTCGACCTCGATTCGATGAGC
Found at i:34141119 original size:48 final size:47
Alignment explanation
Indices: 34141000--34141124 Score: 108
Period size: 49 Copynumber: 2.6 Consensus size: 47
34140990 ATGTGCTAAA
* * *
34141000 CCACTGGTAGGGCATGCTAGTTGCTAACTAGGTGGGAGTATATGATGGG
1 CCACTGGTA-GGCATG-TAGTTGCTAACCAGATGGGAGTATATGACGGG
* * * * *
34141049 CCGCTAGTAAGGCATGTTAGTTGCTAACCAGATTGGCGTGTAT-ACGGG
1 CCACTGGT-AGGCATG-TAGTTGCTAACCAGATGGGAGTATATGACGGG
*
34141097 CCACTGGTAGGACATGTAAGTTGTTAAC
1 CCACTGGTAGG-CATGT-AGTTGCTAAC
34141125 TAGGTTAGCG
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
47 4 0.07
48 23 0.38
49 33 0.54
50 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (47 bp):
CCACTGGTAGGCATGTAGTTGCTAACCAGATGGGAGTATATGACGGG
Found at i:34150764 original size:32 final size:33
Alignment explanation
Indices: 34150726--34150792 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
34150716 ACATTACCAA
34150726 CATAAGGTT-TATCAAAATAACCAAGGAATTAC
1 CATAAGGTTATATCAAAATAACCAAGGAATTAC
* * *
34150758 CATAAGGTTATATCAAAATATCTAAGGATTTAC
1 CATAAGGTTATATCAAAATAACCAAGGAATTAC
34150791 CA
1 CA
34150793 AAATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
CATAAGGTTATATCAAAATAACCAAGGAATTAC
Found at i:34150794 original size:20 final size:20
Alignment explanation
Indices: 34150771--34150811 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34150761 AAGGTTATAT
*
34150771 CAAAATATCTAAGGATTTAC
1 CAAAATATCTAAGAATTTAC
* *
34150791 CAAAATTTTTAAGAATTTAC
1 CAAAATATCTAAGAATTTAC
34150811 C
1 C
34150812 GATGTTTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (20 bp):
CAAAATATCTAAGAATTTAC
Found at i:34150828 original size:20 final size:20
Alignment explanation
Indices: 34150778--34150848 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
34150768 TATCAAAATA
* *
34150778 TCTAAGGATTTACCAAAATT
1 TCTAAAGATTTACCAATATT
* * *
34150798 T-TTAAGAATTTACCGATGTT
1 TCTAAAG-ATTTACCAATATT
34150818 TCTAAAGATTTACCAATATT
1 TCTAAAGATTTACCAATATT
*
34150838 TCTAGAGATTT
1 TCTAAAGATTT
34150849 CCTTAATGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.08
20 33 0.82
21 4 0.10
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
TCTAAAGATTTACCAATATT
Found at i:34150913 original size:20 final size:20
Alignment explanation
Indices: 34150888--34151004 Score: 109
Period size: 20 Copynumber: 5.8 Consensus size: 20
34150878 AATTTTGGCA
34150888 TACCAAAATTTCTAAGGATT
1 TACCAAAATTTCTAAGGATT
*
34150908 TACCAAAATTTAGT-AGG-TT
1 TACCAAAATTT-CTAAGGATT
*
34150927 ATACCAAAATATT-TAAAGATT
1 -TACCAAAAT-TTCTAAGGATT
*
34150948 TACCAAAA-TTCTTTAGG-TT
1 TACCAAAATTTC-TAAGGATT
*
34150967 ATACCAAAATTTCCAAGGATT
1 -TACCAAAATTTCTAAGGATT
*
34150988 TACCAATATTTCTAAGG
1 TACCAAAATTTCTAAGG
34151005 GTTTTAAACT
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.03
19 5 0.06
20 62 0.78
21 10 0.13
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
TACCAAAATTTCTAAGGATT
Found at i:34150934 original size:40 final size:39
Alignment explanation
Indices: 34150887--34150998 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 39
34150877 AAATTTTGGC
34150887 ATACCAAAATTTCTAAGGATTTACCAAAATTTAGTAGGTT
1 ATACCAAAATTTCTAAGGATTTACCAAAATTT-GTAGGTT
* *
34150927 ATACCAAAATATT-TAAAGATTTACCAAAATTCTTTAGGTT
1 ATACCAAAAT-TTCTAAGGATTTACCAAAATT-TGTAGGTT
* *
34150967 ATACCAAAATTTCCAAGGATTTACCAATATTT
1 ATACCAAAATTTCTAAGGATTTACCAAAATTT
34150999 CTAAGGGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.05
40 58 0.91
41 3 0.05
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (39 bp):
ATACCAAAATTTCTAAGGATTTACCAAAATTTGTAGGTT
Found at i:34151167 original size:28 final size:28
Alignment explanation
Indices: 34151126--34151187 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
34151116 ATATACATGT
34151126 ATTTACAAAATTTCTAA-GAATTTACCAAA
1 ATTT-CAAAATTTCTAATG-ATTTACCAAA
*
34151155 ATTTCAACATTTCTAATGATTTACCAAA
1 ATTTCAAAATTTCTAATGATTTACCAAA
*
34151183 TTTTC
1 ATTTC
34151188 TAAGGATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.40
Consensus pattern (28 bp):
ATTTCAAAATTTCTAATGATTTACCAAA
Found at i:34151204 original size:48 final size:47
Alignment explanation
Indices: 34151126--34151254 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 47
34151116 ATATACATGT
* * *
34151126 ATTTACAAAATTTCTAAGAATTTACCAAAATTTCAACATTTCTAAT-G
1 ATTTACCAAATTTCTAAGGATTTGCCAAAATTTCAACATTT-TAATAG
* ** *
34151173 ATTTACCAAATTTTCTAAGGATTTGCTAAAATTTCAATGTTTTTATAG
1 ATTTACCAAA-TTTCTAAGGATTTGCCAAAATTTCAACATTTTAATAG
*
34151221 ATTTACCATAATTTCTAAGGCTTTGCCAAAATTT
1 ATTTACCA-AATTTCTAAGGATTTGCCAAAATTT
34151255 ATATGGTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 12 0.17
48 56 0.80
49 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (47 bp):
ATTTACCAAATTTCTAAGGATTTGCCAAAATTTCAACATTTTAATAG
Found at i:34151207 original size:20 final size:20
Alignment explanation
Indices: 34151163--34151207 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34151153 AAATTTCAAC
*
34151163 ATTTCTAATGATTTACCAAA
1 ATTTCTAAGGATTTACCAAA
* * *
34151183 TTTTCTAAGGATTTGCTAAA
1 ATTTCTAAGGATTTACCAAA
34151203 ATTTC
1 ATTTC
34151208 AATGTTTTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTTCTAAGGATTTACCAAA
Found at i:34151299 original size:20 final size:20
Alignment explanation
Indices: 34151246--34151299 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
34151236 TAAGGCTTTG
* *
34151246 CCAAAATTTATATGGTTATA
1 CCAATATTTATAAGGTTATA
34151266 CCAATA-TTATTAAGTGTT-TA
1 CCAATATTTA-TAAG-GTTATA
34151286 CCAATATTTATAAG
1 CCAATATTTATAAG
34151300 CTTTATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 3 0.10
20 20 0.69
21 6 0.21
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (20 bp):
CCAATATTTATAAGGTTATA
Found at i:34151440 original size:20 final size:19
Alignment explanation
Indices: 34151417--34151474 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
34151407 AAAAAAAACT
*
34151417 TAAGAATTTACCAAAATTTC
1 TAAG-ATTTACCAAAATTCC
* *
34151437 TAAGATTATACCAACATACC
1 TAAGATT-TACCAAAATTCC
*
34151457 TAAGGATTTACAAAAATT
1 TAA-GATTTACCAAAATT
34151475 AGCCTTAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (19 bp):
TAAGATTTACCAAAATTCC
Found at i:34151548 original size:20 final size:19
Alignment explanation
Indices: 34151525--34151593 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
34151515 ATCCATGGAT
34151525 ATTTTGGTAGAAACTTAGAA
1 ATTTTGGTA-AAACTTAGAA
* *
34151545 ATTTT-GTAAATCATTATAA
1 ATTTTGGTAAAAC-TTAGAA
* *
34151564 ATTTTGATAAATCCTTAGAAA
1 ATTTTGGTAAA-ACTTAG-AA
34151585 ATTTTGGTA
1 ATTTTGGTA
34151594 TGCTAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
18 3 0.08
19 13 0.33
20 12 0.31
21 11 0.28
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (19 bp):
ATTTTGGTAAAACTTAGAA
Found at i:34154956 original size:23 final size:23
Alignment explanation
Indices: 34154930--34154977 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
34154920 GTGTTATAAT
*
34154930 AAATTTATTGGCATAACTTACAC
1 AAATTTATAGGCATAACTTACAC
34154953 AAATTTATAGGCATAACTTACAC
1 AAATTTATAGGCATAACTTACAC
34154976 AA
1 AA
34154978 TTTCAATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (23 bp):
AAATTTATAGGCATAACTTACAC
Found at i:34160955 original size:40 final size:40
Alignment explanation
Indices: 34160871--34161095 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
34160861 TTGAATGATG
* * * *
34160871 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34160911 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34160951 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34160990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34161030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34161071 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34161096 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34161117 original size:119 final size:119
Alignment explanation
Indices: 34160871--34161128 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
34160861 TTGAATGATG
* *
34160871 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
34160936 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
34160990 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
34161053 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
34161110 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34161129 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:34169034 original size:40 final size:40
Alignment explanation
Indices: 34168794--34169054 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
34168784 TTGAATGATG
* * * *
34168794 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34168834 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34168874 TCC-GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
34168912 TCCGGG-TAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34168950 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34168989 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34169030 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34169055 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 62 0.31
39 52 0.26
40 74 0.37
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34175041 original size:42 final size:42
Alignment explanation
Indices: 34174966--34175115 Score: 120
Period size: 42 Copynumber: 3.6 Consensus size: 42
34174956 GATGCCAACA
* ** * ** * *
34174966 CCATGTCCCAGACGTGGTCTTACATGGGATCTCACATTGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGACG
* * *
34175008 CCATATCCCAGATATGGTCTTATACGAATTCTCATTTTGACG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGACG
* * * * * **
34175050 CCATGTCCCAAACATGGCCTTACATGAAATCTCATATCAACG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGACG
* *
34175092 ACATATCCTAGATATGGTCTTACA
1 CCATATCCCAGATATGGTCTTACA
34175116 TGATAACTTA
Statistics
Matches: 81, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGACG
Found at i:34176770 original size:16 final size:16
Alignment explanation
Indices: 34176749--34176780 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34176739 TGAACTTACC
34176749 TCGGTACAAAATATGG
1 TCGGTACAAAATATGG
34176765 TCGGTACAAAATATGG
1 TCGGTACAAAATATGG
34176781 ACAATAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
TCGGTACAAAATATGG
Found at i:34180043 original size:24 final size:24
Alignment explanation
Indices: 34180011--34180085 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
34180001 ATTGATATAA
34180011 TGGTATCCTTTTTAACCTTTTCAT
1 TGGTATCCTTTTTAACCTTTTCAT
* ** *
34180035 TGGTATCCTTTTTGATGTTTTCGT
1 TGGTATCCTTTTTAACCTTTTCAT
* * *
34180059 TGATAACCTTTTCAACCTTTTTCAT
1 TGGTATCCTTTTTAACC-TTTTCAT
34180084 TG
1 TG
34180086 TTCCGGGATG
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 31 0.79
25 8 0.21
ACGTcount: A:0.16, C:0.19, G:0.12, T:0.53
Consensus pattern (24 bp):
TGGTATCCTTTTTAACCTTTTCAT
Found at i:34195496 original size:35 final size:34
Alignment explanation
Indices: 34195367--34195496 Score: 91
Period size: 35 Copynumber: 3.6 Consensus size: 34
34195357 GAAAAGTGAG
* * *
34195367 AAATGTAGGTATGGTATCATCCATAATGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCATACTGAGTTGTA
*
34195402 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTA-T-T----TCCATACTGAGTTGTA
* * ** *
34195441 GAAACGCAGGTATGACATTTCCTATACCGAGTTGTA
1 -AAATGTAGGTATGGTATTTCC-ATACTGAGTTGTA
34195477 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
34195497 AATGAGGAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
34 3 0.04
35 41 0.57
36 2 0.03
38 1 0.01
39 1 0.01
40 24 0.33
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (34 bp):
AAATGTAGGTATGGTATTTCCATACTGAGTTGTA
Found at i:34198173 original size:35 final size:35
Alignment explanation
Indices: 34198122--34198199 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 35
34198112 TTCATTATAT
34198122 CATCACATATTGCCGAATATACAAGTACAATAAAA
1 CATCACATATTGCCGAATATACAAGTACAATAAAA
* *
34198157 CATTACATA-TGACCGAATATACAAGTTCAATAAAA
1 CATCACATATTG-CCGAATATACAAGTACAATAAAA
34198192 CATCACAT
1 CATCACAT
34198200 GTAGTTGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
34 2 0.05
35 37 0.95
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (35 bp):
CATCACATATTGCCGAATATACAAGTACAATAAAA
Found at i:34198210 original size:35 final size:35
Alignment explanation
Indices: 34198134--34198247 Score: 113
Period size: 35 Copynumber: 3.3 Consensus size: 35
34198124 TCACATATTG
* * *
34198134 CCGAATATACAAGTACAATAAAACATTACATATGA
1 CCGAATATACAAGTTCAATAAAACATCACATGTGA
34198169 CCGAATATACAAGTTCAATAAAACATCACATGT-A
1 CCGAATATACAAGTTCAATAAAACATCACATGTGA
** * * * * *
34198203 GTTGAATATTCAAGTTTAATATAACATCAGATGTGG
1 -CCGAATATACAAGTTCAATAAAACATCACATGTGA
*
34198239 CCAAATATA
1 CCGAATATA
34198248 TATAAATTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.02
35 62 0.98
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (35 bp):
CCGAATATACAAGTTCAATAAAACATCACATGTGA
Found at i:34212302 original size:40 final size:40
Alignment explanation
Indices: 34211962--34212293 Score: 583
Period size: 40 Copynumber: 8.3 Consensus size: 40
34211952 GAGTTATATA
* * *
34211962 TATCCGAGCTAAGTCCCGAAAAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
34212002 TATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
34212042 AATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTTGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
34212082 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
34212122 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
34212162 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
34212202 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
34212242 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
34212282 TATCCGGGCTAA
1 TATCCGGGCTAA
34212294 ACCTCGAAGG
Statistics
Matches: 280, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 280 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:34212416 original size:57 final size:57
Alignment explanation
Indices: 34212324--34212466 Score: 151
Period size: 57 Copynumber: 2.5 Consensus size: 57
34212314 GGAGTTATGC
* * * ** * * *
34212324 GGCACTGTGTGTGCAAGTTCTTCAACCGAGTACTATGTATGCCAGATCAGTAGTTGA
1 GGCACTATGTGTGCGAGTTCTTCAATCGAACACTATGTATACCAGATCAGTAATTCA
* * * **
34212381 GGCACTATGTGTGTGAGTTCTTCAATCGAACACTATGTGTACGAGATTGGTAATTCA
1 GGCACTATGTGTGCGAGTTCTTCAATCGAACACTATGTATACCAGATCAGTAATTCA
* *
34212438 GTCACTATGTGTGCGAGTTCTTTAATCGA
1 GGCACTATGTGTGCGAGTTCTTCAATCGA
34212467 GCGCTATATG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
57 70 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (57 bp):
GGCACTATGTGTGCGAGTTCTTCAATCGAACACTATGTATACCAGATCAGTAATTCA
Found at i:34212463 original size:29 final size:29
Alignment explanation
Indices: 34212383--34212481 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 29
34212373 GTAGTTGAGG
* *
34212383 CACTATGTGTGTGAGTTCTTCAA-TCGAA
1 CACTATGTGTGCGAGTTCTTTAATTCGAA
* ** *
34212411 CACTATGTGTACGAGATT-GGTAATTC-AGT
1 CACTATGTGTGCGAG-TTCTTTAATTCGA-A
*
34212440 CACTATGTGTGCGAGTTCTTTAA-TCGAG
1 CACTATGTGTGCGAGTTCTTTAATTCGAA
* *
34212468 CGCTATATGTGCGA
1 CACTATGTGTGCGA
34212482 AATCAGTCAG
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
28 32 0.59
29 22 0.41
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (29 bp):
CACTATGTGTGCGAGTTCTTTAATTCGAA
Found at i:34214476 original size:28 final size:28
Alignment explanation
Indices: 34214444--34214529 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 28
34214434 TACCTGTATC
* * *
34214444 TGGCCCACTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
34214472 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
*
34214501 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
34214529 T
1 T
34214530 TTGTGCTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.47
29 24 0.49
30 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:34214501 original size:29 final size:29
Alignment explanation
Indices: 34214435--34214516 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
34214425 AATTTCACAT
* * *
34214435 ACCTGTATCTGGCCCACTAAGCCC-AATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
**
34214463 ATAT-TCATATGGCCCATTAGGCCCAAATC
1 ACCTGT-ATATGGCCCATTAGGCCCAAATC
34214492 ACCTGTATATGGCCCATTAGGCCCA
1 ACCTGTATATGGCCCATTAGGCCCA
34214517 GTCACATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.02
28 17 0.39
29 25 0.57
30 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:34228317 original size:29 final size:29
Alignment explanation
Indices: 34228285--34228361 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
34228275 AATCATATTC
*
34228285 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
34228314 ATATGGCCCATTAGTCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
34228343 ACATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
34228362 GCCACATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:34230089 original size:43 final size:43
Alignment explanation
Indices: 34230026--34230114 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
34230016 ACCATCAACT
*
34230026 CAACACCTATTACATGATGCATCACAAATGAGTCATCGTGGGA
1 CAACACCTATTACATCATGCATCACAAATGAGTCATCGTGGGA
34230069 CAACACCTATTACATCATGCATCACAAATGAGTCATCGTGGGA
1 CAACACCTATTACATCATGCATCACAAATGAGTCATCGTGGGA
34230112 CAA
1 CAA
34230115 TCTCATCGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (43 bp):
CAACACCTATTACATCATGCATCACAAATGAGTCATCGTGGGA
Found at i:34231884 original size:26 final size:27
Alignment explanation
Indices: 34231847--34231905 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
34231837 TTCCTCGGCC
* *
34231847 TTTTGATGATTTTACCCTTGGTAA-AA
1 TTTTGATCATTTTACCCTTAGTAATAA
*
34231873 TTTTGATCATTTTGCCCTTAGTAATAA
1 TTTTGATCATTTTACCCTTAGTAATAA
34231900 TTTTGA
1 TTTTGA
34231906 GAAAATATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (27 bp):
TTTTGATCATTTTACCCTTAGTAATAA
Found at i:34233835 original size:48 final size:48
Alignment explanation
Indices: 34233774--34234099 Score: 224
Period size: 48 Copynumber: 6.7 Consensus size: 48
34233764 CCGGTATAGA
* * * *
34233774 GAGCCAGTTTAAGACCATGTTTGGAACATGGCATTGGTATTGTTTTGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGC
* * * * ***
34233822 GAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGC
* **
34233870 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATAT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGC
* * * ** * *
34233918 GTGTCAGTGTAAGATCATGTCAAGG-ACATGGAATTGGCACTAATG-TATGA
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATTGGCA-T--TGTTATGC
* * * * * * ** *
34233968 GAGCCAGTGTAACACCATGTTCGGGACATGGCATCGGCCTCGACATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGC
* * * * ** *
34234016 AAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACACCGATGTATGG
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTG-T-TATGC
** *
34234066 GAGCCAGTGTAAGACCATGTCCGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
34234100 AAGCATTTTA
Statistics
Matches: 212, Mismatches: 58, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
47 1 0.00
48 141 0.67
49 6 0.03
50 62 0.29
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGC
Found at i:34233888 original size:96 final size:97
Alignment explanation
Indices: 34233674--34234005 Score: 307
Period size: 96 Copynumber: 3.4 Consensus size: 97
34233664 ACCATGGCGA
* * * * * * *
34233674 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG--ATATGTGTCAACGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGAGCCAATGTAA
* ** * * * **
34233737 GGCCATGT-TTGAGACTTGGAATCGACAC-CGG
66 GACCATGTCAAG-GACATGGAATTGGCACTAAG
* * * * *
34233768 TATAGAGAGCCAGTTTAAGACCATGTTTGGAACATGGCATTGGTATTGTTTTGTGAGCCAATGTA
1 TAT-GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGAGCCAATGTA
** *
34233833 AGACCATGTCTGGGACATGGCATTGGC-CTCAA-
65 AGACCATGTCAAGGACATGGAATTGGCACT-AAG
* * * *
34233865 TATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGTGTCAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGAGCCAATGTAA
*
34233930 GATCATGTCAAGGACATGGAATTGGCACTAATG
66 GACCATGTCAAGGACATGGAATTGGCACTAA-G
* * *
34233963 TATGAGAGCCAGTGTAACACCATGTTCGGGACATGGCATCGGC
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
34234006 CTCGACATGT
Statistics
Matches: 192, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
94 3 0.02
95 37 0.19
96 78 0.41
97 33 0.17
98 41 0.21
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (97 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGAGCCAATGTAA
GACCATGTCAAGGACATGGAATTGGCACTAAG
Found at i:34234025 original size:98 final size:97
Alignment explanation
Indices: 34233674--34234099 Score: 309
Period size: 98 Copynumber: 4.4 Consensus size: 97
34233664 ACCATGGCGA
* * **
34233674 TATGAGAGCCAGTGTAAGACCATG-TCTGGGACATGGCATCGGCCTCG-ATATGTGTCAACGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTC-GGGACATGGCATCGGCATCGTACATGTGTCAGTGTAA
* * * * * * **
34233737 GGCCATGT-TTGAGACTTGGAATCGACAC--CGG
65 GACCATGTCTAG-GACATGGCATTGGCACTAATG
* * * * * * ** * *
34233768 TATAGAGAGCCAGTTTAAGACCATGTTTGGAACATGGCATTGGTATTGT-TTTGTGAGCCAATGT
1 TAT-GAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCGTACATGT--GTCAGTGT
*
34233832 AAGACCATGTCTGGGACATGGCATTGGC-CTCAA--
63 AAGACCATGTCTAGGACATGGCATTGGCACT-AATG
* * * * *
34233865 TATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATATGTGTCAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCG-TACATGTGTCAGTGTAA
* * *
34233930 GATCATGTCAAGGACATGGAATTGGCACTAATG
65 GACCATGTCTAGGACATGGCATTGGCACTAATG
* *
34233963 TATGAGAGCCAGTGTAACACCATGTTCGGGACATGGCATCGGCCTCG-ACATGTAAG-CTAGTGT
1 TATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCGTACATGT--GTC-AGTGT
* * * **
34234026 AAGACCATGT-TTGGAACATGGCATCGACACCGATG
63 AAGACCATGTCTAGG-ACATGGCATTGGCACTAATG
* *
34234061 TATGGGAGCCAGTGTAAGACCATGTCCGGGACATGGCAT
1 TATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCAT
34234100 AAGCATTTTA
Statistics
Matches: 268, Mismatches: 46, Indels: 32
0.77 0.13 0.09
Matches are distributed among these distances:
94 3 0.01
95 39 0.15
96 79 0.29
97 34 0.13
98 113 0.42
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (97 bp):
TATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCGTACATGTGTCAGTGTAAG
ACCATGTCTAGGACATGGCATTGGCACTAATG
Found at i:34235060 original size:28 final size:29
Alignment explanation
Indices: 34235019--34235077 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
34235009 TTACCCCTTC
*
34235019 CTTTTTCCTTATTTTATAGGCTCACTAAG
1 CTTTTTCCTCATTTTATAGGCTCACTAAG
34235048 CTTTTT-CTCATTTTATAGGCTCACTAAG
1 CTTTTTCCTCATTTTATAGGCTCACTAAG
34235076 CT
1 CT
34235078 ATCTCGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.47
Consensus pattern (29 bp):
CTTTTTCCTCATTTTATAGGCTCACTAAG
Found at i:34238360 original size:40 final size:40
Alignment explanation
Indices: 34238316--34238396 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
34238306 ACTAATATGT
*
34238316 CAAAGCTATACCGAACCGCACACTAAGTGCCAAATTTAGC
1 CAAAGCTATACCGAACCACACACTAAGTGCCAAATTTAGC
* * **
34238356 CAAAGCTATTCCGAACCACACACTAGGTGCCATTTTTAGC
1 CAAAGCTATACCGAACCACACACTAAGTGCCAAATTTAGC
34238396 C
1 C
34238397 GATATGTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (40 bp):
CAAAGCTATACCGAACCACACACTAAGTGCCAAATTTAGC
Found at i:34240634 original size:36 final size:36
Alignment explanation
Indices: 34240584--34240653 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
34240574 AGGAAATCTA
*
34240584 TAGGAAAAATAAATTTATCTACTCTTACTAGCACGT
1 TAGGAAAAACAAATTTATCTACTCTTACTAGCACGT
34240620 TAGGAAAAACAAATTTATCTACTCTTACTAGCAC
1 TAGGAAAAACAAATTTATCTACTCTTACTAGCAC
34240654 ATCTTCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (36 bp):
TAGGAAAAACAAATTTATCTACTCTTACTAGCACGT
Found at i:34252989 original size:31 final size:31
Alignment explanation
Indices: 34252948--34253019 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
34252938 TCAGTCTCGA
*
34252948 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAACCCTTTTCATAAAT
*
34252978 CATATCACTGGGCCGAACCCTTTTCATAAAT
1 CATATCACTGGGCCAAACCCTTTTCATAAAT
*
34253009 CTTATCACTGG
1 CATATCACTGG
34253020 TCGAAGCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCAAACCCTTTTCATAAAT
Found at i:34253206 original size:25 final size:26
Alignment explanation
Indices: 34253178--34253249 Score: 112
Period size: 25 Copynumber: 2.8 Consensus size: 26
34253168 CTCTTTTAAT
34253178 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTGAGTA
*
34253203 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGAGTA
*
34253228 AACTGGGGCATAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
34253250 CACTTCCTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 5 0.12
25 33 0.79
26 4 0.10
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTGAGTA
Found at i:34254117 original size:27 final size:27
Alignment explanation
Indices: 34254040--34254119 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
34254030 TTATACGGAA
34254040 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
34254065 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
34254092 CCTACAGAGGCT-TTACGGTCTTTTTAC
1 CATACAG-GGCTATTACGGTCATTTTAC
34254119 C
1 C
34254120 TATTAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 29 0.64
28 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:34254203 original size:27 final size:27
Alignment explanation
Indices: 34254173--34254224 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
34254163 GTAAATCTAC
34254173 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
34254200 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
34254225 TATAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:34254277 original size:27 final size:27
Alignment explanation
Indices: 34254260--34254386 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
34254250 TTTTGTAAAT
34254260 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
34254287 T-GAGGGTATTTCGATAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * * * *
34254314 CAGTGGCATTTTGATAATTTTAAAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
34254341 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
34254368 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
34254387 CTATCCTACA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 82 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:34254455 original size:27 final size:27
Alignment explanation
Indices: 34254418--34254536 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
34254408 GTAATTTCAC
* *
34254418 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTATATA
34254445 AA-CTGAGGGTAAAATGGTAATTATATA
1 AATC-GAGGGTAAAATGGTAATTATATA
* *
34254472 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTATATA
*** * *
34254499 AATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTATATA
*
34254526 AGTCGAGGGTA
1 AATCGAGGGTA
34254537 TTTTTGTAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTATATA
Found at i:34256839 original size:29 final size:28
Alignment explanation
Indices: 34256747--34256839 Score: 64
Period size: 29 Copynumber: 3.2 Consensus size: 28
34256737 TAACACAGTG
* *
34256747 TCAGTACAATCTGGGCCAAAGCCCT-AT
1 TCAGTACAATATGGGCCTAAGCCCTAAT
* * *
34256774 TCAGTAACAGTAAGTCTGGCCTTAGCCCTTAA-
1 TCAGT-ACAAT-A-T-GGGCCTAAGCCC-TAAT
*
34256806 ACAGTAGCAATATGGGCCTAAGCCCTAAT
1 TCAGTA-CAATATGGGCCTAAGCCCTAAT
34256835 TCAGT
1 TCAGT
34256840 CTCGACATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
27 5 0.10
28 7 0.15
29 14 0.29
30 2 0.04
31 11 0.23
32 8 0.17
33 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (28 bp):
TCAGTACAATATGGGCCTAAGCCCTAAT
Found at i:34256888 original size:31 final size:31
Alignment explanation
Indices: 34256845--34256915 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
34256835 TCAGTCTCGA
34256845 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
34256875 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
34256906 CATATCACTG
1 CATATCACTG
34256916 CGACTGTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:34257164 original size:25 final size:25
Alignment explanation
Indices: 34257136--34257207 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
34257126 CTCTTTTAAT
34257136 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
34257161 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
34257186 AACTGGGGCATAGCCATTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
34257208 CACTTCCTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:34258076 original size:27 final size:27
Alignment explanation
Indices: 34258014--34258078 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
34258004 GGGCATATTT
*
34258014 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGCTATTACG
* *
34258041 GTCACTTTACCCTACAGAGGCT-TTACG
1 GTCATTTTACCATACAG-GGCTATTACG
*
34258068 GTCTTTTTACC
1 GTCATTTTACC
34258079 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGCTATTACG
Done.