Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 112 of 433
Found at i:34129461 original size:6 final size:6
Alignment explanation
Indices: 34129450--34129486 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
34129440 TTACTTGTAT
*
34129450 TATTAC TATTAC TATTAA TATTAC TATTAC TA-TAC TA
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TA
34129487 CCATTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (6 bp):
TATTAC
Found at i:34132742 original size:26 final size:25
Alignment explanation
Indices: 34132688--34132744 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
34132678 TAAGATGATT
34132688 ATATATAAAACTATAATAAATAAAA
1 ATATATAAAACTATAATAAATAAAA
* *
34132713 ATATATAAAATTATTAA-ATAATATAA
1 ATATATAAAACTA-TAATA-AATAAAA
34132739 ATATAT
1 ATATAT
34132745 GTTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATATAAAACTATAATAAATAAAA
Found at i:34132870 original size:16 final size:16
Alignment explanation
Indices: 34132849--34132881 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34132839 TATTTATATT
34132849 TTAAATTAAAT-TAAAA
1 TTAAA-TAAATATAAAA
34132865 TTAAATAAATATAAAA
1 TTAAATAAATATAAAA
34132881 T
1 T
34132882 ATATTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:34138883 original size:22 final size:21
Alignment explanation
Indices: 34138858--34138919 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
34138848 TGTATTATAC
*
34138858 ATTTTAATAATTAATATAAATT
1 ATTTTAAAAATTAATATAAA-T
*
34138880 ATTTGAAAAATTAATA-AAAT
1 ATTTTAAAAATTAATATAAAT
*
34138900 ATATTAAAAATTAAATATAA
1 ATTTTAAAAATT-AATATAA
34138920 TAATAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.32
21 7 0.21
22 16 0.47
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTTAAAAATTAATATAAAT
Found at i:34138908 original size:20 final size:21
Alignment explanation
Indices: 34138860--34138919 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
34138850 TATTATACAT
*
34138860 TTTAATAATTAATATAAATTA
1 TTTAAAAATTAATATAAATTA
34138881 TTTGAAAAATTAATA-AAA-TA
1 TTT-AAAAATTAATATAAATTA
34138901 TATTAAAAATTAAATATAA
1 T-TTAAAAATT-AATATAA
34138920 TAATAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 10 0.29
21 12 0.35
22 12 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTAAAAATTAATATAAATTA
Found at i:34138917 original size:16 final size:16
Alignment explanation
Indices: 34138896--34138949 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
34138886 AAAATTAATA
34138896 AAATATATTAAAAATT
1 AAATATATTAAAAATT
*
34138912 AAATATAATAATAAA-T
1 AAATATATTAA-AAATT
34138928 -AATAT-TTAAATAATT
1 AAATATATTAAA-AATT
*
34138943 TAATATA
1 AAATATA
34138950 ATCATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
16 16 0.52
17 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATATTAAAAATT
Found at i:34138948 original size:31 final size:31
Alignment explanation
Indices: 34138897--34138979 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
34138887 AAATTAATAA
34138897 AATATATTAAA-AATTAAATATAATAATAAAT
1 AATAT-TTAAATAATTAAATATAATAATAAAT
* * *
34138928 AATATTTAAATAATTTAATATAATCATACAT
1 AATATTTAAATAATTAAATATAATAATAAAT
* *
34138959 AAAATATAAATTAATATAAAT
1 AATATTTAAA-TAAT-TAAAT
34138980 TTTATATACC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 5 0.12
31 30 0.70
32 4 0.09
33 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATTTAAATAATTAAATATAATAATAAAT
Found at i:34139494 original size:30 final size:30
Alignment explanation
Indices: 34139459--34139518 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
34139449 TATTTTATTA
34139459 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
* *
34139489 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
34139519 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:34140737 original size:35 final size:35
Alignment explanation
Indices: 34140698--34140799 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
34140688 TTTTGGTCGC
34140698 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
1 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
** *
34140733 TTTGGG-TTT-G-G-G--TCCGTTCAAG-TTCTA-
1 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
* *
34140760 GTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTTAAT
1 TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
34140795 TTTGG
1 TTTGG
34140800 ATTTGGGTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 9 0.18
30 1 0.02
31 2 0.04
32 1 0.02
33 9 0.18
34 6 0.12
35 10 0.20
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (35 bp):
TTTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAAT
Found at i:34140773 original size:62 final size:62
Alignment explanation
Indices: 34140699--34140825 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
34140689 TTTGGTCGCT
* * *
34140699 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGGTTTGGGTCCGTTCAAGTTCTAG
1 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
* *
34140761 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTTAATTTTGGATTTGGGTCTATTCAAGTTCCAG
1 TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
34140823 TTG
1 TTG
34140826 AAAAATTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (62 bp):
TTGGGTTTTAGAGAGTTTGAGTTCAAGTTTCAATTTTGGATTTGGGTCCATTCAAGTTCCAG
Found at i:34143774 original size:51 final size:51
Alignment explanation
Indices: 34143678--34143786 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 51
34143668 TTTCATTTTT
* *
34143678 ATTTTTATTTTGGAGAAAACTACATTCATTTCCAAATAATTTCATTTCTCC
1 ATTTTCATTTTGGAGAAAACTACATTCATTTCCAAATAATTTCATTTATCC
* ** *
34143729 ATTTTCATTTTGGAGAAATCATA-A-TCATTTCCAAATGTTTCTCATTTATCT
1 ATTTTCATTTTGGAGAAAAC-TACATTCATTTCCAAATAATT-TCATTTATCC
34143780 ATTTTCA
1 ATTTTCA
34143787 CAATTTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 14 0.28
51 34 0.68
52 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (51 bp):
ATTTTCATTTTGGAGAAAACTACATTCATTTCCAAATAATTTCATTTATCC
Found at i:34152660 original size:31 final size:31
Alignment explanation
Indices: 34152622--34152681 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
34152612 TCACAATCCA
*
34152622 ATACAATTCAGATAGCATATATTGAGCTCAC
1 ATACAATTCACATAGCATATATTGAGCTCAC
34152653 ATACAATTCACATAGCATATATTGAGCTC
1 ATACAATTCACATAGCATATATTGAGCTC
34152682 TCATCTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (31 bp):
ATACAATTCACATAGCATATATTGAGCTCAC
Found at i:34153074 original size:46 final size:47
Alignment explanation
Indices: 34153023--34153142 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 47
34153013 ATAGCTGGTT
* * * *
34153023 CATGTCCCAGACATGTCTTACATTGGCT-TACATCTCGAGGTCGATG-
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGACGATGC
* * * *
34153069 CATGTCCTAGACAAGTCTTACACTAGCTCTCGTCTCAATGACGATGC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGACGATGC
*
34153116 CATGTCCCAGACATGTCTTATACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
34153143 ACACAAATAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 36 0.59
47 25 0.41
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGACGATGC
Found at i:34153134 original size:47 final size:48
Alignment explanation
Indices: 34152821--34153142 Score: 181
Period size: 47 Copynumber: 6.8 Consensus size: 48
34152811 CATAGGGTAT
*
34152821 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCATCCATC
1 AATGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TC
* * * * * **
34152869 AA-GTCAATGCCATGTCCTAGACATGGTCATACACT-G-ACT-ATCGAA
1 AATGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATC-TC
* * *
34152914 AATGAGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATC
1 AATGA---CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTC
** * * * *
34152967 CGTGCCGATGCCATGTCCCAGACATGGTCTTATACT-G-ACACATCTC
1 AATGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * * *
34153013 -AT-A-GCTGGTTCATGTCCCAGACAT-GTCTTACATTGGCT-TACATCTC
1 AATGACGAT-G-CCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTC
* * * * * *
34153059 GAGGTCGATG-CATGTCCTAGACA-AGTCTTACACTAGCTCTCGTCTC
1 AATGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
*
34153105 AATGACGATGCCATGTCCCAGACAT-GTCTTATACTAGC
1 AATGACGATGCCATGTCCCAGACATGGTCTTACACTAGC
34153143 ACACAAATAA
Statistics
Matches: 206, Mismatches: 46, Indels: 45
0.69 0.15 0.15
Matches are distributed among these distances:
43 2 0.01
44 9 0.04
45 19 0.09
46 51 0.25
47 57 0.28
48 4 0.02
49 29 0.14
50 29 0.14
51 2 0.01
53 2 0.01
54 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
AATGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:34158236 original size:40 final size:40
Alignment explanation
Indices: 34158163--34158280 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
34158153 AGCTCCTTTC
* * * *
34158163 ATAGCTGAAGCTATCTCATTCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAAT-ACACACACTAAGTGCCATAT
* * * * ***
34158204 GTAGTCGAAGCTATTCTGAAT-CCCACACTAAGTGTTTTAT
1 ATAGCCGAAGCTA-TCTCAATACACACACTAAGTGCCATAT
34158244 ATAGCCGAAGCTATCTCAATACACACACTAAGTGCCA
1 ATAGCCGAAGCTATCTCAATACACACACTAAGTGCCA
34158281 AACATAATCA
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
39 6 0.10
40 38 0.64
41 10 0.17
42 5 0.08
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAATACACACACTAAGTGCCATAT
Found at i:34159874 original size:23 final size:23
Alignment explanation
Indices: 34159839--34159904 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
34159829 TGCCACACGG
* *
34159839 GCCAAAGAAAATACACCACATAA
1 GCCAAACAGAATACACCACATAA
* * ** *
34159862 GCTAAACATAATATGCCACATAG
1 GCCAAACAGAATACACCACATAA
*
34159885 GCCAAACAGAATACTCCACA
1 GCCAAACAGAATACACCACA
34159905 AAGGCAATAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.48, C:0.27, G:0.11, T:0.14
Consensus pattern (23 bp):
GCCAAACAGAATACACCACATAA
Found at i:34162539 original size:19 final size:19
Alignment explanation
Indices: 34162502--34162539 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
34162492 GGTGAAGGAA
34162502 AGTTTTTATCCTAATATAAG
1 AGTTTTTAT-CTAATATAAG
34162522 AGTTTTTAT-TAATGATAA
1 AGTTTTTATCTAAT-ATAA
34162540 CACTAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
AGTTTTTATCTAATATAAG
Found at i:34162754 original size:27 final size:27
Alignment explanation
Indices: 34162711--34162764 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
34162701 CCAAGTTTTT
34162711 TTCATTAGACAGCATTATGAAA-GAGGA
1 TTCATTAGACAGCATTAT-AAAGGAGGA
*
34162738 TTCATTAGACTA-TATTATAAAGGAGGA
1 TTCATTAGAC-AGCATTATAAAGGAGGA
34162765 GGAGTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.12
27 20 0.83
28 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (27 bp):
TTCATTAGACAGCATTATAAAGGAGGA
Found at i:34165096 original size:51 final size:51
Alignment explanation
Indices: 34165015--34165113 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
34165005 TGGAAAGAAT
*
34165015 AGGGTGGGATAGTCCCCAAATAGTCTTTAACATGCGTTGAAGTTGAATGAC
1 AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAATGAC
* *
34165066 AGGGTGGGATAGTCCCCAAATATTCATTAACATGTGTTGAAGTTGAAT
1 AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAAT
34165114 AGTCCCCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (51 bp):
AGGGTGGGATAGTCCCCAAATAGTCATTAACATGCGTTGAAGTTGAATGAC
Found at i:34165525 original size:28 final size:28
Alignment explanation
Indices: 34165493--34165549 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
34165483 GTTTGCCTAG
34165493 AGATGAAAGGTGTATGGAGGAATGTTGA
1 AGATGAAAGGTGTATGGAGGAATGTTGA
34165521 AGATGAAAGGTGTATGGAGGAATGTTGA
1 AGATGAAAGGTGTATGGAGGAATGTTGA
34165549 A
1 A
34165550 TTACTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.39, T:0.25
Consensus pattern (28 bp):
AGATGAAAGGTGTATGGAGGAATGTTGA
Found at i:34166513 original size:45 final size:45
Alignment explanation
Indices: 34166449--34166541 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
34166439 GCATATTATG
34166449 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
1 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
*
34166494 GGAAAGGAGGTTAGTAATTTTTGTCTTAATATTTTGAACAATAAT
1 GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
34166539 GGA
1 GGA
34166542 TCGATTGAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (45 bp):
GGAAAGGAGGTTAGCAATTTTTGTCTTAATATTTTGAACAATAAT
Found at i:34172426 original size:100 final size:98
Alignment explanation
Indices: 34172251--34172479 Score: 273
Period size: 100 Copynumber: 2.3 Consensus size: 98
34172241 TATTGTGAAG
* * *
34172251 TCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATATGTAGTACT
*
34172316 AAGTGCAGGCTACTATGCATACTC-GATAACTTCGA
66 AAGTGCAGGCTACTACGCATAC-CAGATAA-TT-GA
* * * *
34172351 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGGTCACGTATGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATATGTAGTAC
* * **
34172415 TAAGTGTAGGCTATTACGTGTACCAGATAATTGA
65 TAAGTGCAGGCTACTACGCATACCAGATAATTGA
** *
34172449 TTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
34172480 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
98 30 0.27
99 5 0.04
100 77 0.69
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATATGTAGTACT
AAGTGCAGGCTACTACGCATACCAGATAATTGA
Found at i:34172487 original size:49 final size:50
Alignment explanation
Indices: 34172251--34172492 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 50
34172241 TATTGTGAAG
* * * *
34172251 TCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTACCAGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * ** *
34172300 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACTC-GATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-TTAGA
* * * *
34172351 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
* * * *
34172400 TCACGTATGTAGTACTAAGTGTAGGCTATTACGTGTACCAGATAATT-GA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
** * *
34172449 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
34172493 GCCTTGTCTA
Statistics
Matches: 157, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 115 0.73
50 6 0.04
51 36 0.23
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGA
Found at i:34177119 original size:10 final size:10
Alignment explanation
Indices: 34177106--34177152 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
34177096 GAGCTCCATC
*
34177106 CAGCTCAATT
1 CAGCTCATTT
34177116 CAGCTCATTT
1 CAGCTCATTT
*
34177126 GAGCTCATTT
1 CAGCTCATTT
*
34177136 CAGCTCGTTT
1 CAGCTCATTT
*
34177146 GAGCTCA
1 CAGCTCA
34177153 ACCGAGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:34177130 original size:20 final size:20
Alignment explanation
Indices: 34177107--34177153 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
34177097 AGCTCCATCC
34177107 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
34177127 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
34177147 AGCTCAA
1 AGCTCAA
34177154 CCGAGCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:34179728 original size:9 final size:9
Alignment explanation
Indices: 34179714--34179738 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34179704 AAAGAATTTG
34179714 AAAGAAACA
1 AAAGAAACA
34179723 AAAGAAACA
1 AAAGAAACA
34179732 AAAGAAA
1 AAAGAAA
34179739 AAGAGTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAGAAACA
Found at i:34179750 original size:34 final size:35
Alignment explanation
Indices: 34179712--34179777 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
34179702 AGAAAGAATT
34179712 TGAAAGAAA-C-AAAAGAAACAAAAGAAAAAGAGTG
1 TGAAAGAAAGCAAAAAGAAA-AAAAGAAAAAGAGTG
* *
34179746 TGAAAGAAAGCAAAAAGAGAATAAGAAAAAGA
1 TGAAAGAAAGCAAAAAGAAAAAAAGAAAAAGA
34179778 AAAATGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 9 0.32
35 12 0.43
36 7 0.25
ACGTcount: A:0.68, C:0.05, G:0.21, T:0.06
Consensus pattern (35 bp):
TGAAAGAAAGCAAAAAGAAAAAAAGAAAAAGAGTG
Found at i:34179793 original size:12 final size:12
Alignment explanation
Indices: 34179776--34179810 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
34179766 ATAAGAAAAA
*
34179776 GAAAAATGAAATT
1 GAAAAA-GAAAGT
34179789 GAAAAAGAAAGT
1 GAAAAAGAAAGT
34179801 GAAAAAGAAA
1 GAAAAAGAAA
34179811 AGAGAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:34181835 original size:896 final size:896
Alignment explanation
Indices: 34180104--34181899 Score: 3583
Period size: 896 Copynumber: 2.0 Consensus size: 896
34180094 CTCCCAAAGG
34180104 AGAGACAGTTCGCATTGATTGGTAAAGGTAATCCTAGTCCACCCATGCCACAAGGTAAGGAAGGT
1 AGAGACAGTTCGCATTGATTGGTAAAGGTAATCCTAGTCCACCCATGCCACAAGGTAAGGAAGGT
34180169 AAGTGTTATAAAGCGTTTCAGTCTGTACCAACCTATTTGAATGTTTGTGATTATATTAATGATAT
66 AAGTGTTATAAAGCGTTTCAGTCTGTACCAACCTATTTGAATGTTTGTGATTATATTAATGATAT
*
34180234 GGCCAACTGCCATTCTTTGATTAACGGAGATGTGTTTATTTTAAATGATGGCAAGGAGAGCATTA
131 GGCCAACTGCCATTCTTTGATTAACGGAGATGTGTTTATTTTAAAAGATGGCAAGGAGAGCATTA
34180299 GTCATGAAAATTGTGGTGTTGACGAGCATGTTGGTGAAGTAAGTATAAATCAGCACAAACAATTT
196 GTCATGAAAATTGTGGTGTTGACGAGCATGTTGGTGAAGTAAGTATAAATCAGCACAAACAATTT
34180364 TTGAATTTGTGTGTTAAAAAGTTTCCATGTAAAACTCCTTAGTCCAATTGTTTGTGATGGTGATG
261 TTGAATTTGTGTGTTAAAAAGTTTCCATGTAAAACTCCTTAGTCCAATTGTTTGTGATGGTGATG
34180429 TAATGTTGCTACCTCATTGTGTAAATTTTGCATGCTGGTGTAGGTTTGATCGAGTGATACTTGAG
326 TAATGTTGCTACCTCATTGTGTAAATTTTGCATGCTGGTGTAGGTTTGATCGAGTGATACTTGAG
34180494 TTTAATGATTATTGGAATGATTGCTTTATCCCATCTTATTTGATTAACATGAGTGGGACACTGGA
391 TTTAATGATTATTGGAATGATTGCTTTATCCCATCTTATTTGATTAACATGAGTGGGACACTGGA
34180559 AATCAAGAAATTCTTGTTGCATGTTGAATCGGGTGACCAAGCTCGTGTTTTCAAACCTGGAATTT
456 AATCAAGAAATTCTTGTTGCATGTTGAATCGGGTGACCAAGCTCGTGTTTTCAAACCTGGAATTT
34180624 GTTTTTTTGGTTCGATATGTAGGGAACTCAAGCATCCTAAATTTTGTGCGAATAATTTATGTTTA
521 GTTTTTTTGGTTCGATATGTAGGGAACTCAAGCATCCTAAATTTTGTGCGAATAATTTATGTTTA
34180689 CTTAATGCTTGGACTATGACTAAGGAAACGAAATTTAAAGATTTTGATTATAACTTAAAATCGTT
586 CTTAATGCTTGGACTATGACTAAGGAAACGAAATTTAAAGATTTTGATTATAACTTAAAATCGTT
34180754 CCTTGTTCATTTTACGTGGCTGTACATGAAATTCTTGTTTCATTTCGAAAAGGTAAGATCAACTC
651 CCTTGTTCATTTTACGTGGCTGTACATGAAATTCTTGTTTCATTTCGAAAAGGTAAGATCAACTC
34180819 ATGCTTTTGATCCTGGTATAGATTCATACGCTCAATTGGTGAATATCATTTCAGCATGTCCCTTC
716 ATGCTTTTGATCCTGGTATAGATTCATACGCTCAATTGGTGAATATCATTTCAGCATGTCCCTTC
34180884 AAGTTCACCAACCATGGAGACACTATCATCTATCATTTTTTTGAAGGAGACACTTTGAAAAGTGA
781 AAGTTCACCAACCATGGAGACACTATCATCTATCATTTTTTTGAAGGAGACACTTTGAAAAGTGA
34180949 GAATTGTTTTTGTGTTTACTCTTCATTTCAGGTTTTTCAAGGATCATGTGA
846 GAATTGTTTTTGTGTTTACTCTTCATTTCAGGTTTTTCAAGGATCATGTGA
34181000 AGAGACAGTTCGCATTGATTGGTAAAGGTAATCCTAGTCCACCCATGCCACAAGGTAAGGAAGGT
1 AGAGACAGTTCGCATTGATTGGTAAAGGTAATCCTAGTCCACCCATGCCACAAGGTAAGGAAGGT
34181065 AAGTGTTATAAAGCGTTTCAGTCTGTACCAACCTATTTGAATGTTTGTGATTATATTAATGATAT
66 AAGTGTTATAAAGCGTTTCAGTCTGTACCAACCTATTTGAATGTTTGTGATTATATTAATGATAT
34181130 GGCCAACTGCCATTCTTTGATTAACGGAGATGTGTTTATTTTAAAAGATGGCAAGGAGAGCATTA
131 GGCCAACTGCCATTCTTTGATTAACGGAGATGTGTTTATTTTAAAAGATGGCAAGGAGAGCATTA
34181195 GTCATGAAAATTGTGGTGTTGACGAGCATGTTGGTGAAGTAAGTATAAATCAGCACAAACAATTT
196 GTCATGAAAATTGTGGTGTTGACGAGCATGTTGGTGAAGTAAGTATAAATCAGCACAAACAATTT
34181260 TTGAATTTGTGTGTTAAAAAGTTTCCATGTAAAACTCCTTAGTCCAATTGTTTGTGATGGTGATG
261 TTGAATTTGTGTGTTAAAAAGTTTCCATGTAAAACTCCTTAGTCCAATTGTTTGTGATGGTGATG
34181325 TAATGTTGCTACCTCATTGTGTAAATTTTGCATGCTGGTGTAGGTTTGATCGAGTGATACTTGAG
326 TAATGTTGCTACCTCATTGTGTAAATTTTGCATGCTGGTGTAGGTTTGATCGAGTGATACTTGAG
34181390 TTTAATGATTATTGGAATGATTGCTTTATCCCATCTTATTTGATTAACATGAGTGGGACACTGGA
391 TTTAATGATTATTGGAATGATTGCTTTATCCCATCTTATTTGATTAACATGAGTGGGACACTGGA
34181455 AATCAAGAAATTCTTGTTGCATGTTGAATCGGGTGACCAAGCTCGTGTTTTCAAACCTGGAATTT
456 AATCAAGAAATTCTTGTTGCATGTTGAATCGGGTGACCAAGCTCGTGTTTTCAAACCTGGAATTT
34181520 GTTTTTTTGGTTCGATATGTAGGGAACTCAAGCATCCTAAATTTTGTGCGAATAATTTATGTTTA
521 GTTTTTTTGGTTCGATATGTAGGGAACTCAAGCATCCTAAATTTTGTGCGAATAATTTATGTTTA
34181585 CTTAATGCTTGGACTATGACTAAGGAAACGAAATTTAAAGATTTTGATTATAACTTAAAATCGTT
586 CTTAATGCTTGGACTATGACTAAGGAAACGAAATTTAAAGATTTTGATTATAACTTAAAATCGTT
34181650 CCTTGTTCATTTTACGTGGCTGTACATGAAATTCTTGTTTCATTTCGAAAAGGTAAGATCAACTC
651 CCTTGTTCATTTTACGTGGCTGTACATGAAATTCTTGTTTCATTTCGAAAAGGTAAGATCAACTC
34181715 ATGCTTTTGATCCTGGTATAGATTCATACGCTCAATTGGTGAATATCATTTCAGCATGTCCCTTC
716 ATGCTTTTGATCCTGGTATAGATTCATACGCTCAATTGGTGAATATCATTTCAGCATGTCCCTTC
34181780 AAGTTCACCAACCATGGAGACACTATCATCTATCATTTTTTTGAAGGAGACACTTTGAAAAGTGA
781 AAGTTCACCAACCATGGAGACACTATCATCTATCATTTTTTTGAAGGAGACACTTTGAAAAGTGA
34181845 GAATTGTTTTTGTGTTTACTCTTCATTTCAGGTTTTTCAAGGATCATGTGA
846 GAATTGTTTTTGTGTTTACTCTTCATTTCAGGTTTTTCAAGGATCATGTGA
34181896 AGAG
1 AGAG
34181900 CTTTGGCTTC
Statistics
Matches: 899, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
896 899 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (896 bp):
AGAGACAGTTCGCATTGATTGGTAAAGGTAATCCTAGTCCACCCATGCCACAAGGTAAGGAAGGT
AAGTGTTATAAAGCGTTTCAGTCTGTACCAACCTATTTGAATGTTTGTGATTATATTAATGATAT
GGCCAACTGCCATTCTTTGATTAACGGAGATGTGTTTATTTTAAAAGATGGCAAGGAGAGCATTA
GTCATGAAAATTGTGGTGTTGACGAGCATGTTGGTGAAGTAAGTATAAATCAGCACAAACAATTT
TTGAATTTGTGTGTTAAAAAGTTTCCATGTAAAACTCCTTAGTCCAATTGTTTGTGATGGTGATG
TAATGTTGCTACCTCATTGTGTAAATTTTGCATGCTGGTGTAGGTTTGATCGAGTGATACTTGAG
TTTAATGATTATTGGAATGATTGCTTTATCCCATCTTATTTGATTAACATGAGTGGGACACTGGA
AATCAAGAAATTCTTGTTGCATGTTGAATCGGGTGACCAAGCTCGTGTTTTCAAACCTGGAATTT
GTTTTTTTGGTTCGATATGTAGGGAACTCAAGCATCCTAAATTTTGTGCGAATAATTTATGTTTA
CTTAATGCTTGGACTATGACTAAGGAAACGAAATTTAAAGATTTTGATTATAACTTAAAATCGTT
CCTTGTTCATTTTACGTGGCTGTACATGAAATTCTTGTTTCATTTCGAAAAGGTAAGATCAACTC
ATGCTTTTGATCCTGGTATAGATTCATACGCTCAATTGGTGAATATCATTTCAGCATGTCCCTTC
AAGTTCACCAACCATGGAGACACTATCATCTATCATTTTTTTGAAGGAGACACTTTGAAAAGTGA
GAATTGTTTTTGTGTTTACTCTTCATTTCAGGTTTTTCAAGGATCATGTGA
Found at i:34182824 original size:10 final size:10
Alignment explanation
Indices: 34182811--34182857 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
34182801 GAGCTCCATC
*
34182811 CAGCTCAATT
1 CAGCTCATTT
34182821 CAGCTCATTT
1 CAGCTCATTT
*
34182831 GAGCTCATTT
1 CAGCTCATTT
*
34182841 CAGCTCGTTT
1 CAGCTCATTT
*
34182851 GAGCTCA
1 CAGCTCA
34182858 ACCAAGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:34182835 original size:20 final size:20
Alignment explanation
Indices: 34182812--34182858 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
34182802 AGCTCCATCC
34182812 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
34182832 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
34182852 AGCTCAA
1 AGCTCAA
34182859 CCAAGCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:34184724 original size:25 final size:25
Alignment explanation
Indices: 34184693--34184752 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
34184683 CCATTTAAAT
*
34184693 CAAAACCCAACAGTAGCCTAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
34184718 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
*
34184743 TAAAACCCAA
1 CAAAACCCAA
34184753 AATAAGAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (25 bp):
CAAAACCCAACAGTAGCCCAAACAC
Found at i:34185985 original size:16 final size:15
Alignment explanation
Indices: 34185963--34186003 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
34185953 TATTAATAAT
34185963 GTATTATTATTACTA
1 GTATTATTATTACTA
*
34185978 GTTATTATTATTTCTA
1 G-TATTATTATTACTA
34185994 GTATTATTAT
1 GTATTATTAT
34186004 ATATATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (15 bp):
GTATTATTATTACTA
Found at i:34186051 original size:18 final size:18
Alignment explanation
Indices: 34186003--34186057 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
34185993 AGTATTATTA
34186003 TATATATAATATTAGTGTATG
1 TATATAT-ATA-TA-TGTATG
*
34186024 T-TTTATTATATATGTATG
1 TATATA-TATATATGTATG
34186042 TATATATATATA-GTAT
1 TATATATATATATGTAT
34186058 TATTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
19 5 0.17
20 6 0.20
21 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
TATATATATATATGTATG
Found at i:34186255 original size:22 final size:21
Alignment explanation
Indices: 34186216--34186314 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 21
34186206 TTTTCTTTTA
34186216 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
34186239 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
*
34186261 ATATTTTTATATATTATGTAT
1 ATATTTTTATATATTATGTAC
* *
34186282 ATTTCTTTTACTAT-TTCATGTAT
1 ATAT-TTTTA-TATATT-ATGTAC
34186305 ATATTTTTAT
1 ATATTTTTAT
34186315 TTCATCTCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.20
22 33 0.51
23 19 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:34186367 original size:25 final size:26
Alignment explanation
Indices: 34186317--34186384 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
34186307 ATTTTTATTT
* * *
34186317 CATCTCATGTATAAATTTTTGAATAC
1 CATCTTATATATATATTTTTGAATAC
* *
34186343 TATGTTATATATATATTTTT-AATAC
1 CATCTTATATATATATTTTTGAATAC
*
34186368 CATCTTATGTATATATT
1 CATCTTATATATATATT
34186385 ATTATATCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (26 bp):
CATCTTATATATATATTTTTGAATAC
Found at i:34186655 original size:3 final size:3
Alignment explanation
Indices: 34186581--34186640 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
34186571 TGTATGCATC
* *
34186581 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34186629 TTA TTA TTA TTA
1 TTA TTA TTA TTA
34186641 GTATATGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34186698 original size:25 final size:26
Alignment explanation
Indices: 34186661--34186735 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 26
34186651 ATTATATATG
*
34186661 TATATATACGTATATA-TTTTAATAAC
1 TATAT-TATGTATATACTTTTAATAAC
* * *
34186687 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATACTTTTAATAAC
* * *
34186712 TATTTTATGTATACACTTTCAATA
1 TATATTATGTATATACTTTTAATA
34186736 TTATTGTGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 27 0.71
26 11 0.29
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (26 bp):
TATATTATGTATATACTTTTAATAAC
Found at i:34186832 original size:31 final size:30
Alignment explanation
Indices: 34186767--34186833 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 30
34186757 ACATATGTAC
34186767 ATAT-TTATGTAGTATTATTAATATATTTT
1 ATATGTTATGTAGTATTATTAATATATTTT
*
34186796 TTATGTTAT-TAGTATT-TCTAATATATATTGT
1 ATATGTTATGTAGTATTAT-TAATATAT-TT-T
34186827 ATATGTT
1 ATATGTT
34186834 CATTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 18 0.56
30 6 0.19
31 7 0.22
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (30 bp):
ATATGTTATGTAGTATTATTAATATATTTT
Found at i:34190698 original size:4 final size:4
Alignment explanation
Indices: 34190679--34190718 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
34190669 GTATGACTAA
* *
34190679 CATT CATT TATG CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
34190719 GCATATCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.03, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:34193537 original size:40 final size:40
Alignment explanation
Indices: 34193492--34193659 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
34193482 CGGAATATAA
34193492 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34193532 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34193572 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
34193612 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
34193652 CCGGATAT
1 CCGGATAT
34193660 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34193642 original size:80 final size:80
Alignment explanation
Indices: 34193508--34193657 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
34193498 ATAATCACGT
*
34193508 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
34193572 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
34193588 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
34193651 CCCGGAT
64 CCCGGAT
34193658 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:34199037 original size:163 final size:160
Alignment explanation
Indices: 34198488--34199037 Score: 555
Period size: 163 Copynumber: 3.4 Consensus size: 160
34198478 TTTTTTGTTC
* * *
34198488 CAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGG--ACACGCTGAGGTTTTTTCAAT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
* * * **
34198551 TTCTGTTTTCGAAAAATATCAACTCATATTGCGGGAGATGAGTTGAGCCTCGGGCCACATGCCAA
66 TTTTGTTTTC--AAAA-ATCAACTCATATTGCGAGAG-TGAGTTGAGCCTCAGG--ACATGCTGA
* * *
34198616 GGTATTTTCAAAATTTC-ATTTTTCAATTTCTGTTTCTT
125 GGTATTTTC--AATTTCTGTTTTTCAATTTATATTT-TT
* * ** * *
34198654 CCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCTTAAGCGGAGGTATTTTC-A
1 -CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAA
*** *
34198718 -TTTT-TTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CATG-TCGAGG
65 TTTTTGTTTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTC-AGGACATGCT-GAGG
** * * * *
34198779 TATTTTCAAAATCTGCTTTTCAAATTA-A-ATTC
127 TATTTTCAATTTCTGTTTTTCAATTTATATTTTT
* * * * * *
34198811 CAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTTAGCTATTTTCAAT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
* *
34198876 TTTTGTTTGTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCATCAGGACACGCTGAGGTA
66 TTTTGTTT-TCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACATGCTGAGGTA
34198941 TTTTCAATTTCTGTTTTTTCAATTTATATTTTT
129 TTTTCAATTTCTG-TTTTTCAATTTATATTTTT
34198974 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAA
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCT-GAGGTATTTTCAA
34199038 AATCTGCTTT
Statistics
Matches: 310, Mismatches: 57, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
156 50 0.16
157 2 0.01
158 5 0.02
159 9 0.03
160 64 0.21
161 25 0.08
162 2 0.01
163 88 0.28
164 7 0.02
166 2 0.01
167 42 0.14
168 1 0.00
169 13 0.04
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
TTTTGTTTTCAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAGGACATGCTGAGGTATT
TTCAATTTCTGTTTTTCAATTTATATTTTT
Found at i:34199692 original size:25 final size:25
Alignment explanation
Indices: 34199664--34199723 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
34199654 CCATTTACAT
*
34199664 CAAAACCCAGCAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
34199689 CAAAACCCAACAGTAGCCCAAACAC
1 CAAAACCCAACAGTAGCCCAAACAC
*
34199714 TAAAACCCAA
1 CAAAACCCAA
34199724 AATAAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.38, G:0.08, T:0.05
Consensus pattern (25 bp):
CAAAACCCAACAGTAGCCCAAACAC
Found at i:34200108 original size:5 final size:5
Alignment explanation
Indices: 34200093--34200130 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
34200083 AAATTTCGAA
*
34200093 TCTTT TGTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCT
34200131 ACATACATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:34200319 original size:29 final size:26
Alignment explanation
Indices: 34200279--34200342 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 26
34200269 CTGTAGAGAA
34200279 AAAAAAAGAAGG-GAATGGAAGTTTTTT
1 AAAAAAAGAAGGAGAAT-GAA-TTTTTT
34200306 AAAAAAAGCAAAGGAAAGAATGAATTTTTT
1 AAAAAAAG--AAGG--AGAATGAATTTTTT
34200336 AAAAAAA
1 AAAAAAA
34200343 ATCTGACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 8 0.25
29 4 0.12
30 13 0.41
31 3 0.09
32 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.19, T:0.22
Consensus pattern (26 bp):
AAAAAAAGAAGGAGAATGAATTTTTT
Found at i:34201034 original size:18 final size:20
Alignment explanation
Indices: 34200986--34201034 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
34200976 AGTATTATTA
34200986 TATATATAATATTAGTGTATG
1 TATATAT-ATATTAGTGTATG
*
34201007 T-TTTAT-TATATA-TGTATG
1 TATATATATAT-TAGTGTATG
34201025 TATATATATA
1 TATATATATA
34201035 GTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 6 0.26
21 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATATATATTAGTGTATG
Found at i:34201244 original size:22 final size:21
Alignment explanation
Indices: 34201205--34201303 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 21
34201195 TTTTCTTTTA
34201205 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
34201228 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
*
34201250 ATATTTTTATATATTATGTAT
1 ATATTTTTATATATTATGTAC
* *
34201271 ATTTCTTTTACTAT-TTCATGTAT
1 ATAT-TTTTA-TATATT-ATGTAC
34201294 ATATTTTTAT
1 ATATTTTTAT
34201304 TTCATTTCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.20
22 33 0.51
23 19 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:34201314 original size:24 final size:24
Alignment explanation
Indices: 34201247--34201325 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
34201237 TATCATTAGT
*
34201247 TATATATTTTTATAT-A-TT-ATG
1 TATATATTTTTATTTCATTTCATG
* *
34201268 TATAT-TTCTT-TTACTATTTCATG
1 TATATATTTTTATTTC-ATTTCATG
34201291 TATATATTTTTATTTCATTTCATG
1 TATATATTTTTATTTCATTTCATG
*
34201315 TATAAATTTTT
1 TATATATTTTT
34201326 GAATACTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 6 0.13
22 2 0.04
23 8 0.17
24 22 0.48
25 3 0.07
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (24 bp):
TATATATTTTTATTTCATTTCATG
Found at i:34201667 original size:3 final size:3
Alignment explanation
Indices: 34201569--34201652 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
34201559 CGTATGTATC
34201569 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34201617 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34201653 GTATATGTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34201710 original size:25 final size:26
Alignment explanation
Indices: 34201673--34201747 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 26
34201663 ATTATATATG
*
34201673 TATATATACGTATATA-TTTTAATAAC
1 TATAT-TATGTATATACTTTTAATAAC
* * *
34201699 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATACTTTTAATAAC
* * *
34201724 TATTTTATGTATACACTTTCAATA
1 TATATTATGTATATACTTTTAATA
34201748 TTATTGTGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 27 0.71
26 11 0.29
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (26 bp):
TATATTATGTATATACTTTTAATAAC
Found at i:34201871 original size:13 final size:13
Alignment explanation
Indices: 34201853--34201913 Score: 95
Period size: 13 Copynumber: 4.5 Consensus size: 13
34201843 TGTTCATTTT
34201853 TATATATTATGTA
1 TATATATTATGTA
*
34201866 TATATATTATGTTTT
1 TATATATTATG--TA
34201881 TATATATTATGTA
1 TATATATTATGTA
34201894 TATATATTATGTA
1 TATATATTATGTA
34201907 TATATAT
1 TATATAT
34201914 ATTTAACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
13 32 0.73
15 12 0.27
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:34201886 original size:28 final size:28
Alignment explanation
Indices: 34201849--34201916 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
34201839 TATATGTTCA
34201849 TTTTTATATATTATGTATATATATTATG
1 TTTTTATATATTATGTATATATATTATG
34201877 TTTTTATATATTATGTATATATATTATG
1 TTTTTATATATTATGTATATATATTATG
* *
34201905 TATATATATATT
1 TTTTTATATATT
34201917 TAACATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTTTATATATTATGTATATATATTATG
Found at i:34213708 original size:46 final size:43
Alignment explanation
Indices: 34213494--34213708 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 43
34213484 TCAATAAGCC
*
34213494 TGTCCCAGACATGATCTTACACTGGCTCATGTCTCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTCA--TCTCAAG-CGATG-CA
** * *
34213541 TGTCCCAGACATGGTCTTACACTAACACATCTCGTAACCGATGCA
1 TGTCCCAGACATGGTCTTACACTGGCTCATCTC--AAGCGATGCA
*
34213586 TGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCTGATGCA
1 TGTCCCAGACATGGTCTTACACTGGC-T-CATCTC-AAGC-GATGCA
* *
34213632 TGTCCCAAACAT-GTCTTACACTAGCTCTCATCTCAATGCAGATGCCA
1 TGTCCCAGACATGGTCTTACACT-G-GCTCATCTCAA-GC-GATG-CA
34213679 TGTCCCAGACATGGTCTTACACTGGCTCAT
1 TGTCCCAGACATGGTCTTACACTGGCTCAT
34213709 AATAACCCAT
Statistics
Matches: 141, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.08
45 21 0.15
46 55 0.39
47 43 0.30
48 11 0.08
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACTGGCTCATCTCAAGCGATGCA
Found at i:34223426 original size:21 final size:24
Alignment explanation
Indices: 34223385--34223427 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
34223375 AAACATGAGC
34223385 TTAAACATATTTTTAATATTTACA
1 TTAAACATATTTTTAATATTTACA
34223409 TTAAA-ATA-TTTT-ATATTTA
1 TTAAACATATTTTTAATATTTA
34223428 ATTCTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 3 0.16
24 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAACATATTTTTAATATTTACA
Found at i:34224006 original size:24 final size:23
Alignment explanation
Indices: 34223978--34224023 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
34223968 CGCTTCGATT
*
34223978 TTTATTTTTAATTCATATATTTTC
1 TTTATTTTTAATCCATAT-TTTTC
34224002 TTTATTTTTAATCCATATTTTT
1 TTTATTTTTAATCCATATTTTT
34224024 AATAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTTTTAATCCATATTTTTC
Found at i:34224372 original size:13 final size:12
Alignment explanation
Indices: 34224342--34224383 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
34224332 ATCAACTAAT
*
34224342 TATTTTTATATA
1 TATTTTTATAAA
34224354 TATTTTTATAAA
1 TATTTTTATAAA
34224366 TAGTTTTTATAAA
1 TA-TTTTTATAAA
34224379 TATTT
1 TATTT
34224384 ATTTTTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TATTTTTATAAA
Found at i:34226154 original size:31 final size:31
Alignment explanation
Indices: 34226119--34226182 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
34226109 CCATCAATAG
34226119 AAGAAAACTATTTTAGTCTACTAAAAACTAA
1 AAGAAAACTATTTTAGTCTACTAAAAACTAA
34226150 AAGAAAACTATTTTAGTCTACTAAAAACTAA
1 AAGAAAACTATTTTAGTCTACTAAAAACTAA
34226181 AA
1 AA
34226183 TGTAAGAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (31 bp):
AAGAAAACTATTTTAGTCTACTAAAAACTAA
Found at i:34230107 original size:29 final size:29
Alignment explanation
Indices: 34230074--34230204 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
34230064 GTGACGAGAT
34230074 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34230103 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
34230132 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
34230161 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
34230190 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34230205 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34238156 original size:29 final size:29
Alignment explanation
Indices: 34238123--34238253 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
34238113 GTGACGAGAT
34238123 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34238152 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
34238181 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
34238210 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
34238239 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34238254 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34244237 original size:40 final size:40
Alignment explanation
Indices: 34244188--34244298 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
34244178 ATAACCATGT
*
34244188 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-C-CTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA-GCCACTA
*
34244228 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAGCCACTA
*
34244268 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
34244299 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 57 0.90
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCCACTA
Found at i:34247700 original size:12 final size:12
Alignment explanation
Indices: 34247683--34247707 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34247673 ACAACACATA
34247683 TTCAGAAAAATC
1 TTCAGAAAAATC
34247695 TTCAGAAAAATC
1 TTCAGAAAAATC
34247707 T
1 T
34247708 GATATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTCAGAAAAATC
Found at i:34250849 original size:18 final size:19
Alignment explanation
Indices: 34250817--34250865 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
34250807 ACAGTACCTA
*
34250817 AACAGTAATCAATAACGGT
1 AACAGTAATCAATAACAGT
*
34250836 AGCAGTAA-CAATAACAGT
1 AACAGTAATCAATAACAGT
*
34250854 AACAGTATTCAA
1 AACAGTAATCAA
34250866 CACACAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (19 bp):
AACAGTAATCAATAACAGT
Found at i:34250901 original size:45 final size:45
Alignment explanation
Indices: 34250840--34250950 Score: 159
Period size: 45 Copynumber: 2.5 Consensus size: 45
34250830 AACGGTAGCA
* * * *
34250840 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTAAATCG
**
34250885 GTAACAGTAATGGTAACAGTATTCAACACACAAAGTATTAAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTAAATCG
*
34250930 GTAATAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
34250951 ACAGTAACAG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATTAAATCG
Found at i:34250902 original size:51 final size:50
Alignment explanation
Indices: 34250832--34250956 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 50
34250822 TAATCAATAA
* * * *
34250832 CGGTAGCAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGTTGAAT
1 CGGTAACAGTAAC-GTAACAGTAACAGTATTCAACACACAAAGTATTAAAT
* *
34250883 CTGTAACAGTAA--T---GGTAACAGTATTCAACACACAAAGTATTAAAT
1 CGGTAACAGTAACGTAACAGTAACAGTATTCAACACACAAAGTATTAAAT
*
34250928 CGGTAATAGTAACAGTAACAGTAACAGTA
1 CGGTAACAGTAAC-GTAACAGTAACAGTA
34250957 ACAGTAGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
45 39 0.65
48 2 0.03
51 19 0.32
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTAACAGTAACGTAACAGTAACAGTATTCAACACACAAAGTATTAAAT
Found at i:34250944 original size:6 final size:6
Alignment explanation
Indices: 34250930--34250962 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
34250920 TATTAAATCG
*
34250930 GTAATA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
34250963 GTTGGCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:34251207 original size:40 final size:40
Alignment explanation
Indices: 34251162--34251248 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
34251152 AATTTATTAC
* * * *
34251162 TTCAGTAATTTCACAGTTTAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
* * *
34251202 TTCAGTAACTTCACAATTCGATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
34251242 TTCAGTA
1 TTCAGTA
34251249 TTCCATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:34252003 original size:17 final size:18
Alignment explanation
Indices: 34251981--34252016 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
34251971 TTTAGCTTTG
34251981 TTTTCTTTT-GTTTTATT
1 TTTTCTTTTCGTTTTATT
*
34251998 TTTTCTTTTCTTTTTATT
1 TTTTCTTTTCGTTTTATT
34252016 T
1 T
34252017 CATTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.06, C:0.08, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTCGTTTTATT
Found at i:34252335 original size:25 final size:23
Alignment explanation
Indices: 34252291--34252349 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 23
34252281 ATTTTGATTT
*
34252291 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
34252315 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
34252339 ATATAAATTAT
1 AT-TTAATTAT
34252350 GTTTAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:34252355 original size:35 final size:35
Alignment explanation
Indices: 34252299--34252378 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
34252289 TTATTTAATA
* *
34252299 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* *
34252333 CATATAATATAAATTAT-GTTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
34252368 ATATAAT-TAAA
1 ATATAATATAAA
34252379 ACAAATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:34253863 original size:21 final size:21
Alignment explanation
Indices: 34253837--34253914 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
34253827 TGTTGTCCAA
*
34253837 AGGACACACTCGTGAGACCAT
1 AGGACACGCTCGTGAGACCAT
* *
34253858 AGGACACGCTCGTGTGTTCCA-
1 AGGACACGCTCGTGAG-ACCAT
* *
34253879 ATGGACACGTTCGTGCGACCAT
1 A-GGACACGCTCGTGAGACCAT
34253901 AGGACACGCTCGTG
1 AGGACACGCTCGTG
34253915 TTGCAGGCCC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 30 0.64
22 17 0.36
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.19
Consensus pattern (21 bp):
AGGACACGCTCGTGAGACCAT
Found at i:34253879 original size:43 final size:43
Alignment explanation
Indices: 34253818--34253917 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
34253808 TGAAGGGCTC
*
34253818 ACACGCCCGTGTTGTCCAAAGGACACACTCGTGAGACCATAGG
1 ACACGCTCGTGTTGTCCAAAGGACACACTCGTGAGACCATAGG
* ** *
34253861 ACACGCTCGTG-TGTTCCAATGGACACGTTCGTGCGACCATAGG
1 ACACGCTCGTGTTG-TCCAAAGGACACACTCGTGAGACCATAGG
34253904 ACACGCTCGTGTTG
1 ACACGCTCGTGTTG
34253918 CAGGCCCTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.04
43 46 0.92
44 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (43 bp):
ACACGCTCGTGTTGTCCAAAGGACACACTCGTGAGACCATAGG
Found at i:34255775 original size:40 final size:40
Alignment explanation
Indices: 34255729--34255808 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
34255719 CTTTTCCAAG
34255729 CCTAACCAAAATCCCATGACAAAATTTACAGCACATGTAT
1 CCTAACCAAAATCCCATGACAAAATTTACAGCACATGTAT
34255769 CCTAACCAAAATCCCATGACAAAATTTACAGCACATGTAT
1 CCTAACCAAAATCCCATGACAAAATTTACAGCACATGTAT
34255809 TCATAAAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (40 bp):
CCTAACCAAAATCCCATGACAAAATTTACAGCACATGTAT
Found at i:34259647 original size:8 final size:9
Alignment explanation
Indices: 34259625--34259657 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
34259615 TTTATCATTG
34259625 AAATGTTAT
1 AAATGTTAT
34259634 AAATGTTA-
1 AAATGTTAT
34259642 AAATGTTAT
1 AAATGTTAT
34259651 AAATGTT
1 AAATGTT
34259658 GAATAGTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (9 bp):
AAATGTTAT
Found at i:34259647 original size:17 final size:17
Alignment explanation
Indices: 34259625--34259657 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34259615 TTTATCATTG
34259625 AAATGTTATAAATGTTA
1 AAATGTTATAAATGTTA
34259642 AAATGTTATAAATGTT
1 AAATGTTATAAATGTT
34259658 GAATAGTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
AAATGTTATAAATGTTA
Found at i:34259682 original size:128 final size:128
Alignment explanation
Indices: 34259528--34259768 Score: 455
Period size: 128 Copynumber: 1.9 Consensus size: 128
34259518 TCGAAAGTTA
34259528 TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
1 TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
* *
34259593 TAAATTTAATTATATGTGTATATTTATCATTGAAATGTTATAAATGTTAAAATGTTATAAATG
66 TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTTAAAATGTTATAAATG
*
34259656 TTGAATAGTCGATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
1 TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
34259721 TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTT
66 TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTT
34259769 GAACAAATAA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 110 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (128 bp):
TTGAATAGTCAATCCGGCCCCTCTATTCCGACTACAAGGTAAGTTCATATACAAATGAATGCCTT
TAAATTGAATTATATGTGTATATTTATCATTAAAATGTTATAAATGTTAAAATGTTATAAATG
Found at i:34269967 original size:3 final size:3
Alignment explanation
Indices: 34269959--34269993 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
34269949 AATTTGGATG
34269959 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34269994 TCGTATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34272479 original size:20 final size:20
Alignment explanation
Indices: 34272436--34272481 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34272426 ACTATTTTGT
*
34272436 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTACTGA
* *
34272455 AATGGGCCCAACTGTGCTGA
1 TATGGGCCCAACTGTACTGA
34272475 TATGGGC
1 TATGGGC
34272482 TAAGCCCAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTACTGA
Found at i:34275669 original size:19 final size:19
Alignment explanation
Indices: 34275647--34275685 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
34275637 CTTTATATTT
*
34275647 TTTTTAGATTTTTTTGAAA
1 TTTTTAGATTTTTTTAAAA
*
34275666 TTTTTATATTTTTTTAAAA
1 TTTTTAGATTTTTTTAAAA
34275685 T
1 T
34275686 ATAAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTAGATTTTTTTAAAA
Found at i:34275760 original size:20 final size:20
Alignment explanation
Indices: 34275676--34275760 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
34275666 TTTTTATATT
34275676 TTTTTAAAATATAAATTTTGGAA
1 TTTTTAAAA-AT-AATTTT-GAA
*
34275699 -TTTTATAAATAATTTT-AA
1 TTTTTAAAAATAATTTTGAA
* *
34275717 -TTTTGAAAATTATTTTGAA
1 TTTTTAAAAATAATTTTGAA
*
34275736 TTTTTAAAAATTATTTTGAA
1 TTTTTAAAAATAATTTTGAA
34275756 TTTTT
1 TTTTT
34275761 TTTTGTAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
18 15 0.27
19 2 0.04
20 29 0.53
21 2 0.04
22 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATAATTTTGAA
Found at i:34276501 original size:19 final size:20
Alignment explanation
Indices: 34276470--34276515 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
34276460 GTTTACGCTG
*
34276470 AAAAATATTTTTA-AT-TTC
1 AAAAATATATTTATATCTTC
34276488 AAAATATATATTTATATCTTC
1 AAAA-ATATATTTATATCTTC
34276509 AAAAATA
1 AAAAATA
34276516 CTTTTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 8 0.33
20 5 0.21
21 7 0.29
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAATATATTTATATCTTC
Found at i:34277842 original size:2 final size:2
Alignment explanation
Indices: 34277835--34277868 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34277825 TAAACCATAC
34277835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34277869 TTCTTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34280681 original size:23 final size:24
Alignment explanation
Indices: 34280650--34280694 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34280640 TTAATTTGAA
34280650 AAATAATTTATTT-TTTAAATTTT
1 AAATAATTTATTTATTTAAATTTT
* *
34280673 AAATTATTTATTTATTTTAATT
1 AAATAATTTATTTATTTAAATT
34280695 AATTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AAATAATTTATTTATTTAAATTTT
Found at i:34280712 original size:27 final size:24
Alignment explanation
Indices: 34280639--34280722 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 24
34280629 TAAAATTTGA
34280639 TTTAATTTGAAA-AATAATTTATTT
1 TTTAATTT-AAATAATAATTTATTT
* *
34280663 TTTAAATTTTAAATTATTTATTTATTT
1 TTT-AA-TTTAAA-TAATAATTTATTT
*
34280690 TAATTAATTTAAATAAGTAATTTAATAT
1 T--TTAATTTAAATAA-TAATTT-ATTT
34280718 TTTAA
1 TTTAA
34280723 ATTCAAGTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
24 3 0.06
25 5 0.11
26 9 0.19
27 22 0.47
28 6 0.13
29 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTAATTTAAATAATAATTTATTT
Found at i:34285364 original size:61 final size:59
Alignment explanation
Indices: 34285255--34285393 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
34285245 AATAGAGTTA
* *
34285255 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAATATC-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAA-ATCGAGA-TAT
* * * * * *
34285316 ACTGGGCCTAGCCCATGTCAGTATCAATCTGGGTCGTATCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAAATCGAGATAT
* *
34285376 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
34285394 TAACACAGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 48 0.74
61 17 0.26
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAATCGAGATAT
Found at i:34285411 original size:20 final size:19
Alignment explanation
Indices: 34285386--34285441 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
34285376 ATTGGGCCTT
*
34285386 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGTT-G
* *
34285406 GCCCAT-TTCAATATAGTTG
1 GCCCATATT-AAAACAGTTG
*
34285425 GCCCATAATAAAACAGT
1 GCCCATATTAAAACAGT
34285442 CTCATATGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (19 bp):
GCCCATATTAAAACAGTTG
Found at i:34290311 original size:20 final size:21
Alignment explanation
Indices: 34290263--34290312 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
34290253 TCAATAAGCC
*
34290263 TCAAAATTTTAATTAAACTTT
1 TCAAAATTTTAATTAAACTTG
34290284 TCAAAATTTTAATTAAA-TTCG
1 TCAAAATTTTAATTAAACTT-G
34290305 T-AAAATTT
1 TCAAAATTT
34290313 AATGCACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (21 bp):
TCAAAATTTTAATTAAACTTG
Found at i:34291224 original size:4 final size:4
Alignment explanation
Indices: 34291215--34291242 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34291205 CCAATGTTAC
34291215 TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34291243 AAGTTAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:34292364 original size:2 final size:2
Alignment explanation
Indices: 34292357--34292389 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34292347 ATCACAAATG
34292357 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 T
34292390 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34292945 original size:45 final size:44
Alignment explanation
Indices: 34292894--34293002 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 44
34292884 CTTTATTCAA
*
34292894 TATTGAAAATTTAAAT-TTCAAAGTATCAAAATCAATTAAATAATT
1 TATTGAAAATTT-AATCTT-AAAGTATCAAAATCAATTAAATAAGT
* ***
34292939 TATTGAAAAATTTTATCTTTTGGTATCAAAATCAATTAAATAAGT
1 TATTG-AAAATTTAATCTTAAAGTATCAAAATCAATTAAATAAGT
* *
34292984 TATCGAAAAATTTTATCTT
1 TATTG-AAAATTTAATCTT
34293003 TTGGTAATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
45 47 0.84
46 9 0.16
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.41
Consensus pattern (44 bp):
TATTGAAAATTTAATCTTAAAGTATCAAAATCAATTAAATAAGT
Found at i:34293003 original size:45 final size:45
Alignment explanation
Indices: 34292916--34293008 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
34292906 AAATTTCAAA
* *
34292916 GTATCAAAATCAATTAAATAATTTATTGAAAAATTTTATCTTTTG
1 GTATCAAAATCAATTAAATAAGTTATCGAAAAATTTTATCTTTTG
34292961 GTATCAAAATCAATTAAATAAGTTATCGAAAAATTTTATCTTTTG
1 GTATCAAAATCAATTAAATAAGTTATCGAAAAATTTTATCTTTTG
34293006 GTA
1 GTA
34293009 ATGTTAGCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (45 bp):
GTATCAAAATCAATTAAATAAGTTATCGAAAAATTTTATCTTTTG
Found at i:34294015 original size:28 final size:28
Alignment explanation
Indices: 34293981--34294048 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
34293971 ACGACTGAGC
*
34293981 ACACGCCCGTGTCCCTCACACGGCCATG
1 ACACGCCCGTGCCCCTCACACGGCCATG
34294009 ACACGCCCGTGCCCCTCACACGGCCATG
1 ACACGCCCGTGCCCCTCACACGGCCATG
*
34294037 ACACGCCTGTGC
1 ACACGCCCGTGC
34294049 TATAGCCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.13
Consensus pattern (28 bp):
ACACGCCCGTGCCCCTCACACGGCCATG
Found at i:34300407 original size:75 final size:73
Alignment explanation
Indices: 34300319--34300490 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
34300309 GGTTTTCCTC
*** * * **
34300319 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
34300383 TCAGTATGG
65 TCAGTATGG
*
34300392 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
34300457 CTCAGTATGG
64 CTCAGTATGG
34300467 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
34300491 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:34300488 original size:35 final size:35
Alignment explanation
Indices: 34300324--34300490 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
34300314 TCCTCATTGA
*** *
34300324 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
34300359 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
34300399 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
34300434 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
34300469 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
34300491 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:34307823 original size:35 final size:35
Alignment explanation
Indices: 34307756--34307923 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
34307746 TCCTCATTGA
*** *
34307756 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
34307792 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
34307832 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
34307867 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
34307902 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
34307924 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:34307882 original size:75 final size:73
Alignment explanation
Indices: 34307751--34307923 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
34307741 GGTTTTCCTC
*** * * **
34307751 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
34307816 TCAGTATGG
65 TCAGTATGG
*
34307825 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
34307889 ACTCAGTATGG
63 ACTCAGTATGG
34307900 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
34307924 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:34310326 original size:23 final size:23
Alignment explanation
Indices: 34310272--34310367 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
34310262 CCTAGCCTCT
*
34310272 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34310295 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
34310319 TTTAATAACTGGGGCATAAACCC
1 TTTAATAACTGGGGCATAAGCCC
*
34310342 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34310365 TTT
1 TTT
34310368 TTCACTTCCT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
23 46 0.68
24 22 0.32
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:34310443 original size:20 final size:20
Alignment explanation
Indices: 34310418--34310484 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
34310408 TTATGATTAC
34310418 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34310438 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34310458 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34310478 ACCATGT
1 ATCATGT
34310485 TTATCAAAAT
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:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34310449 original size:11 final size:11
Alignment explanation
Indices: 34310418--34310473 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34310408 TTATGATTAC
34310418 ATCATGTGCAT
1 ATCATGTGCAT
*
34310429 ATCA--TACAT
1 ATCATGTGCAT
34310438 ATCATGTGCAT
1 ATCATGTGCAT
*
34310449 ATCA--TACAT
1 ATCATGTGCAT
*
34310458 GTCATGTGCAT
1 ATCATGTGCAT
34310469 ATCAT
1 ATCAT
34310474 ACATACCATG
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:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:34310549 original size:25 final size:25
Alignment explanation
Indices: 34310521--34310568 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34310511 ATACATAAAC
* * *
34310521 CCTAAGGGTATAATGGTCATTTTTA
1 CCTAAGGGCAAAACGGTCATTTTTA
*
34310546 CCTAGGGGCAAAACGGTCATTTT
1 CCTAAGGGCAAAACGGTCATTTT
34310569 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAACGGTCATTTTTA
Found at i:34312588 original size:6 final size:6
Alignment explanation
Indices: 34312577--34312604 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34312567 GTTGTCCCTT
34312577 GAGCAG GAGCAG GAGCAG GAGCAG GAGC
1 GAGCAG GAGCAG GAGCAG GAGCAG GAGC
34312605 TATACTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.50, T:0.00
Consensus pattern (6 bp):
GAGCAG
Found at i:34314239 original size:42 final size:41
Alignment explanation
Indices: 34314192--34314349 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
34314182 AACTCGTACA
* * * **
34314192 ATGCCATATCCTAGATATGGTCTTACATGTTATCAAATATCG
1 ATGCCATGTCCCAGATATGGTCTTACACGAAATCAAATA-CG
* *
34314234 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATACG
1 ATGCCA-TGTCCCAGATATGGTCTTACACGAAATCAAATACG
* * *
34314276 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCTCAGAT-CG
1 ATGCC-ATGTCCCAGATATGGTCTTACACG-AA-ATCAAATACG
*
34314319 ATGCCAATGTCCCAGACATGGTCTTACACGA
1 ATGCC-ATGTCCCAGATATGGTCTTACACGA
34314350 TGTCACATCT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 35 0.35
43 61 0.60
44 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
ATGCCATGTCCCAGATATGGTCTTACACGAAATCAAATACG
Found at i:34314257 original size:43 final size:43
Alignment explanation
Indices: 34314208--34314348 Score: 176
Period size: 43 Copynumber: 3.3 Consensus size: 43
34314198 TATCCTAGAT
* * * *
34314208 ATGGTCTTACATGTTATCAAATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAC
* * *
34314251 AGGGTCTTACACGAAATCATATA-CGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAC
* ** *
34314293 ATGGTCTTACACGTAACCTCAGATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAC
34314336 ATGGTCTTACACG
1 ATGGTCTTACACG
34314349 ATGTCACATC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 34 0.40
43 50 0.60
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGAC
Found at i:34316576 original size:25 final size:25
Alignment explanation
Indices: 34316530--34316577 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34316520 AGCTTATTTT
* * *
34316530 CGAGCCATATATCAGGATGCTTAAA
1 CGAGCCATATAACAAGACGCTTAAA
*
34316555 CGAGCCATGTAACAAGACGCTTA
1 CGAGCCATATAACAAGACGCTTA
34316578 TCTGGGCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (25 bp):
CGAGCCATATAACAAGACGCTTAAA
Found at i:34316733 original size:24 final size:24
Alignment explanation
Indices: 34316697--34316748 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
34316687 GAGTTCAAAC
* *
34316697 GAGCCATGTCAGGAGGCTCAT-AA
1 GAGCCATATCAGGACGCTCATGAA
34316720 GAGCCTATATCAGGACGCTCATGAA
1 GAGCC-ATATCAGGACGCTCATGAA
34316745 GAGC
1 GAGC
34316749 TGCGTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGACGCTCATGAA
Found at i:34332119 original size:49 final size:49
Alignment explanation
Indices: 34332003--34332180 Score: 159
Period size: 49 Copynumber: 3.7 Consensus size: 49
34331993 ATAAAATGCT
* * * ** *
34332003 GATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCATAT-T-GAAGTC
1 GATGCCATGTCCCAAACA-GGTCTTACACTGACTTTCATATATCGAGGTC
* * * *
34332051 GATGCTATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGTC
* *
34332100 GATGCCATGTCCCAAACAGGTCTTACACTG-GTTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTT-TCATATATCGAG-GTC
* *
34332149 AATGCCATGT-CCAAGACAGGTCTTACATTGAC
1 GATGCCATGTCCCAA-ACAGGTCTTACACTGAC
34332181 ACACAACAAG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
47 19 0.17
48 25 0.23
49 65 0.60
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGTC
Found at i:34338901 original size:14 final size:14
Alignment explanation
Indices: 34338882--34338911 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34338872 CCTTTTGCCA
34338882 CCTTGAAGCACAAT
1 CCTTGAAGCACAAT
34338896 CCTTGAAGCACAAT
1 CCTTGAAGCACAAT
34338910 CC
1 CC
34338912 AATACCATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.20
Consensus pattern (14 bp):
CCTTGAAGCACAAT
Found at i:34339761 original size:49 final size:48
Alignment explanation
Indices: 34339708--34339834 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 48
34339698 TATTGAAGTT
* * *
34339708 GATGCCGTGTCCCAAACAAGTCTTACACTGACTTTCATATATCAAGGT-C
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATC--GGTGC
* * *
34339757 GATGCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGGTGGC
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGT-GC
* *
34339806 AATGCCATGTCCCAGACAGGTCTTACACT
1 GATGCCATGTCCCAAACAGGTCTTACACT
34339835 AGCTTGTATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 3 0.04
49 64 0.96
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:34348404 original size:46 final size:46
Alignment explanation
Indices: 34348277--34348404 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 46
34348267 CCACATTATA
* *
34348277 AGAGCCAGTGTAAGACCATGTCTTGGACATGACATCGGCATTGAGAGG
1 AGAG-CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-TGAGAGG
* *
34348325 AGAGCTAGTGTAAGA-CTTGTCTGGGACAT-GCATCGGC-T-ACG-GG
1 AGAGC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATGA-GAGG
*
34348368 ATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
1 A-GAG-CAGTGTAAGACCATGTCTAGGACATGGCATC
34348405 AGTCTCGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
43 4 0.06
44 13 0.19
45 13 0.19
46 12 0.18
47 13 0.19
48 13 0.19
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
AGAGCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGAGAGG
Found at i:34408732 original size:40 final size:38
Alignment explanation
Indices: 34408656--34408751 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 38
34408646 TCATCTCCAT
* * * *
34408656 CCAACCCAACACACCATGTAGGGATAAGATCGACCCAC
1 CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAC
* *
34408694 CCAGCCCTACACACCAAGTATTGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTA--GGGATAAAATCAACCCAC
34408734 CCAACCCTACACACCAAG
1 CCAACCCTACACACCAAG
34408752 AGGTATCGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
38 17 0.35
40 32 0.65
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (38 bp):
CCAACCCTACACACCAAGTAGGGATAAAATCAACCCAC
Found at i:34424047 original size:16 final size:16
Alignment explanation
Indices: 34424026--34424057 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34424016 TTGTAATGCC
34424026 CCAAAAATCTCAAAAT
1 CCAAAAATCTCAAAAT
*
34424042 CCAAAAATCTCGAAAT
1 CCAAAAATCTCAAAAT
34424058 TATGAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.19
Consensus pattern (16 bp):
CCAAAAATCTCAAAAT
Found at i:34425590 original size:29 final size:28
Alignment explanation
Indices: 34425558--34425663 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 28
34425548 ATAATATGAT
34425558 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* *
34425587 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * * * *
34425616 CTGGGCCAAATGGACCGTTTGAATA-ATA
1 TTGGGCCTAATGGGCCATATGAATAGA-A
* *
34425644 TTGGTCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
34425664 ACATGTATGT
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.25
29 43 0.73
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:34425613 original size:58 final size:57
Alignment explanation
Indices: 34425550--34425662 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
34425540 GCATGAATAT
** * *
34425550 AATATGATTTGGGCCTAATGGGCCATATGAATGAGA-ATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCAAATGGACCATATGAAT-A-ATATTGGGCCTAGTGGGCCATAAG
* * *
34425608 AATATGAACTGGGCCAAATGGACCGTTTGAATAATATTGGTCCTAGTGGGCCATA
1 AATATGAACTGGGCCAAATGGACCATATGAATAATATTGGGCCTAGTGGGCCATA
34425663 TACATGTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
56 1 0.02
57 20 0.43
58 26 0.55
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (57 bp):
AATATGAACTGGGCCAAATGGACCATATGAATAATATTGGGCCTAGTGGGCCATAAG
Found at i:34428946 original size:34 final size:29
Alignment explanation
Indices: 34428913--34428972 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
34428903 TATTTTTATA
*
34428913 TTATA-TATAATTATTTTATTATATATTAC
1 TTATATTATTATTA-TTTATTATATATTAC
34428942 TTATATTATTATTATTTATTATATATTAC
1 TTATATTATTATTATTTATTATATATTAC
34428971 TT
1 TT
34428973 TTCACAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATATTATTATTATTTATTATATATTAC
Found at i:34428954 original size:61 final size:56
Alignment explanation
Indices: 34428847--34428959 Score: 129
Period size: 56 Copynumber: 1.9 Consensus size: 56
34428837 TATTTATTGC
* *
34428847 TATTATTATATATATATATATAATTTATTATTATTATTTGTTTTATTTTTTAACCT
1 TATTATTATATATATATATATAATTTATTATTATTATTTATTTTATTATTTAACCT
* *
34428903 TATTTTTATAT-TATATATAATTATTTTATTATATATTACTTATATTATTATTATTTA
1 TATTATTATATATATATAT-A-TAATTTATTAT-TATTA-TT-TATT-TTATTATTTA
34428960 TTATATATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
55 7 0.15
56 11 0.23
57 10 0.21
58 5 0.11
59 2 0.04
60 3 0.06
61 9 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (56 bp):
TATTATTATATATATATATATAATTTATTATTATTATTTATTTTATTATTTAACCT
Found at i:34429118 original size:16 final size:16
Alignment explanation
Indices: 34429097--34429162 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
34429087 TTTCATATCA
34429097 TATATTATAATTATTT
1 TATATTATAATTATTT
*
34429113 TATATTAT-GTTATTTT
1 TATATTATAATTA-TTT
* *
34429129 TATACTATTATATATTT
1 TATATTATAAT-TATTT
*
34429146 TTTATCTATATATTATT
1 TATAT-TATA-ATTATT
34429163 ATCATTAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 18 0.46
17 7 0.18
18 9 0.23
19 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (16 bp):
TATATTATAATTATTT
Found at i:34429328 original size:21 final size:23
Alignment explanation
Indices: 34429303--34429382 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 23
34429293 ATCATTAATT
*
34429303 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
34429324 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
*
34429348 A-TTATTTTAT-TATA-AATATAA
1 ACTTATTTTATATATATTATAT-A
*
34429369 AC-TATTTTACATAT
1 ACTTATTTTATATAT
34429383 TTGGTATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.08
21 19 0.38
22 15 0.30
23 10 0.20
24 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:34429352 original size:23 final size:22
Alignment explanation
Indices: 34429303--34429382 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
34429293 ATCATTAATT
*
34429303 ACTTATTTTATAT-TATTCTAA
1 ACTTATTTTATATATATTATAA
34429324 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATA-A
*
34429348 A-TTATTTTAT-TATAAATATAA
1 ACTTATTTTATATAT-ATTATAA
*
34429369 AC-TATTTTACATAT
1 ACTTATTTTATATAT
34429383 TTGGTATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
21 18 0.36
22 20 0.40
23 10 0.20
24 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
ACTTATTTTATATATATTATAA
Found at i:34438300 original size:21 final size:21
Alignment explanation
Indices: 34438274--34438323 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
34438264 TTGGTCAAGA
*
34438274 ATCGATACCTCAGTAGCTGGT
1 ATCGATACCTCAGTAGCTAGT
*
34438295 ATCGATACCTTAGTAGCTAGT
1 ATCGATACCTCAGTAGCTAGT
*
34438316 ATCAATAC
1 ATCGATAC
34438324 ATTTATCCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (21 bp):
ATCGATACCTCAGTAGCTAGT
Found at i:34441630 original size:30 final size:30
Alignment explanation
Indices: 34441585--34441644 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34441575 ATTTAATACG
*
34441585 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
34441615 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
34441645 GGCTCGGGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Done.