Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 149 of 328
Found at i:43536731 original size:27 final size:27
Alignment explanation
Indices: 43536667--43536745 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
43536657 ACCAATATTT
*
43536667 TTATTTATT-TTTCTTAATTTCTATTTTA
1 TTATTTATTATTTATT-ATTT-TATTTTA
*
43536695 -T-TTTATTATTTGTTATTTTATTTTA
1 TTATTTATTATTTATTATTTTATTTTA
43536720 TTATTTATTATTTATTATTTTATTTT
1 TTATTTATTATTTATTATTTTATTTT
43536746 TGGACATTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
25 7 0.15
26 11 0.24
27 28 0.61
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.75
Consensus pattern (27 bp):
TTATTTATTATTTATTATTTTATTTTA
Found at i:43539174 original size:28 final size:28
Alignment explanation
Indices: 43539138--43539193 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
43539128 GTTTCTTTCC
*
43539138 TATAAAAATAGACTCAATAAGCTTTAAT
1 TATAAAAATAGACTCAATAAACTTTAAT
* *
43539166 TATATAAATAGTCTCAATAAACTTTAAT
1 TATAAAAATAGACTCAATAAACTTTAAT
43539194 CTTACATCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (28 bp):
TATAAAAATAGACTCAATAAACTTTAAT
Found at i:43539847 original size:52 final size:54
Alignment explanation
Indices: 43539768--43539973 Score: 229
Period size: 55 Copynumber: 3.8 Consensus size: 54
43539758 ATCCTTTTTA
*
43539768 AACTTACCATTGCCATGTCTTGACATGGTCTTACGA-GGTATCTTTG-CTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTAC-ATGGTATCTTTGCCTTATAG
* * * *
43539820 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGAATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
** * * * * * *
43539874 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* * *
43539929 AACTTACCAATGCCATGTGTTGGCATGGTCTTACTTGGTATCTTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTT
43539974 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
51 1 0.01
52 41 0.33
53 5 0.04
54 37 0.29
55 42 0.33
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
Found at i:43539972 original size:109 final size:107
Alignment explanation
Indices: 43539778--43539973 Score: 268
Period size: 109 Copynumber: 1.8 Consensus size: 107
43539768 AACTTACCAT
* * * *
43539778 TGCCATGTCTTGACATGGTCTTACGAGGTATCTTTGCTTATGAACTTACCATTGCCATGCCTTGG
1 TGCCATGTCTTGACATGGTCTTACGAGATATCCTTGCTTATAAACTTACCAATGCCATGCCTTGG
43539843 CATGGTCTTACATGGAATCTTTGCCTTATAGTAGTTTATCAA
66 CATGGTCTTACATGGAATCTTTGCCTTATAGTAGTTTATCAA
* * **
43539885 TGCCATGTCTTGACATGGTCTTAC-ATGATTTCCTTGCCTTCTAAAACTTACCAATGCCATGTGT
1 TGCCATGTCTTGACATGGTCTTACGA-GATATCCTTG-CTTAT-AAACTTACCAATGCCATGCCT
* *
43539949 TGGCATGGTCTTACTTGGTATCTTT
63 TGGCATGGTCTTACATGGAATCTTT
43539974 AAACCCTAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 31 0.41
108 4 0.05
109 40 0.53
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (107 bp):
TGCCATGTCTTGACATGGTCTTACGAGATATCCTTGCTTATAAACTTACCAATGCCATGCCTTGG
CATGGTCTTACATGGAATCTTTGCCTTATAGTAGTTTATCAA
Found at i:43543452 original size:11 final size:11
Alignment explanation
Indices: 43543413--43543449 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
43543403 GAAAATAACC
*
43543413 AAAATTCATA-
1 AAAATTAATAT
43543423 AAAATTAATAT
1 AAAATTAATAT
43543434 AAAATTAAT-T
1 AAAATTAATAT
43543444 AAAATT
1 AAAATT
43543450 TAACATGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:43544211 original size:94 final size:93
Alignment explanation
Indices: 43543957--43544217 Score: 423
Period size: 93 Copynumber: 2.8 Consensus size: 93
43543947 AAATTAATTT
43543957 TTAGGAATATGTTGGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGGCTGAGTAA-CAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
43544022 AGGTTCGATATGTTCTTAAGAAAAATAAA
65 AGGTTCGATATGTTCTTAAGAAAAATAAA
* * * * * * *
43544051 TTAGTATTCTGTTAGGCTGAGTAACCGGGTGGGGTGCTTGGCTGTTATCTCTCTTCGTGTCAAAA
1 TTAGGAATATGTTGGGCTGAGTAACAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAA
*
43544116 GGTCCGATATGTTCTTAAGAAAAATAAA
66 GGTTCGATATGTTCTTAAGAAAAATAAA
*
43544144 TTAGGAGTATGTTGGGCTGAGTAACTAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTGGGCTGAGTAAC-AGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
43544209 AGGTTCGAT
65 AGGTTCGAT
43544218 GTATTTTTGA
Statistics
Matches: 150, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
93 86 0.57
94 64 0.43
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (93 bp):
TTAGGAATATGTTGGGCTGAGTAACAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAA
GGTTCGATATGTTCTTAAGAAAAATAAA
Found at i:43544882 original size:10 final size:10
Alignment explanation
Indices: 43544867--43544925 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
43544857 AATTTTAGCT
43544867 TTTATCTTTA
1 TTTATCTTTA
*
43544877 TTTATCCTTA
1 TTTATCTTTA
43544887 TTTATCTTTA
1 TTTATCTTTA
* *
43544897 ATTATTTTTA
1 TTTATCTTTA
*
43544907 TTTAAT-TGTA
1 TTT-ATCTTTA
43544917 TTTATCTTT
1 TTTATCTTT
43544926 TAGAATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:43544901 original size:14 final size:15
Alignment explanation
Indices: 43544884--43544925 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
43544874 TTATTTATCC
43544884 TTATTTATCTTTAA-
1 TTATTTATCTTTAAT
* *
43544898 TTATTTTTATTTAAT
1 TTATTTATCTTTAAT
43544913 TGTATTTATCTTT
1 T-TATTTATCTTT
43544926 TAGAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 9 0.41
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (15 bp):
TTATTTATCTTTAAT
Found at i:43546019 original size:24 final size:24
Alignment explanation
Indices: 43545982--43546052 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
43545972 CTGTCAGGAG
43545982 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* *
43546006 ATGATTTAGAAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
43546030 AGGATTTAGGAGAAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
43546053 GGAAATCTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:43547498 original size:27 final size:27
Alignment explanation
Indices: 43547458--43547569 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
43547448 AGGAAGCGTC
*
43547458 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
43547485 CTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
43547512 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
43547540 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
43547566 CTGG
1 CTGG
43547570 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:43547562 original size:54 final size:54
Alignment explanation
Indices: 43547458--43547569 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
43547448 AGGAAGCGTC
*
43547458 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAAATATCTGTT
* * * * *
43547512 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACAAATATCTGTT
43547566 CTGG
1 CTGG
43547570 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAAATATCTGTT
Found at i:43548651 original size:11 final size:10
Alignment explanation
Indices: 43548623--43548656 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
43548613 AGCCTGTAAG
43548623 TATTCTGAAT
1 TATTCTGAAT
*
43548633 TTTTCTGAAT
1 TATTCTGAAT
43548643 ATATTCTGAAT
1 -TATTCTGAAT
43548654 TAT
1 TAT
43548657 CTATCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:43549979 original size:13 final size:13
Alignment explanation
Indices: 43549961--43549991 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
43549951 GTCAAGGTCG
43549961 AGGGGCGCCTGGC
1 AGGGGCGCCTGGC
43549974 AGGGGCGCCTGGC
1 AGGGGCGCCTGGC
43549987 AGGGG
1 AGGGG
43549992 TGCCGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.58, T:0.06
Consensus pattern (13 bp):
AGGGGCGCCTGGC
Found at i:43555590 original size:49 final size:48
Alignment explanation
Indices: 43555539--43555657 Score: 213
Period size: 47 Copynumber: 2.5 Consensus size: 48
43555529 GTATGAGATA
*
43555539 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
43555586 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
43555634 GTATATATGTGATAAGGCCTAATG
1 -TATATATGTGATAAGGCCTAATG
43555658 TGTAACACCC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 46 0.67
49 23 0.33
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:43557053 original size:40 final size:40
Alignment explanation
Indices: 43557008--43557135 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
43556998 CGGAATATAA
*
43557008 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43557048 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43557088 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
43557128 CCGGATAT
1 CCGGATAT
43557136 TATTTCCAGC
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 71 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43558935 original size:49 final size:48
Alignment explanation
Indices: 43558863--43559096 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 48
43558853 GGCTGTCACA
43558863 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAG-GTGTATATATGTGATAAGGCC
*
43558912 TAATGACCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAG-GTGTATATATGTGATAAGGCC
*
43558961 TAATGGCTGATGTGATGAATGTG-AAGGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGCC
* *
43559008 GAATGGCCAATGTGATGAATGTGAAA-GTGTATATATGTGAT-AGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGCC
* * * * * * *
43559054 GAGTGGCCAACGTGATGGATGTGGAA-GTGTA-AAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGGTGTATATATGTGATAAG
43559097 TCCCGAAGGG
Statistics
Matches: 172, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
45 8 0.05
46 34 0.20
47 56 0.33
48 5 0.03
49 69 0.40
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (48 bp):
TAATGGCCGATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGCC
Found at i:43559029 original size:96 final size:93
Alignment explanation
Indices: 43558863--43559096 Score: 310
Period size: 96 Copynumber: 2.5 Consensus size: 93
43558853 GGCTGTCACA
* *
43558863 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGACCGATGTGAT
1 TAATGGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGACCAATGTGAT
43558928 GAATGTGAAAGTGTGTATATATGTGATAAGGCC
64 GAATGTGAAA--GTGTATATATGTGAT-AGGCC
* *
43558961 TAATGGCTGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGA
43559026 ATGTGAAAGTGTATATATGTGATAGGCC
66 ATGTGAAAGTGTATATATGTGATAGGCC
* * * * * *
43559054 GAGTGGCCAACGTGATGGATGTGGAA-GTGTA-AAATGTGATAAG
1 TAATGGCCGATGTGATGAATGT-GAAGGTGTATATATGTGATAAG
43559097 TCCCGAAGGG
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
92 11 0.09
93 26 0.21
94 18 0.15
96 44 0.35
97 3 0.02
98 22 0.18
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
TAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGA
ATGTGAAAGTGTATATATGTGATAGGCC
Found at i:43561504 original size:24 final size:24
Alignment explanation
Indices: 43561476--43561546 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
43561466 TTGTCAAGAG
*
43561476 AGGATTTAGGAGTTTATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
43561500 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
43561524 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
43561547 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.35, C:0.01, G:0.37, T:0.27
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:43563003 original size:27 final size:26
Alignment explanation
Indices: 43562963--43563067 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 26
43562953 AGGAAGCGTC
*
43562963 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-AATTATCTGAT
* *
43562990 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
* * *
43563017 CTGGTGGTTCTGCCACGATTAACTGTAT
1 CTGGTGGCTCTGCCA-AATTATCTG-AT
* *
43563045 CTGGTGACTCTGTC-AATTATCTG
1 CTGGTGGCTCTGCCAAATTATCTG
43563068 TTTTGGCAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
26 9 0.14
27 40 0.63
28 14 0.22
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAATTATCTGAT
Found at i:43565475 original size:12 final size:12
Alignment explanation
Indices: 43565460--43565490 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43565450 CATGTCCTAG
*
43565460 CCCGTGTCTTTA
1 CCCGTGTCCTTA
43565472 CCCGTGTCCTTA
1 CCCGTGTCCTTA
43565484 CCCGTGT
1 CCCGTGT
43565491 AACACCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.35
Consensus pattern (12 bp):
CCCGTGTCCTTA
Found at i:43573870 original size:24 final size:26
Alignment explanation
Indices: 43573843--43573907 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
43573833 AAAATAATGT
*
43573843 AATTTTTATTATAACT-TCA-TT-ACA
1 AATTTTTATTATAA-TATAATTTCACA
*
43573867 AATTGTTT-TTATAATATAATTTCAGA
1 AATT-TTTATTATAATATAATTTCACA
43573893 AATTTTTATTATAAT
1 AATTTTTATTATAAT
43573908 TATTCCAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 1 0.03
24 12 0.35
25 8 0.24
26 13 0.38
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (26 bp):
AATTTTTATTATAATATAATTTCACA
Found at i:43575094 original size:43 final size:43
Alignment explanation
Indices: 43575027--43575293 Score: 261
Period size: 43 Copynumber: 6.4 Consensus size: 43
43575017 GAAACGCCAT
*
43575027 TAAAAAACATGACCTTTAGCGGCGCTTTTCCCACAAACTCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACTCCGC
* ** * *
43575070 TAAAGAACATGACCTTTAGTGGCGCTTTTATCACAAACGCCGT
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACTCCGC
* * * * *
43575113 TAAAGAACATGACCTTTAACGGCACTTTTCCCACAAGCCCCTC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACTCCGC
43575156 TAAAGAACATGACCTTTA------CTTTTCCCACAAACGT-CGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC-TCCGC
* * *
43575193 TAAAGAACATGACCTTTAGCGACGC-TTTCCCATAAA-TGCCAC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACT-CCGC
* * * *
43575235 TATA-AATA-GACCTTTAGCGGCACTTTTCTCACAAACGT-CGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC-TCCGC
43575276 TAAAGAACATGACCTTTA
1 TAAAGAACATGACCTTTA
43575294 AAAATATATA
Statistics
Matches: 181, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
37 33 0.18
40 14 0.08
41 17 0.09
42 18 0.10
43 99 0.55
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACTCCGC
Found at i:43575292 original size:120 final size:123
Alignment explanation
Indices: 43575051--43575293 Score: 305
Period size: 120 Copynumber: 2.0 Consensus size: 123
43575041 TTTAGCGGCG
* * * **
43575051 CTTTTCCCACAAACTCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTATCACAAACGCCGTTAA
1 CTTTTCCCACAAACTCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCACTAA
* *
43575116 AGAACATGACCTTTAACGGCACTTTTCCCACAAGCCCCTCTAAAGAACATGACCTTTA
66 AGAACATGACCTTTAACGGCACTTTTCCCACAAACCCCGCTAAAGAACATGACCTTTA
* * *
43575174 CTTTTCCCACAAACGT-CGCTAAAGAACATGACCTTTAGCGACGC-TTTCCCATAAATGCCACTA
1 CTTTTCCCACAAAC-TCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCACTA
* * * * **
43575237 TA-AATA-GACCTTTAGCGGCACTTTTCTCACAAACGTCGCTAAAGAACATGACCTTTA
65 AAGAACATGACCTTTAACGGCACTTTTCCCACAAACCCCGCTAAAGAACATGACCTTTA
43575294 AAAATATATA
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
120 45 0.44
121 3 0.03
122 14 0.14
123 40 0.39
124 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (123 bp):
CTTTTCCCACAAACTCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCACTAA
AGAACATGACCTTTAACGGCACTTTTCCCACAAACCCCGCTAAAGAACATGACCTTTA
Found at i:43577548 original size:14 final size:14
Alignment explanation
Indices: 43577529--43577560 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
43577519 ATAAGTCAAG
43577529 ATTATGTATATGAT
1 ATTATGTATATGAT
43577543 ATTATGTATATGAT
1 ATTATGTATATGAT
43577557 ATTA
1 ATTA
43577561 ATACCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATTATGTATATGAT
Found at i:43579064 original size:41 final size:41
Alignment explanation
Indices: 43579006--43579115 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
43578996 GGTGTTTTCA
* * *
43579006 CCAAAAACACCATTATAGCTCAATTTTTTACAGCATTTTTG-
1 CCAAAAACGCCACTATAGCTCAATTTTTTACAGC-GTTTTGC
***
43579047 CCAAAAACGCCACTATAGCTCAATTTTTTGTGGCGTTTTGC
1 CCAAAAACGCCACTATAGCTCAATTTTTTACAGCGTTTTGC
*
43579088 CCAAAAACGCCACTATTGCTCAATTTTT
1 CCAAAAACGCCACTATAGCTCAATTTTT
43579116 ATTTTTTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 5 0.08
41 56 0.92
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (41 bp):
CCAAAAACGCCACTATAGCTCAATTTTTTACAGCGTTTTGC
Found at i:43579969 original size:21 final size:21
Alignment explanation
Indices: 43579945--43579991 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
43579935 CCCAAATATC
* *
43579945 AAACCCCAAATCCTAGCCCAT
1 AAACCCCAAATCATAGACCAT
*
43579966 AAACCCTAAATCATAGACCAT
1 AAACCCCAAATCATAGACCAT
43579987 AAACC
1 AAACC
43579992 TACACCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.36, G:0.04, T:0.15
Consensus pattern (21 bp):
AAACCCCAAATCATAGACCAT
Found at i:43580051 original size:4 final size:4
Alignment explanation
Indices: 43580042--43580066 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
43580032 AATCTGTTAC
43580042 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
43580067 CAATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:43580359 original size:7 final size:7
Alignment explanation
Indices: 43580347--43580499 Score: 51
Period size: 7 Copynumber: 21.4 Consensus size: 7
43580337 CTAATTAATA
43580347 TAAACCC
1 TAAACCC
43580354 TAAACCCC
1 TAAA-CCC
**
43580362 TATCCCC
1 TAAACCC
**
43580369 TATCCCC
1 TAAACCC
*
43580376 TAACCCC
1 TAAACCC
**
43580383 TATCCCC
1 TAAACCC
43580390 ATAAACCC
1 -TAAACCC
* *
43580398 TAAATCA
1 TAAACCC
***
43580405 TAAAATA
1 TAAACCC
*
43580412 TAAACCA
1 TAAACCC
43580419 TAAACCC
1 TAAACCC
*
43580426 -ATAACCAT
1 TA-AACC-C
*
43580434 TAATCCC
1 TAAACCC
43580441 T-AACTCC
1 TAAAC-CC
*
43580448 TAAACCT
1 TAAACCC
43580455 TAAACCC
1 TAAACCC
*
43580462 -CAACCC
1 TAAACCC
*
43580468 TTAAACCA
1 -TAAACCC
*
43580476 TAAACCA
1 TAAACCC
*
43580483 TAAACCA
1 TAAACCC
43580490 TAAACCC
1 TAAACCC
43580497 TAA
1 TAA
43580500 CGATAATTAA
Statistics
Matches: 114, Mismatches: 23, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
6 8 0.07
7 85 0.75
8 20 0.18
9 1 0.01
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:43580377 original size:14 final size:14
Alignment explanation
Indices: 43580358--43580399 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
43580348 AAACCCTAAA
*
43580358 CCCCTATCCCCTAT
1 CCCCTAACCCCTAT
43580372 CCCCTAACCCCTAT
1 CCCCTAACCCCTAT
*
43580386 CCCCATAAACCCTA
1 CCCC-TAACCCCTA
43580400 AATCATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.24, C:0.55, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCCTAACCCCTAT
Found at i:43580398 original size:22 final size:22
Alignment explanation
Indices: 43580346--43580400 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
43580336 ACTAATTAAT
43580346 ATAAACCCTAAACCCCTATCCCC
1 ATAAACCCT-AACCCCTATCCCC
**
43580369 -TATCCCCTAACCCCTATCCCC
1 ATAAACCCTAACCCCTATCCCC
43580390 ATAAACCCTAA
1 ATAAACCCTAA
43580401 ATCATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (22 bp):
ATAAACCCTAACCCCTATCCCC
Found at i:43580406 original size:14 final size:14
Alignment explanation
Indices: 43580388--43580499 Score: 77
Period size: 14 Copynumber: 7.9 Consensus size: 14
43580378 ACCCCTATCC
43580388 CCATAAACCCTAAA
1 CCATAAACCCTAAA
* ***
43580402 TCATAAAATATAAA
1 CCATAAACCCTAAA
43580416 CCATAAACCC-ATAA
1 CCATAAACCCTA-AA
*
43580430 CCATTAATCCCT-AA
1 CCA-TAAACCCTAAA
* *
43580444 CTCCTAAACCTTAAA
1 C-CATAAACCCTAAA
**
43580459 CC-CCAACCCTTAAA
1 CCATAAACCC-TAAA
*
43580473 CCATAAACCATAAA
1 CCATAAACCCTAAA
43580487 CCATAAACCCTAA
1 CCATAAACCCTAA
43580500 CGATAATTAA
Statistics
Matches: 72, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
13 5 0.07
14 53 0.74
15 14 0.19
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCATAAACCCTAAA
Found at i:43580427 original size:8 final size:7
Alignment explanation
Indices: 43580388--43580495 Score: 67
Period size: 7 Copynumber: 15.3 Consensus size: 7
43580378 ACCCCTATCC
43580388 CCATAAA
1 CCATAAA
*
43580395 CCCTAAA
1 CCATAAA
*
43580402 TCATAAA
1 CCATAAA
**
43580409 ATATAAA
1 CCATAAA
43580416 CCATAAA
1 CCATAAA
43580423 CCCAT-AA
1 -CCATAAA
*
43580430 CCATTAAT
1 CCA-TAAA
*
43580438 CCCT-AA
1 CCATAAA
*
43580444 CTCCTAAA
1 C-CATAAA
*
43580452 CCTTAAA
1 CCATAAA
** *
43580459 CCCCAAC
1 CCATAAA
*
43580466 CCTTAAA
1 CCATAAA
43580473 CCATAAA
1 CCATAAA
43580480 CCATAAA
1 CCATAAA
43580487 CCATAAA
1 CCATAAA
43580494 CC
1 CC
43580496 CTAACGATAA
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.06
7 63 0.81
8 10 0.13
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
CCATAAA
Found at i:43580493 original size:21 final size:21
Alignment explanation
Indices: 43580388--43580495 Score: 76
Period size: 21 Copynumber: 5.1 Consensus size: 21
43580378 ACCCCTATCC
*
43580388 CCATAAACCCTAAATCATAAA
1 CCATAAACCCTAAACCATAAA
** *
43580409 ATATAAACCATAAACCCAT-AA
1 CCATAAACCCTAAA-CCATAAA
* *
43580430 CCATTAATCCCT-AACTCCTAAA
1 CCA-TAAACCCTAAAC-CATAAA
* * * *
43580452 CCTTAAACCCCAACCCTTAAA
1 CCATAAACCCTAAACCATAAA
*
43580473 CCATAAACCATAAACCATAAA
1 CCATAAACCCTAAACCATAAA
43580494 CC
1 CC
43580496 CTAACGATAA
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
20 1 0.02
21 47 0.75
22 15 0.24
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
CCATAAACCCTAAACCATAAA
Found at i:43580850 original size:40 final size:40
Alignment explanation
Indices: 43580806--43580989 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
43580796 TTTTACGGCG
* * *
43580806 TTTTCATAAAGCGCCGCTAAAGCTCGATCTATAGCGGCAT
1 TTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCAT
* *
43580846 TTTTCAAAAAGCGCTGCTAATGGTCGACCTATAGCGG-ATT
1 TTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA-T
* * *
43580886 TTTTCAAAAACCGTCC-CTAATGGTCGACCTATAACGGCATT
1 TTTTCAAAAAGCG-CCGCTAATGCTCGACCTATAGCGGCA-T
* * * * *
43580927 TTTTTAAAAA-CAGCCGCTAATGCTCAATCTATAGCAGCGT
1 TTTTCAAAAAGC-GCCGCTAATGCTCGACCTATAGCGGCAT
43580967 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAAGCGCCGCTAATGC
43580990 CTCTAAAGCT
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 89 0.73
41 32 0.26
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCAT
Found at i:43580987 original size:81 final size:80
Alignment explanation
Indices: 43580806--43580989 Score: 201
Period size: 81 Copynumber: 2.3 Consensus size: 80
43580796 TTTTACGGCG
* * * * * *
43580806 TTTTCATAAAGCGCCGCTAAAGCTCGATCTATAGCGGCATTTTTCAAAAAGCGCTGCTAATGGTC
1 TTTTCAAAAAGCGCCGCTAATGCTCGACCTATAACGGCATTTTTCAAAAAGCGCCGCTAATGCTC
* * *
43580871 GACCTATAGCGGATT
66 AACCTATAGCAGAGT
* * *
43580886 TTTTCAAAAACCGTCC-CTAATGGTCGACCTATAACGGCATTTTTTTAAAAA-CAGCCGCTAATG
1 TTTTCAAAAAGCG-CCGCTAATGCTCGACCTATAACGGCA-TTTTTCAAAAAGC-GCCGCTAATG
* *
43580949 CTCAATCTATAGCAGCGT
63 CTCAACCTATAGCAGAGT
43580967 TTTTCAAAAAGCGCCGCTAATGC
1 TTTTCAAAAAGCGCCGCTAATGC
43580990 CTCTAAAGCT
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
80 33 0.39
81 51 0.61
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (80 bp):
TTTTCAAAAAGCGCCGCTAATGCTCGACCTATAACGGCATTTTTCAAAAAGCGCCGCTAATGCTC
AACCTATAGCAGAGT
Found at i:43581051 original size:75 final size:75
Alignment explanation
Indices: 43580960--43581138 Score: 277
Period size: 75 Copynumber: 2.4 Consensus size: 75
43580950 TCAATCTATA
* * * *
43580960 GCAGCGTTTTTCAAAAAGCGCCGCTAATGCCTCTAAAGCTCAACACAAAACAATAGCGTTGTGCT
1 GCAGCGTTTTTCAAAAAGCGCCACTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
43581025 AAATTTTTTT
66 AAATTTTTTT
*
43581035 GCAGCGTTTTTCAAAAAGCGCCACTAATGCCACTAAAACTCAACACAAAACAACGGCGTTGTGCT
1 GCAGCGTTTTTCAAAAAGCGCCACTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
*
43581100 TAATTTTTTT
66 AAATTTTTTT
** *
43581110 GTGGCGTTTTTCAAAAAGTGCCACTAATG
1 GCAGCGTTTTTCAAAAAGCGCCACTAATG
43581139 GTCGACCTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 95 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (75 bp):
GCAGCGTTTTTCAAAAAGCGCCACTAATGCCACTAAAACTCAACACAAAACAACAGCGTTGTGCT
AAATTTTTTT
Found at i:43581491 original size:28 final size:28
Alignment explanation
Indices: 43581459--43581514 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
43581449 CATTTCCAGA
*
43581459 GATTCTTGTCAAGTTCCCTTGTTTGATT
1 GATTCTTGTCAAGTTCCCTTGTTCGATT
*
43581487 GATTCTTGTTAAGTTCCCTTGTTCGATT
1 GATTCTTGTCAAGTTCCCTTGTTCGATT
43581515 ACTCTACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (28 bp):
GATTCTTGTCAAGTTCCCTTGTTCGATT
Found at i:43582072 original size:20 final size:20
Alignment explanation
Indices: 43582034--43582072 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43582024 TTAAATAAAA
43582034 AATAAGAAAAATAATAATTG
1 AATAAGAAAAATAATAATTG
43582054 AATAATGAAAAATAA-AATT
1 AATAA-GAAAAATAATAATT
43582073 ATCACAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
AATAAGAAAAATAATAATTG
Found at i:43592579 original size:15 final size:16
Alignment explanation
Indices: 43592559--43592588 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43592549 CAATTTTGTC
43592559 CCCTTTTA-CCTTTTA
1 CCCTTTTACCCTTTTA
43592574 CCCTTTTACCCTTTT
1 CCCTTTTACCCTTTT
43592589 CTTTATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (16 bp):
CCCTTTTACCCTTTTA
Found at i:43592580 original size:8 final size:8
Alignment explanation
Indices: 43592559--43592588 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
43592549 CAATTTTGTC
43592559 CCCTTTTA
1 CCCTTTTA
43592567 -CCTTTTA
1 CCCTTTTA
43592574 CCCTTTTA
1 CCCTTTTA
43592582 CCCTTTT
1 CCCTTTT
43592589 CTTTATCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (8 bp):
CCCTTTTA
Found at i:43592641 original size:31 final size:30
Alignment explanation
Indices: 43592606--43592685 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
43592596 TTATTTAATA
*
43592606 TTTATTTGTTTATTTA-TTTCTTGTTTGTTAT
1 TTTATTTGTTT-TTTAGTTTCTTCTTTGTT-T
*
43592637 TTTATTT-TAGTTTTAGTTTCTTCTTTGTTT
1 TTTATTTGT-TTTTTAGTTTCTTCTTTGTTT
* *
43592667 TTTTTTTGTTCTTTAGTTT
1 TTTATTTGTTTTTTAGTTT
43592686 TCTATGTTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
30 20 0.49
31 21 0.51
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.75
Consensus pattern (30 bp):
TTTATTTGTTTTTTAGTTTCTTCTTTGTTT
Found at i:43594310 original size:18 final size:19
Alignment explanation
Indices: 43594268--43594319 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
43594258 CATTGAGTCC
*
43594268 ATTTATTTTTATTTTTAGT
1 ATTTATTTTTATTTTTACT
*
43594287 AATTATTTTTATTTTT-CT
1 ATTTATTTTTATTTTTACT
*
43594305 ATTTATTTGTATTTT
1 ATTTATTTTTATTTT
43594320 CCTGGACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (19 bp):
ATTTATTTTTATTTTTACT
Found at i:43598126 original size:21 final size:21
Alignment explanation
Indices: 43598087--43598128 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43598077 GCATGAAAAG
**
43598087 TAACTATACATAATGTTGCAA
1 TAACTATACATAACATTGCAA
43598108 TAACTATACATAACATTGCAA
1 TAACTATACATAACATTGCAA
43598129 GACGATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (21 bp):
TAACTATACATAACATTGCAA
Found at i:43600156 original size:18 final size:17
Alignment explanation
Indices: 43600116--43600156 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
43600106 CACTTTTTCA
*
43600116 ATCATCCCTCATCCTTC
1 ATCATCCCTCATCATTC
43600133 ATTCATCCCTCACTCATTC
1 A-TCATCCCTCA-TCATTC
43600152 ATCAT
1 ATCAT
43600157 TCTCTTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 6 0.29
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (17 bp):
ATCATCCCTCATCATTC
Found at i:43608516 original size:40 final size:40
Alignment explanation
Indices: 43608489--43608583 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
43608479 CGTTTTAATG
* *
43608489 AAAATGCCGTTAAAGAACGAGAATTAGCGGCGCTTTTTCA
1 AAAACGCCGCTAAAGAACGAGAATTAGCGGCGCTTTTTCA
* * *
43608529 AAAACGCCGCTAAAGAACGAGCATTAGCGGCGCTTTCTAA
1 AAAACGCCGCTAAAGAACGAGAATTAGCGGCGCTTTTTCA
* *
43608569 AAAACACCACTAAAG
1 AAAACGCCGCTAAAG
43608584 GTGTACCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAGAACGAGAATTAGCGGCGCTTTTTCA
Found at i:43608836 original size:40 final size:40
Alignment explanation
Indices: 43608751--43608843 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
43608741 CGAGCATTAG
* *
43608751 ATTAGTGGCGCTTTTTCTAAAAACGTCACTATAGGTAGAGT
1 ATTAGTGGCG-TTTTTCTAAAAACGCCACTATAGGTAGAGC
* * *
43608792 ATTAGTGGCGTTTTTTTGAAAAACGCCGCTATATGTA-AGC
1 ATTAGTGGCGTTTTTCT-AAAAACGCCACTATAGGTAGAGC
*
43608832 ATTAGCGGCGTT
1 ATTAGTGGCGTT
43608844 AAAAAAATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 19 0.42
41 26 0.58
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (40 bp):
ATTAGTGGCGTTTTTCTAAAAACGCCACTATAGGTAGAGC
Found at i:43609220 original size:15 final size:15
Alignment explanation
Indices: 43609199--43609237 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
43609189 AATATTTTAA
43609199 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
*
43609214 TGTTTAGGGATTATG
1 GGTTTAGGGATTATG
43609229 GGTTTAGGG
1 GGTTTAGGG
43609238 GTTGTGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:43609300 original size:15 final size:15
Alignment explanation
Indices: 43609272--43609371 Score: 80
Period size: 15 Copynumber: 6.6 Consensus size: 15
43609262 AATGGGTAAA
*
43609272 GGTTAAGCGTTTTAAG
1 GGTTAAG-GGTTTAAG
*
43609288 GGTTATGGGTTTAAG
1 GGTTAAGGGTTTAAG
*
43609303 GGTTAAGGG-TTATG
1 GGTTAAGGGTTTAAG
*
43609317 GGTTTAATGG-TTAAGG
1 GG-TTAAGGGTTTAA-G
* *
43609333 GGATAAGGG-TTAGG
1 GGTTAAGGGTTTAAG
*
43609347 GGTTAAGGGGTTTAAT
1 GGTTAA-GGGTTTAAG
43609363 GGTTAAGGG
1 GGTTAAGGG
43609372 GACATAGGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
14 12 0.18
15 38 0.56
16 18 0.26
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.34
Consensus pattern (15 bp):
GGTTAAGGGTTTAAG
Found at i:43609308 original size:7 final size:7
Alignment explanation
Indices: 43609283--43609371 Score: 79
Period size: 7 Copynumber: 12.0 Consensus size: 7
43609273 GTTAAGCGTT
43609283 TTAAGGG
1 TTAAGGG
*
43609290 TTATGGG
1 TTAAGGG
43609297 TTTAAGGG
1 -TTAAGGG
43609305 TTAAGGG
1 TTAAGGG
*
43609312 TTATGGG
1 TTAAGGG
*
43609319 TTTAATGG
1 -TTAAGGG
43609327 TTAAGGGG
1 TTAA-GGG
*
43609335 ATAAGGG
1 TTAAGGG
*
43609342 TTAGGGG
1 TTAAGGG
43609349 TTAAGGGG
1 TTAA-GGG
*
43609357 TTTAATGG
1 -TTAAGGG
43609365 TTAAGGG
1 TTAAGGG
43609372 GACATAGGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
7 40 0.62
8 21 0.32
9 4 0.06
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.34
Consensus pattern (7 bp):
TTAAGGG
Found at i:43609308 original size:22 final size:22
Alignment explanation
Indices: 43609283--43609355 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
43609273 GTTAAGCGTT
43609283 TTAAGGGTTATGGGTTTAAGGG
1 TTAAGGGTTATGGGTTTAAGGG
*
43609305 TTAAGGGTTATGGGTTTAATGG
1 TTAAGGGTTATGGGTTTAAGGG
* * *
43609327 TTAAGGGGATAAGGG-TTAGGGG
1 TTAA-GGGTTATGGGTTTAAGGG
43609349 TTAAGGG
1 TTAAGGG
43609356 GTTTAATGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.07
22 34 0.76
23 8 0.18
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (22 bp):
TTAAGGGTTATGGGTTTAAGGG
Found at i:43609382 original size:38 final size:37
Alignment explanation
Indices: 43609300--43609385 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 37
43609290 TTATGGGTTT
* * *
43609300 AAGGGTTAAGGGTTATGGGTTTAATGGTTAAGGGGAT
1 AAGGGTTAGGGGTTAGGGGTTTAATGGTTAAGGGGAC
43609337 AAGGGTTAGGGGTTAAGGGGTTTAATGGTTAAGGGGAC
1 AAGGGTTAGGGGTT-AGGGGTTTAATGGTTAAGGGGAC
43609375 ATA-GGTTAGGG
1 A-AGGGTTAGGG
43609386 TTTTATGGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 13 0.30
38 30 0.68
39 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.43, T:0.29
Consensus pattern (37 bp):
AAGGGTTAGGGGTTAGGGGTTTAATGGTTAAGGGGAC
Found at i:43609513 original size:22 final size:22
Alignment explanation
Indices: 43609477--43609518 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
43609467 TTGAAGGGTT
43609477 GGGATGTAAAGTTTAGGGTTTA
1 GGGATGTAAAGTTTAGGGTTTA
43609499 GGGAT-TAAAGATTTAGGGTT
1 GGGATGTAAAG-TTTAGGGTT
43609519 AATGGGATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (22 bp):
GGGATGTAAAGTTTAGGGTTTA
Found at i:43609782 original size:26 final size:26
Alignment explanation
Indices: 43609689--43609780 Score: 150
Period size: 26 Copynumber: 3.5 Consensus size: 26
43609679 TAAAGAATTA
43609689 AAGATTTCAAATTTAGAATAATTTTC
1 AAGATTTCAAATTTAGAATAATTTTC
*
43609715 AAGAATTCAAATTTAGAATAATTTTC
1 AAGATTTCAAATTTAGAATAATTTTC
43609741 AAGATTTCAAATTTTA-AATAATTTTC
1 AAGATTTCAAA-TTTAGAATAATTTTC
*
43609767 AATATTTCAAATTT
1 AAGATTTCAAATTT
43609781 TATCTAATTC
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
25 3 0.05
26 55 0.89
27 4 0.06
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (26 bp):
AAGATTTCAAATTTAGAATAATTTTC
Found at i:43612755 original size:44 final size:44
Alignment explanation
Indices: 43612705--43612793 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
43612695 AGTGATGATC
43612705 AATCTTTCAATTTATAATGGCAAACCACATAGACAACTAAGATT
1 AATCTTTCAATTTATAATGGCAAACCACATAGACAACTAAGATT
43612749 AATCTTTCAATTTATAATGGCAAACCACATAGACAACTAAGATT
1 AATCTTTCAATTTATAATGGCAAACCACATAGACAACTAAGATT
43612793 A
1 A
43612794 GCCATTGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (44 bp):
AATCTTTCAATTTATAATGGCAAACCACATAGACAACTAAGATT
Found at i:43613713 original size:19 final size:20
Alignment explanation
Indices: 43613688--43613781 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 20
43613678 TCAATCTTAT
*
43613688 TTTAATTAATATAATTCGTA
1 TTTAATTAATATAATTAGTA
* * * *
43613708 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTAGTA
* *
43613727 TTTAATTAATATAATTTGGA
1 TTTAATTAATATAATTAGTA
* * * *
43613747 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTAGTA
43613766 TTTAATTAATATAATT
1 TTTAATTAATATAATT
43613782 TTTATAAATA
Statistics
Matches: 52, Mismatches: 20, Indels: 4
0.68 0.26 0.05
Matches are distributed among these distances:
19 27 0.52
20 25 0.48
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTAATTAATATAATTAGTA
Found at i:43613729 original size:15 final size:15
Alignment explanation
Indices: 43613706--43613804 Score: 52
Period size: 15 Copynumber: 7.0 Consensus size: 15
43613696 ATATAATTCG
43613706 TATTAATTTATTTAAA
1 TATT-ATTTATTTAAA
*
43613722 TATTATTTAATT-AA
1 TATTATTTATTTAAA
**
43613736 TA-TA---ATTTGGA
1 TATTATTTATTTAAA
*
43613747 T-TAATTTATTTAAA
1 TATTATTTATTTAAA
*
43613761 TATTATTTAATT-AA
1 TATTATTTATTTAAA
*
43613775 TATAATTT-TTATAAA
1 TATTATTTATT-TAAA
* *
43613790 TATAATTTAATTAAA
1 TATTATTTATTTAAA
43613805 ATAATTTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
10 3 0.05
11 3 0.05
13 3 0.05
14 20 0.32
15 29 0.46
16 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTATTTATTTAAA
Found at i:43613753 original size:24 final size:24
Alignment explanation
Indices: 43613726--43613781 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
43613716 TTTAAATATT
*
43613726 ATTTAATT-AATATAATTTGGATTA
1 ATTTAATTAAATATAATTT-AATTA
* *
43613750 ATTTATTTAAATATTATTTAATTA
1 ATTTAATTAAATATAATTTAATTA
*
43613774 ATATAATT
1 ATTTAATT
43613782 TTTATAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAATTAAATATAATTTAATTA
Found at i:43613782 original size:39 final size:39
Alignment explanation
Indices: 43613688--43613782 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
43613678 TCAATCTTAT
* *
43613688 TTTAATTAATATAATTCGTATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
43613727 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
43613766 TTTAATTAATATAATTT
1 TTTAATTAATATAATTT
43613783 TTATAAATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:43613786 original size:20 final size:20
Alignment explanation
Indices: 43613688--43613786 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
43613678 TCAATCTTAT
**
43613688 TTTAATTAATATAATTCGTA
1 TTTAATTAATATAATTATTA
* * *
43613708 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTATTA
*
43613727 TTTAATTAATATAATT-TGGA
1 TTTAATTAATATAATTAT-TA
* * *
43613747 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTATTA
*
43613766 TTTAATTAATATAATTTTTA
1 TTTAATTAATATAATTATTA
43613786 T
1 T
43613787 AAATATAATT
Statistics
Matches: 58, Mismatches: 17, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
19 28 0.48
20 30 0.52
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTAATTAATATAATTATTA
Found at i:43613789 original size:29 final size:28
Alignment explanation
Indices: 43613748--43613814 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
43613738 TAATTTGGAT
* *
43613748 TAATTTATTTAAATATTATTTAATTAATA
1 TAATTT-TTTAAATATAATTTAATTAAAA
43613777 TAATTTTTATAAATATAATTTAATTAAAA
1 TAATTTTT-TAAATATAATTTAATTAAAA
43613806 TAATTTTTT
1 TAATTTTTT
43613815 TTCCATGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TAATTTTTTAAATATAATTTAATTAAAA
Found at i:43614097 original size:9 final size:9
Alignment explanation
Indices: 43614083--43614151 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
43614073 TATATACTTG
43614083 AACTTACAT
1 AACTTACAT
*
43614092 AACTTAAAT
1 AACTTACAT
43614101 AACTTACAT
1 AACTTACAT
*
43614110 GACTTACAT
1 AACTTACAT
*
43614119 AACTCACAT
1 AACTTACAT
*
43614128 AACTTACAG
1 AACTTACAT
*
43614137 AACTTACAG
1 AACTTACAT
43614146 AACTTA
1 AACTTA
43614152 ATTATACTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:43619054 original size:13 final size:14
Alignment explanation
Indices: 43619038--43619066 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43619028 TTATAAATAT
43619038 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
43619051 TTATAATGGTTTAA
1 TTATAATGGTTTAA
43619065 TT
1 TT
43619067 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:43621929 original size:25 final size:25
Alignment explanation
Indices: 43621901--43621952 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
43621891 GTCATGCATG
43621901 ATTAAATTAAATAATAAATTGTAAA
1 ATTAAATTAAATAATAAATTGTAAA
** * **
43621926 ATTATGTTTAATAATTTATTGTAAA
1 ATTAAATTAAATAATAAATTGTAAA
43621951 AT
1 AT
43621953 ATTTCATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (25 bp):
ATTAAATTAAATAATAAATTGTAAA
Found at i:43622404 original size:7 final size:7
Alignment explanation
Indices: 43622392--43622416 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43622382 ACTTTTTCAA
43622392 TCATCCC
1 TCATCCC
43622399 TCATCCC
1 TCATCCC
43622406 TCATCCC
1 TCATCCC
43622413 TCAT
1 TCAT
43622417 TCATCCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:43631275 original size:23 final size:23
Alignment explanation
Indices: 43631245--43631291 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43631235 TAATAAGATA
43631245 GCTTGTATGCAAGCATGAATGAT
1 GCTTGTATGCAAGCATGAATGAT
43631268 GCTTGTATGCAAGCATGAATGAT
1 GCTTGTATGCAAGCATGAATGAT
43631291 G
1 G
43631292 ATTTTATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (23 bp):
GCTTGTATGCAAGCATGAATGAT
Found at i:43635550 original size:9 final size:9
Alignment explanation
Indices: 43635525--43635553 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
43635515 GATTTTTCAG
43635525 ACATCATTT
1 ACATCATTT
43635534 AC-TCATTT
1 ACATCATTT
43635542 ACATCATTT
1 ACATCATTT
43635551 ACA
1 ACA
43635554 CTTTTTCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (9 bp):
ACATCATTT
Found at i:43648950 original size:46 final size:46
Alignment explanation
Indices: 43648872--43648983 Score: 129
Period size: 46 Copynumber: 2.4 Consensus size: 46
43648862 GGGCTAGTGT
* * * *
43648872 AAGACATGTTTAGGACATGCATCGGCCTCGAGACG-TAAGCCAGTAC
1 AAGACATGTCTGGGACATGCATCAGCCTCGAGACGAT-AGACAGTAC
**
43648918 AAGACATGTCTGGGACATGCATCAG-CTACGAGACGATAGACAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCT-CGAGACGATAGACAGTAC
43648964 AAGACCATGTCTGGGACATG
1 AAGA-CATGTCTGGGACATG
43648984 GAATCAACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.04
46 39 0.68
47 16 0.28
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCAGCCTCGAGACGATAGACAGTAC
Found at i:43654609 original size:40 final size:40
Alignment explanation
Indices: 43654579--43654717 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
43654569 GTTCAAATTT
*
43654579 CTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGC
* *
43654619 CTTCGGTACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
* ** * * *
43654659 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GC
1 CTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCACAAATGC
* *
43654699 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACATAACCCGGA
43654718 CATCATTCGA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
39 2 0.02
40 70 0.82
41 13 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:43654649 original size:80 final size:80
Alignment explanation
Indices: 43654549--43654717 Score: 175
Period size: 80 Copynumber: 2.1 Consensus size: 80
43654539 CCTTCGGAGT
** ** * *
43654549 TTAA-CCGGATATAGCTACTCGTTCAAATTTCTTCGGGA-CATAGCCCGGTTATAGTAAC-TCGC
1 TTAACCCGGATATAGCTACTCGCACAAATGCCTTC-GGATCATAGCCCGGATATAGTAACTTAGC
*
43654611 ACAAATGCCTTCGGTAC
65 ACAAA-GCCTTCGGGAC
* * * *
43654628 TTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGC
1 TTAACCCGGATATAGCT-ACTCGCACAAATGCCTTCGGATCATAGCCCGGATATAGTAACTTAGC
43654692 ACAAAGCCTTCGGGAC
65 ACAAAGCCTTCGGGAC
*
43654708 TTAGCCCGGA
1 TTAACCCGGA
43654718 CATCATTCGA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
79 8 0.11
80 58 0.78
81 8 0.11
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGATCATAGCCCGGATATAGTAACTTAGCA
CAAAGCCTTCGGGAC
Found at i:43658039 original size:17 final size:17
Alignment explanation
Indices: 43658017--43658069 Score: 97
Period size: 17 Copynumber: 3.1 Consensus size: 17
43658007 AAATTTGGGG
*
43658017 TTCTCCATAGTTAGGGC
1 TTCTCCATAGCTAGGGC
43658034 TTCTCCATAGCTAGGGC
1 TTCTCCATAGCTAGGGC
43658051 TTCTCCATAGCTAGGGC
1 TTCTCCATAGCTAGGGC
43658068 TT
1 TT
43658070 TCAAGCTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (17 bp):
TTCTCCATAGCTAGGGC
Found at i:43663112 original size:47 final size:48
Alignment explanation
Indices: 43662992--43663113 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 48
43662982 GCCACATTAT
* * * *
43662992 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGACATGACATTGACATTCAGAC
*
43663040 GAGGGCTAGTGTAAGA-CATGTCTAGGACATGACATTGAC-TTCAGA-
1 GAGAGCTAGTGTAAGACCATGTCTAGGACATGACATTGACATTCAGAC
* * *
43663085 TATGAGCTAGTATAAGACCATGCCTAGGA
1 GA-GAGCTAGTGTAAGACCATGTCTAGGA
43663114 TATGGAATCG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.02
46 17 0.27
47 31 0.49
48 14 0.22
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTAGGACATGACATTGACATTCAGAC
Found at i:43669189 original size:54 final size:55
Alignment explanation
Indices: 43669123--43669241 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
43669113 TATGTAGGCC
* * **
43669123 CACGCCCTTGTTAA-TTAATAGGTTCACCCAC-GGTTGCTTGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCACCCACGGGTT-CAAGGCACGGGCGTGTCG
* *** *
43669177 CACGCCCGTGTTAATTTGACAGGTTTGGCCACGGGTTCAAGGCACTGGCGTGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCACCCACGGGTTCAAGGCACGGGCGTGTCG
43669232 CACGCCCGTG
1 CACGCCCGTG
43669242 CTATTTTGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
54 13 0.24
55 37 0.69
56 4 0.07
ACGTcount: A:0.16, C:0.29, G:0.30, T:0.25
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTAACAGGTTCACCCACGGGTTCAAGGCACGGGCGTGTCG
Found at i:43669221 original size:55 final size:55
Alignment explanation
Indices: 43669162--43669265 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
43669152 ACGGTTGCTT
* *
43669162 GGCACGGGCGTGTCGCACGCCCGTGTTAATTTGACAGGTTTGGCCACGGGTTCAA
1 GGCACGGGCGTGTCGCACGCCCGTGCTAATTTGACAGGTTCGGCCACGGGTTCAA
* * * *
43669217 GGCACTGGCGTGTCGCACGCCCGTGCTATTTTGGCAGGTTCGTCCACGG
1 GGCACGGGCGTGTCGCACGCCCGTGCTAATTTGACAGGTTCGGCCACGG
43669266 CCATGTCGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.35, T:0.24
Consensus pattern (55 bp):
GGCACGGGCGTGTCGCACGCCCGTGCTAATTTGACAGGTTCGGCCACGGGTTCAA
Found at i:43683306 original size:30 final size:30
Alignment explanation
Indices: 43683271--43683330 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43683261 CTTTAATATG
* *
43683271 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
* *
43683301 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
43683331 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:43685476 original size:45 final size:45
Alignment explanation
Indices: 43685406--43685666 Score: 229
Period size: 45 Copynumber: 5.7 Consensus size: 45
43685396 TTGTAGCTTT
* *
43685406 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
* * *
43685451 AGTCTGTTCCACTGCAACTTCAGGGAAATAAGAGTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
* * *
43685496 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TT-T-GC---TATCTTC
** * * * *
43685547 AATCTATTCCACT-CTAACATCAGGGAAATAAGATTTTCTGTCTCC
1 AATCTGCTCCACTGC-AACTTCAGGGAAATAAGATTTGCTATCTTC
* ** * * * **
43685592 AGTCTGCTCTGCTGCAACTTCAAGGAGATAAGAATTG-TGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
* *
43685636 AATCTGCTCCACTACAACTTCAGGGAGATAA
1 AATCTGCTCCACTGCAACTTCAGGGAAATAA
43685667 TATTCACCAT
Statistics
Matches: 173, Mismatches: 35, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
44 31 0.18
45 100 0.58
46 2 0.01
47 1 0.01
48 3 0.02
49 1 0.01
50 3 0.02
51 32 0.18
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
Found at i:43685498 original size:148 final size:140
Alignment explanation
Indices: 43685312--43685666 Score: 451
Period size: 141 Copynumber: 2.5 Consensus size: 140
43685302 TAATTTATTT
* * *
43685312 CACTACAACTTCAGGGAAATAAGATTTGTTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGAATTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
* * *
43685377 AAGATTTGTAGCTTGTAGCTTGTAGCTTTAATCTGTTCCACTGC-AACTTTAGGGAAATAAGATT
65 AAGA----T---TTGTAGCTTGTAGCTTTAATCTATTCCACT-CTAACATCAGGGAAATAAGATT
* *
43685441 TGCTATCTTCAGTCTGTTC
122 TGCTATCTCCAGTCTGCTC
*
43685460 CACTGCAACTTCAGGGAAATAAGAGTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGAATTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
43685525 AAGATTTGTAGCTTGTAGCTTTAATCTATTCCACTCTAACATCAGGGAAATAAGATTTTCTGTCT
65 AAGATTTGTAGCTTGTAGCTTTAATCTATTCCACTCTAACATCAGGGAAATAAGATTTGCTATCT
43685590 CCAGTCTGCTC
130 CCAGTCTGCTC
** * * ** *
43685601 TGCTGCAACTTCAAGGAGATAAGAATTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGAAATAAGAATTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
43685666 A
66 A
43685667 TATTCACCAT
Statistics
Matches: 187, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
140 36 0.19
141 85 0.45
144 1 0.01
148 65 0.35
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (140 bp):
CACTGCAACTTCAGGGAAATAAGAATTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
AGATTTGTAGCTTGTAGCTTTAATCTATTCCACTCTAACATCAGGGAAATAAGATTTGCTATCTC
CAGTCTGCTC
Found at i:43685600 original size:96 final size:96
Alignment explanation
Indices: 43685457--43685634 Score: 241
Period size: 96 Copynumber: 1.9 Consensus size: 96
43685447 CTTCAGTCTG
* * *
43685457 TTCCACTGCAACTTCAGGGAAATAAGAGTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
1 TTCCACTGCAACATCAGGGAAATAAGAGTTGCTATCTCCAATCTGCTCCACTGCAACTTCAAGGA
*
43685522 GATAAGATTTGTAGCTTGTAGCTTTAATCTA
66 GATAAGAATTGTAGCTTGTAGCTTTAATCTA
* * * * **
43685553 TTCCACT-CTAACATCAGGGAAATAAGATTTTCTGTCTCCAGTCTGCTCTGCTGCAACTTCAAGG
1 TTCCACTGC-AACATCAGGGAAATAAGAGTTGCTATCTCCAATCTGCTCCACTGCAACTTCAAGG
*
43685617 AGATAAGAATTGTGGCTT
65 AGATAAGAATTGTAGCTT
43685635 CAATCTGCTC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 69 0.99
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (96 bp):
TTCCACTGCAACATCAGGGAAATAAGAGTTGCTATCTCCAATCTGCTCCACTGCAACTTCAAGGA
GATAAGAATTGTAGCTTGTAGCTTTAATCTA
Found at i:43697721 original size:21 final size:20
Alignment explanation
Indices: 43697696--43697735 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
43697686 AAATGACAAA
43697696 GAAAAATTTTAAATAAAATG
1 GAAAAATTTTAAATAAAATG
43697716 GAAAAATTTTAAATAAAATG
1 GAAAAATTTTAAATAAAATG
43697736 ATGATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (20 bp):
GAAAAATTTTAAATAAAATG
Found at i:43702634 original size:40 final size:40
Alignment explanation
Indices: 43702576--43702743 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
43702566 TCTTTGGGAT
*
43702576 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
43702615 TTAGCCCGGATATAGCAACTCGCACAAATACCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * * *
43702655 TTAGCCCAGATATAATC-ACTAGCATAAATGCCTTTGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * * *
43702695 ATAGCCCGGATATAGCAACTTGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
43702735 TTAGTCCGG
1 TTAGCCCGG
43702744 TTATCATCCG
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:43705444 original size:48 final size:47
Alignment explanation
Indices: 43705369--43705594 Score: 212
Period size: 48 Copynumber: 4.9 Consensus size: 47
43705359 CACATGGTAG
* *
43705369 GATGCCAATGTCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATG-CATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * ** * *
43705417 GATGCCAATGCCATGTTCGAGACATGGTCTTACAT-GGATCGTAGATT
1 GATGCCAATG-CATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
43705464 GATGCCAATGCATGTCCCAGGCATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** ** *
43705511 GATGCCGAT--A-G-CCCA-ACTATTATCTTACATGAAATTACATATC
1 GATGCCAATGCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
43705554 GATGCCAAGGCTATGTCCCAAACATGGTCTTATATGGGATC
1 GATGCCAATGC-ATGTCCCAGACATGGTCTTACATGGGATC
43705595 GTACATAACC
Statistics
Matches: 139, Mismatches: 31, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 22 0.16
47 35 0.25
48 46 0.33
49 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
GATGCCAATGCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:43705495 original size:46 final size:47
Alignment explanation
Indices: 43705369--43705516 Score: 172
Period size: 47 Copynumber: 3.1 Consensus size: 47
43705359 CACATGGTAG
* * * *
43705369 GATGCCAATGTCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGATCACAGATC
* * ** *
43705417 GATGCCAATGCCATGTTCGAGACATGGTCTTACATGGATCGTAGATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGATCACAGATC
* *
43705464 GATGCCAATG-CATGTCCCAGGCATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGATCACAGATC
43705511 GATGCC
1 GATGCC
43705517 GATAGCCCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
46 21 0.25
47 32 0.39
48 30 0.36
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGATCACAGATC
Found at i:43712009 original size:37 final size:37
Alignment explanation
Indices: 43711959--43712032 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
43711949 GGCCCAAAAC
43711959 ATACCTCGGGTGTAGTTCGGGACTAATCCGAGAACTT
1 ATACCTCGGGTGTAGTTCGGGACTAATCCGAGAACTT
43711996 ATACCTCGGGTGTAGTTCGGGACTAATCCGAGAACTT
1 ATACCTCGGGTGTAGTTCGGGACTAATCCGAGAACTT
43712033 TAGATAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (37 bp):
ATACCTCGGGTGTAGTTCGGGACTAATCCGAGAACTT
Found at i:43720228 original size:23 final size:23
Alignment explanation
Indices: 43720173--43720406 Score: 396
Period size: 23 Copynumber: 10.1 Consensus size: 23
43720163 CCTAGCCTCT
*
43720173 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43720196 TTTTAGTAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43720220 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
**
43720243 TTTAATAACAAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43720266 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43720289 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43720312 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43720335 TTTAATAACTGGGGCATAAGCCT
1 TTTAATAACTGGGGCATAAGCCC
*
43720358 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43720381 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43720404 TTT
1 TTT
43720407 TTCACTTCCT
Statistics
Matches: 197, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
23 176 0.89
24 21 0.11
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:43720485 original size:20 final size:20
Alignment explanation
Indices: 43720457--43720523 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
43720447 TTATGATTAC
*
43720457 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43720477 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43720497 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43720517 ACCATGT
1 ATCATGT
43720524 TTATCAAAAT
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:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43728067 original size:31 final size:31
Alignment explanation
Indices: 43728026--43728089 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
43728016 CCTTTTCATA
*
43728026 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
43728057 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
43728088 TT
1 TT
43728090 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:43728393 original size:22 final size:23
Alignment explanation
Indices: 43728304--43728440 Score: 203
Period size: 23 Copynumber: 6.1 Consensus size: 23
43728294 CCTAGCCTCT
*
43728304 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43728327 TTTTAATGACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
43728351 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
43728374 TTTAATAACT-GGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43728396 TTTAATAACT-GGGC--AAG-CC
1 TTTAATAACTGGGGCATAAGCCC
43728415 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
43728438 TTT
1 TTT
43728441 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
19 12 0.11
20 7 0.07
22 28 0.27
23 37 0.35
24 21 0.20
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:43728426 original size:64 final size:69
Alignment explanation
Indices: 43728304--43728440 Score: 212
Period size: 64 Copynumber: 2.0 Consensus size: 69
43728294 CCTAGCCTCT
*
43728304 TTTAATAACTGGGGCAAAAGCCCTTTTAATGACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTTAATAACTGGGGCATA
43728369 AGCCC
65 AGCCC
*
43728374 TTTAATAACT-GGGCACAAGCCC-TTTAATAACT-GGGC-AAG-CCTTTAATAACTGGGGCATAA
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTAATAACTGGGGCATAA
43728434 GCCC
66 GCCC
43728438 TTT
1 TTT
43728441 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
64 28 0.43
65 3 0.05
67 4 0.06
68 9 0.14
69 11 0.17
70 10 0.15
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (69 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTAATAACTGGGGCATAA
GCCC
Found at i:43728518 original size:20 final size:20
Alignment explanation
Indices: 43728490--43728556 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
43728480 TTATGATTAC
*
43728490 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
43728510 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43728530 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43728550 ACCATGT
1 ATCATGT
43728557 TTATCAAAAT
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:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43728620 original size:25 final size:25
Alignment explanation
Indices: 43728592--43728639 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43728582 ATACATAAAC
* * *
43728592 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43728617 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43728640 CATGTTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43734182 original size:92 final size:94
Alignment explanation
Indices: 43734073--43734292 Score: 347
Period size: 94 Copynumber: 2.4 Consensus size: 94
43734063 AATTACCCTA
* * *
43734073 AGTAAGTATGTATTGATAACTTGTTAAGACCAAATGTTGAGCA-AT-TGGTTTATATTCTAAGAG
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAGATATGGATTATATTCTAAGAG
43734136 TTGAAGGAAGAATA-CTGTAAATACTGAGG
66 TTGAAGGAAGAATATC-GTAAATACTGAGG
* *
43734165 AGTAAGTATGTACTGATAAATTGTTGAGACCAAATGTTGAGCAGTTATGGATTATATTCTAAGAG
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAGATATGGATTATATTCTAAGAG
* *
43734230 TTGAGGGAAGAATATCGTAATTACTGAGG
66 TTGAAGGAAGAATATCGTAAATACTGAGG
43734259 AGTAAGTATGTATTGATAAATTGTTGAGACCAAA
1 AGTAAGTATGTATTGATAAATTGTTGAGACCAAA
43734293 GTCGATATTT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
92 40 0.34
93 1 0.01
94 75 0.64
95 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (94 bp):
AGTAAGTATGTATTGATAAATTGTTGAGACCAAATGTTGAGCAGATATGGATTATATTCTAAGAG
TTGAAGGAAGAATATCGTAAATACTGAGG
Found at i:43736460 original size:50 final size:50
Alignment explanation
Indices: 43736352--43736643 Score: 309
Period size: 50 Copynumber: 5.8 Consensus size: 50
43736342 ATTGTGAGGA
* * *** * * *
43736352 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
43736402 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* * * * * *
43736452 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGA-TAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGT
* * * * * *
43736503 CACATGTGTAGTACTAAATGCAAGCTGCTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
43736553 CACGA-GTGTAGTACTAACTGTAGGCTACTACGTGTACCAGATTGATAGGT
1 CAC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
* *
43736603 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
43736644 AAGCTTCGGT
Statistics
Matches: 196, Mismatches: 41, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.02
50 154 0.79
51 38 0.19
52 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
Found at i:43736563 original size:101 final size:100
Alignment explanation
Indices: 43736352--43736643 Score: 277
Period size: 101 Copynumber: 2.9 Consensus size: 100
43736342 ATTGTGAGGA
** * *** * *
43736352 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTA-AG-TCACGTGTGTAGTA
1 CACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGAT--TAATAGATCACATGTGTAGTA
* * * *
43736415 CTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGT
64 CTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGT
* * * * *
43736452 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGA-TAACTTCGATCACATGTGTAGTA
1 CACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTAA--TAGATCACATGTGTAGTA
* * *
43736516 CTAAATGCAAGCTGCTACGTGTATCAGATGGATAAGT
64 CTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGT
* * *
43736553 CACGA-GTGTAGTACTAACTGTAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 CAC-ATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTAATAGATCACATGTGTAGTAC
* * *
43736617 TAAGTGCAGGCTACTATGCGTACCAGA
65 TAAGTGCAAGCTACTACGTGTACCAGA
43736644 AAGCTTCGGT
Statistics
Matches: 156, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
97 2 0.01
100 74 0.47
101 77 0.49
102 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (100 bp):
CACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTAATAGATCACATGTGTAGTACT
AAGTGCAAGCTACTACGTGTACCAGATGGATAAGT
Found at i:43736626 original size:151 final size:151
Alignment explanation
Indices: 43736352--43736640 Score: 452
Period size: 151 Copynumber: 1.9 Consensus size: 151
43736342 ATTGTGAGGA
** * * * * *
43736352 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTAAGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAATGCAAGCTACTACGTGTATAAGATGGATAAGTCACGAGTGTAGTACT
* * *
43736417 AAGTGCAGGCTATTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AACTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
*
43736482 TGTGTACCCGATAACTTCGAT
131 TGCGTACCCGATAACTTCGAT
* *
43736503 CACATGTGTAGTACTAAATGCAAGCTGCTACGTGTATCAGATGGATAAGTCACGAGTGTAGTACT
1 CACATGTGTAGTACTAAATGCAAGCTACTACGTGTATAAGATGGATAAGTCACGAGTGTAGTACT
*
43736568 AACTGTAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
66 AACTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
43736633 TGCGTACC
131 TGCGTACC
43736641 AGAAAGCTTC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 124 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
CACATGTGTAGTACTAAATGCAAGCTACTACGTGTATAAGATGGATAAGTCACGAGTGTAGTACT
AACTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCGATAACTTCGAT
Found at i:43736864 original size:16 final size:16
Alignment explanation
Indices: 43736843--43736874 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43736833 AGAATGGAGT
43736843 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
43736859 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
43736875 TAAAACAATT
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:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:43740611 original size:165 final size:165
Alignment explanation
Indices: 43740341--43740734 Score: 589
Period size: 165 Copynumber: 2.4 Consensus size: 165
43740331 TCTAATACTC
* * * *
43740341 GTTGATCATTA-AAATATTCTTCTTATTGTTTTTTTACCGGTTGTTCTT-CTC-AAAGTTAAGGG
1 GTTGATCTTTATAAATATTCTTCTTA-TGCTTTTTTACCAGTTGTTCTTACTCTAGAGTTAAGGG
* * * * *
43740403 AATAATACATTAATTATCGCGCAATAAGTATGTATTGATAACTTGTTGAGACCAAATGTTGAGCA
65 AATAATACATTAATTACCGCACAATAAGTATGTATTCATAACTTGTTGAGACCAAACGTTGAGAA
*
43740468 ATTGTTGTTTATA-TTCTAAGACATATGTTCCTTCAT
130 ATTGTGGTTTATATTTC-AAGACATATGTTCCTTCAT
* *
43740504 GTTGATCTTTATAAATATTCTTCTTATGCTTTTTTACCAGTTGTTCTTAATCTAGAGTTGAGGGA
1 GTTGATCTTTATAAATATTCTTCTTATGCTTTTTTACCAGTTGTTCTTACTCTAGAGTTAAGGGA
*
43740569 ATAATACCTTAATTACCGCACAATAAGTATGTATTCATAACTTGTTGAGACCAAACGTTGAGAAA
66 ATAATACATTAATTACCGCACAATAAGTATGTATTCATAACTTGTTGAGACCAAACGTTGAGAAA
*
43740634 TTGTGGTTTATATTTCGAGACATATGTTCCTTCAT
131 TTGTGGTTTATATTTCAAGACATATGTTCCTTCAT
* * *
43740669 GTTTATCTTTATAAATATTCTTCTTATACTTTTTTACCAGTTGTTCTTACTCTAGAGCTAAGGGA
1 GTTGATCTTTATAAATATTCTTCTTATGCTTTTTTACCAGTTGTTCTTACTCTAGAGTTAAGGGA
43740734 A
66 A
43740735 AAAGAACGTA
Statistics
Matches: 208, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
163 30 0.14
164 16 0.08
165 159 0.76
166 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (165 bp):
GTTGATCTTTATAAATATTCTTCTTATGCTTTTTTACCAGTTGTTCTTACTCTAGAGTTAAGGGA
ATAATACATTAATTACCGCACAATAAGTATGTATTCATAACTTGTTGAGACCAAACGTTGAGAAA
TTGTGGTTTATATTTCAAGACATATGTTCCTTCAT
Found at i:43741405 original size:164 final size:164
Alignment explanation
Indices: 43740895--43741623 Score: 837
Period size: 164 Copynumber: 4.4 Consensus size: 164
43740885 GCACATTCGG
** * * * * * *
43740895 TCCTTCACATTGATCATTGTAAATATTCTTGTTATATTTTTTACCAATTGTTCTTGCCCCAGGGT
1 TCCTTCATGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCAAGAGT
* * * * * * * *
43740960 TGAGGGAATAATACCA-TACTTACCGTGCGGTACGTATATATTGAAAACTAGTTGAGACTAAATG
66 TGAGGGAATAATA-CATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAGACCAAATG
*
43741024 TTGAGCAATTGTGGTTTATATTCTAAGACATGCGT
130 TTGAGCAATTGTGGTTTATATTCTAAGACATACGT
* * * *
43741059 TCCTTCATGTTGATCATTATAAATATTCTTCTTATATTTTTTTTACTAGTTGTTCTTGCTCTAGA
1 TCCTTCATGTTGATCATTATAAATATTCTTC-T-TATGTTTTTTACCAGTTGTTCTTGCCCAAGA
43741124 GTTGAGGGAATAATA-ATTTAATTACA--GC-GT-AGTATGTATTGATAACTTGTTGAGACCAAA
64 GTTGAGGGAATAATACA-TTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAGACCAAA
* ** *
43741184 TGTTGAGAAATTGCAGTTTATATTCTAAGACATACAT
128 TGTTGAGCAATTGTGGTTTATATTCTAAGACATACGT
* * *
43741221 TCTTTCACT-TTAACCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCAAGAG
1 TCCTTCA-TGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCAAGAG
** * *
43741285 TTGAGGGAATAATACATTAATTACAGCATGGTAAGTATGTATTGATAAGTTCTTGAGACCAAATG
65 TTGAGGGAATAATACATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAGACCAAATG
* * *
43741350 TTGAGCAATAGTGGTTTATATTCTAAGATATATGT
130 TTGAGCAATTGTGGTTTATATTCTAAGACATACGT
* * *
43741385 TCCTTCATGTTGATCATTATAAATATTCTTATTATGTTTTTTACCAGTTGTTTTTAACCTCCAA-
1 TCCTTCATGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTT--GC-CCAAG
* * * *
43741449 AGTTGAGGAAATAATACCTTAATTACTGCGCGGTAAGTATG-ATTGATAACTTGTTAAGACCAAA
63 AGTTGAGGGAATAATACATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAGACCAAA
* * * *
43741513 TGTTGAGCAATTGTTGTTTATGTTCCAAAACATACGT
128 TGTTGAGCAATTGTGGTTTATATTCTAAGACATACGT
* * * * * *
43741550 TCCTTCATGTTGATCTTTATAAATATTCTTCTTATGTTTTTTTACCAATTCTTATTGCTCTAGAG
1 TCCTTCATGTTGATCATTATAAATATTCTTCTTATG-TTTTTTACCAGTTGTTCTTGCCCAAGAG
*
43741615 TTGATGGAA
65 TTGAGGGAA
43741624 GAAGAACATA
Statistics
Matches: 478, Mismatches: 71, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
160 51 0.11
161 2 0.00
162 83 0.17
163 8 0.02
164 146 0.31
165 85 0.18
166 99 0.21
167 4 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (164 bp):
TCCTTCATGTTGATCATTATAAATATTCTTCTTATGTTTTTTACCAGTTGTTCTTGCCCAAGAGT
TGAGGGAATAATACATTAATTACAGCGCGGTAAGTATGTATTGATAACTTGTTGAGACCAAATGT
TGAGCAATTGTGGTTTATATTCTAAGACATACGT
Found at i:43743156 original size:163 final size:163
Alignment explanation
Indices: 43742490--43743239 Score: 663
Period size: 163 Copynumber: 4.6 Consensus size: 163
43742480 ATTACCCGAG
* * * * * *
43742490 GTTGAGACCAAATG-TGGGTAAATTTTGGTTTATATTACGAGGCATATGTTTCTTTATGTTGATC
1 GTTGAGACCAAATGTTGAG-CAATTGTGGTTTATATTTCGAGACATACGTTTCTTTATGTTGATC
* * * * ** * * * * *
43742554 ATTATAAATCTTCTTCTAATTCTTTTTTGCCAATTATTTTCACTCAAGTGTTGTGAGAAGGATAA
65 ATTATAAATCTTCTTCTTA-T-TTTTTTACCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAA
* * * * * *
43742619 CGTAAGTACTATGCGATAAGTATGCATTGATGACTT
128 AGTAATTAATCTGCGGTAAGTATGCATTGATAACTT
* * * * *
43742655 ATTGAGACCAAATGTTAAGCAATTGTGGTTTATATTTCGAGACAT--GTTCCATTATATTGATCA
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTCGAGACATACGTTTCTTTATGTTGATCA
* * * * * * * * *
43742718 TTATAAATCTTCTACTAATGTTTTTTGCTAGATCTTCTTGCTCCAGAGTTGAGGCAAGAAGAAAG
66 TTATAAATCTTCTTCTTAT-TTTTTTACCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAG
* *
43742783 TAATTAATCCGGGGTAAGTATGCATTGATAACTT
130 TAATTAATCTGCGGTAAGTATGCATTGATAACTT
* * * * * *
43742817 GTTGAGACCAAATATTGAGCAAATGTGGTTTATA-TTCTGAGACATACATTTCTTCATATTGATA
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTC-GAGACATACGTTTCTTTATGTTGATC
* * * * *
43742881 AGTATAAATCTTCTTCTTATGTTTTTTTACTAGTTGTTCTTT-CTCTAGAGTTGAGGGAATAA-T
65 ATTATAAATCTTCTTCTTA--TTTTTTTACCAGTTGTT-TTTGCTCAAGAGTTGAGGGAAGAAGA
** *** * *
43742944 ACCTGAATTACGGTGCGGTAAGTATGTATAGATAACTT
127 AAGT-AATTAATCTGCGGTAAGTATGCATTGATAACTT
* *
43742982 GTTGAGACCAAATGTTGAGTAATTGTGATTTATATTTCGAGACATACG-TTCTTTTATGTTGATC
1 GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTCGAGACATACGTTTC-TTTATGTTGATC
* *
43743046 TTTATAAATATTCTTCTTATTTTTTTACCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAG
65 ATTATAAATCTTCTTCTTATTTTTTTACCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAG
* * *
43743111 TAATTAATCTGGGGTAAGTCTACATTGATAACTT
130 TAATTAATCTGCGGTAAGTATGCATTGATAACTT
* * * * * * *
43743145 GTTAAGACCAAATGTTGAAAG-AA-TGTGATTTATATTCCGAGACACACGTTTATTCATGTTGGT
1 GTTGAGACCAAATGTTG--AGCAATTGTGGTTTATATTTCGAGACATACGTTTCTTTATGTTGAT
* *
43743208 CATTGTAAATCTTCTTCTTGTTTTGTTTACCA
64 CATTATAAATCTTCTTCTTATTTT-TTTACCA
43743240 ATAAATCTTT
Statistics
Matches: 471, Mismatches: 98, Indels: 33
0.78 0.16 0.05
Matches are distributed among these distances:
161 3 0.01
162 98 0.21
163 159 0.34
164 46 0.10
165 157 0.33
166 8 0.02
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (163 bp):
GTTGAGACCAAATGTTGAGCAATTGTGGTTTATATTTCGAGACATACGTTTCTTTATGTTGATCA
TTATAAATCTTCTTCTTATTTTTTTACCAGTTGTTTTTGCTCAAGAGTTGAGGGAAGAAGAAAGT
AATTAATCTGCGGTAAGTATGCATTGATAACTT
Found at i:43743179 original size:328 final size:327
Alignment explanation
Indices: 43742630--43743226 Score: 811
Period size: 328 Copynumber: 1.8 Consensus size: 327
43742620 GTAAGTACTA
* * *
43742630 TGCGATAAGTATGCATTGATGACTTATTGAGACCAAATGTTAAGCAATTGTGGTTTATATTTCGA
1 TGCGATAAGTATGCATAGATAACTTATTGAGACCAAATGTTAAGCAATTGTGATTTATATTTCGA
* * *
43742695 GACATGTTCCATTATATTGATCATTATAAATCTTCTACTAATGTTTTTTGCTAGATCTTCTTGCT
66 GACATGTTCCATTATATTGATCATTATAAATATTCTACTAATGTTTTTTACCAGATCTTCTTGCT
* * *
43742760 CCAGAGTTGAGGCAAGAAGAAAGTAATTAATCCGGGGTAAGTATGCATTGATAACTTGTTGAGAC
131 CAAGAGTTGAGGCAAGAAGAAAGTAATTAATCCGGGGTAAGTATACATTGATAACTTGTTAAGAC
* * * * *
43742825 CAAATATTGAGCAAATGTGGTTTATATTCTGAGACATACATTTCTTCATATTGATAAGTATAAAT
196 CAAATATTGAGAAAATGTGATTTATATTCCGAGACACACATTTATTCATATTGATAAGTATAAAT
43742890 CTTCTTCTTATGTTTTTTTACTAGTTGTTCTTTCTCTAGAGTTGAGGGAATAATACCTGAATTAC
261 CTTCTTCTTATGTTTTTTTACTAGTTGTTCTTTCTCTAGAGTTGAGGGAATAATACCTGAATTAC
43742955 GG
326 GG
* * * * *
43742957 TGCGGTAAGTATGTATAGATAACTTGTTGAGACCAAATGTTGAGTAATTGTGATTTATATTTCGA
1 TGCGATAAGTATGCATAGATAACTTATTGAGACCAAATGTTAAGCAATTGTGATTTATATTTCGA
** * * * * * * *
43743022 GACATACGTTCTTTTATGTTGATCTTTATAAATATTCTTCTTAT-TTTTTTACCAGTTGTTTTTG
66 GACAT--GTTCCATTATATTGATCATTATAAATATTCTACTAATGTTTTTTACCAGATCTTCTTG
* * *
43743086 CTCAAGAGTTGAGGGAAGAAGAAAGTAATTAATCTGGGGTAAGTCTACATTGATAACTTGTTAAG
129 CTCAAGAGTTGAGGCAAGAAGAAAGTAATTAATCCGGGGTAAGTATACATTGATAACTTGTTAAG
* * * * * * *
43743151 ACCAAATGTTGA-AAGAATGTGATTTATATTCCGAGACACACGTTTATTCATGTTGGTCATTGTA
194 ACCAAATATTGAGAA-AATGTGATTTATATTCCGAGACACACATTTATTCATATTGATAAGTATA
43743215 AATCTTCTTCTT
258 AATCTTCTTCTT
43743227 GTTTTGTTTA
Statistics
Matches: 229, Mismatches: 38, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
327 63 0.28
328 136 0.59
329 30 0.13
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (327 bp):
TGCGATAAGTATGCATAGATAACTTATTGAGACCAAATGTTAAGCAATTGTGATTTATATTTCGA
GACATGTTCCATTATATTGATCATTATAAATATTCTACTAATGTTTTTTACCAGATCTTCTTGCT
CAAGAGTTGAGGCAAGAAGAAAGTAATTAATCCGGGGTAAGTATACATTGATAACTTGTTAAGAC
CAAATATTGAGAAAATGTGATTTATATTCCGAGACACACATTTATTCATATTGATAAGTATAAAT
CTTCTTCTTATGTTTTTTTACTAGTTGTTCTTTCTCTAGAGTTGAGGGAATAATACCTGAATTAC
GG
Found at i:43743277 original size:28 final size:28
Alignment explanation
Indices: 43743212--43743277 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
43743202 GTTGGTCATT
*
43743212 GTAAATCTTCTTCTTGTTTTGTTTACCA
1 GTAAATCTTTTTCTTGTTTTGTTTACCA
*
43743240 ATAAATCTTTTTCTTGTTTTGTTTACCA
1 GTAAATCTTTTTCTTGTTTTGTTTACCA
*
43743268 GTAATTCTTT
1 GTAAATCTTT
43743278 CTCCAGAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.56
Consensus pattern (28 bp):
GTAAATCTTTTTCTTGTTTTGTTTACCA
Found at i:43744867 original size:31 final size:31
Alignment explanation
Indices: 43744829--43744904 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
43744819 CGTATGTGAG
**
43744829 AGGCCGTGTGGGCCACACGAGCTAGCCATTT
1 AGGCCGTGTGGGCCACACGAGCTAGCCATCC
*
43744860 AGGCCGTGTGGGCCACCCGAGCTAGCCATCC
1 AGGCCGTGTGGGCCACACGAGCTAGCCATCC
43744891 AGGCCGTGTGGGCC
1 AGGCCGTGTGGGCC
43744905 CAAAATTCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.16, C:0.33, G:0.36, T:0.16
Consensus pattern (31 bp):
AGGCCGTGTGGGCCACACGAGCTAGCCATCC
Found at i:43747121 original size:20 final size:22
Alignment explanation
Indices: 43747075--43747122 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
43747065 TTTAATAATC
*
43747075 CCAAACCCTTAACCCAAAATAT
1 CCAAACCCTAAACCCAAAATAT
*
43747097 -AAAACCCTAAACCC-AAAT-T
1 CCAAACCCTAAACCCAAAATAT
43747116 CCAAACC
1 CCAAACC
43747123 TATAACTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.05
20 9 0.41
21 12 0.55
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.15
Consensus pattern (22 bp):
CCAAACCCTAAACCCAAAATAT
Found at i:43747784 original size:6 final size:6
Alignment explanation
Indices: 43747773--43747804 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
43747763 ATTTTAACCA
43747773 ATAATT ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT AT
43747805 CACACCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:43747985 original size:43 final size:44
Alignment explanation
Indices: 43747899--43747986 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
43747889 TATAAAAAAA
* *
43747899 TAAATTATAATTATTTTTAAATATGTAATTATCACAACTTCTAT
1 TAAATAATAATTATTTTTAAATATATAATTATCACAACTTCTAT
* *
43747943 TAAATAATAATTATTTTTAAAT-TATAATTATCATAATTTCTAT
1 TAAATAATAATTATTTTTAAATATATAATTATCACAACTTCTAT
43747986 T
1 T
43747987 TTACGTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 19 0.47
44 21 0.52
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (44 bp):
TAAATAATAATTATTTTTAAATATATAATTATCACAACTTCTAT
Found at i:43750785 original size:20 final size:20
Alignment explanation
Indices: 43750760--43750802 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43750750 CAAATTTAGA
43750760 TAATTTTTAAGGAAAATATC
1 TAATTTTTAAGGAAAATATC
43750780 TAATTTTTAAGGAAAATATC
1 TAATTTTTAAGGAAAATATC
43750800 TAA
1 TAA
43750803 ACACTTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (20 bp):
TAATTTTTAAGGAAAATATC
Found at i:43753073 original size:19 final size:18
Alignment explanation
Indices: 43753051--43753099 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
43753041 AAACTTAAAA
*
43753051 ATATATTTTTAAATTTTGT
1 ATATATTTTTAAAATTT-T
43753070 ATATATTTTTAAAATTTT
1 ATATATTTTTAAAATTTT
43753088 -TA-ATTTTTAAAA
1 ATATATTTTTAAAA
43753100 ATAATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 10 0.34
17 2 0.07
18 1 0.03
19 16 0.55
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATATATTTTTAAAATTTT
Found at i:43753079 original size:20 final size:19
Alignment explanation
Indices: 43753051--43753099 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
43753041 AAACTTAAAA
*
43753051 ATATATTTTTAAATTTTGT
1 ATATATTTTAAAATTTTGT
43753070 ATATATTTTTAAAATTTT-T
1 ATATA-TTTTAAAATTTTGT
43753089 A-AT-TTTTAAAA
1 ATATATTTTAAAA
43753100 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.29
18 2 0.07
19 7 0.25
20 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATATTTTAAAATTTTGT
Found at i:43755710 original size:24 final size:24
Alignment explanation
Indices: 43755689--43755762 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
43755679 GACAAAGACA
*
43755689 AAGACAAGGGTGGAGATGAAGATG
1 AAGACAAGGGTCGAGATGAAGATG
*
43755713 AAGACGAA-GGTTGAGATGAAGATG
1 AAGAC-AAGGGTCGAGATGAAGATG
* *
43755737 AAGACGAGGGTCGAGATGAAAATG
1 AAGACAAGGGTCGAGATGAAGATG
43755761 AA
1 AA
43755763 TATGGGAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.93
25 2 0.05
ACGTcount: A:0.43, C:0.05, G:0.38, T:0.14
Consensus pattern (24 bp):
AAGACAAGGGTCGAGATGAAGATG
Found at i:43757802 original size:46 final size:46
Alignment explanation
Indices: 43757749--43757923 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43757739 TATTTGGGCA
43757749 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43757795 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43757839 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43757887 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43757924 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 7 0.06
46 76 0.70
47 7 0.06
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43757902 original size:92 final size:93
Alignment explanation
Indices: 43757745--43757916 Score: 310
Period size: 92 Copynumber: 1.9 Consensus size: 93
43757735 GGGATATTTG
* *
43757745 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43757810 TTGAGT-CGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
43757837 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43757902 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
43757917 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 68 0.89
93 8 0.11
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:43762023 original size:49 final size:49
Alignment explanation
Indices: 43761860--43762315 Score: 670
Period size: 49 Copynumber: 9.4 Consensus size: 49
43761850 TTATCACCTT
* * * * * *
43761860 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
43761907 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTGTCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
43761954 TATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
43762003 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
43762052 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
43762101 TATACACTTTCACATTCATCACTTCGGCCATCAGGCCTTGTCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
43762150 TATACCCTTTCACATTCATCACTTCGG-CATCAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* * *
43762198 TATACCCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATG
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
43762247 TATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
43762296 TATACACATTCACATTCATC
1 TATACACTTTCACATTCATC
43762316 GCGTTAAATC
Statistics
Matches: 383, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 82 0.21
48 47 0.12
49 254 0.66
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:43762227 original size:195 final size:194
Alignment explanation
Indices: 43761860--43762315 Score: 699
Period size: 195 Copynumber: 2.4 Consensus size: 194
43761850 TTATCACCTT
* * * *
43761860 TATACACTTTCACATCCATCACGTT-GGCCACTCGGCCCTATCAC--ATATATACACTTTCACAT
1 TATACACTTTCACATTCATCAC-TTCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
*
43761922 TCATCACATTGGCCATTCGGCCTTGTCACATATATACACCTTCACATTCATCACATCGGCCATTA
65 TCATCACATTGGCCATTCGGCCTTGTCACATATATACACCTTCACATTCATCACATCGGCCATCA
43761987 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
130 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
43762052 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
* *
43762117 CATCAC-TTCGGCCA-TCAGGCCTTGTCACATATATATACCCTTTCACATTCATCACTTCGG-CA
66 CATCACATT-GGCCATTC-GGCCTTGTCACATATATACA-CC-TTCACATTCATCACATCGGCCA
* *
43762179 TCAGGCCTTATCACATATATATACCCTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACAT
127 TCAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
43762244 ATG
192 ATA
* * * *
43762247 TATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATATACACATTCACATT
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
43762312 CATC
66 CATC
43762316 GCGTTAAATC
Statistics
Matches: 243, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
191 2 0.01
192 37 0.15
193 4 0.02
194 49 0.20
195 133 0.55
196 18 0.07
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (194 bp):
TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATTGGCCATTCGGCCTTGTCACATATATACACCTTCACATTCATCACATCGGCCATCAG
GCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:43766550 original size:141 final size:141
Alignment explanation
Indices: 43766227--43766794 Score: 736
Period size: 141 Copynumber: 4.0 Consensus size: 141
43766217 CAAAACAATG
* * * *
43766227 CTAAGACGACACTTATGAGGCGACACTTTCCTAAGTGTTGAGATAGACTGGCCAACATACGCTTT
1 CTAAGACGACACTTTTGAGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
* * * *
43766292 GG-TAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAAGCAACACTTAAATAAGAGTTGTC-
66 GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
43766355 TTTGTCTAGTC
131 TTTGTCTAGTC
* * *
43766366 CTAAGACGACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACGCTTT
1 CTAAGACGACACTTTTGAGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
* * * * *
43766431 GTCGAACTCTTTGTATAAGAGTTGGGATATGTATGCCTAAGGCAACACTTGAATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
*
43766496 TTTGTGTAGTC
131 TTTGTCTAGTC
* * ** *
43766507 CTAAGACGAAACTTTTGTGGCGACACTTTTGTAAGTGTTGGGATAGATTTGCCAACATCCGCTTT
1 CTAAGACGACACTTTTGAGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
** * * * * *
43766572 GGCCAACTCTTTGCGTAAGGGTTGAGATATGTATGCCTAAAACAACGCTTAAATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
43766637 TTTGTCTAGTC
131 TTTGTCTAGTC
* *
43766648 CTAAGACGACAGTTTTG-GGACTG-CACTTTCCTAAGTGTTGGGATAGATTTGTCAACATACGCT
1 CTAAGACGACACTTTTGAGG-C-GACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCT
* * *
43766711 TTGGCCAACTCTTTGTATAA-AGGTCGAGG-TATGCATGCCTAAGGCAACGCTTAAATAAGAGTT
64 TTGGCCAACTCTTTGTATAAGA-GTTG-GGATATGCATGCCTAAAGCAACACTTAAATAAGAGTT
*
43766774 GG-TTTTGTCCAGTC
127 GGCTTTTGTCTAGTC
43766788 CTAAGAC
1 CTAAGAC
43766795 AATATTTTCC
Statistics
Matches: 374, Mismatches: 49, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
139 60 0.16
140 74 0.20
141 238 0.64
142 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (141 bp):
CTAAGACGACACTTTTGAGGCGACACTTTCCTAAGTGTTGGGATAGATTTGCCAACATACGCTTT
GGCCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCT
TTTGTCTAGTC
Found at i:43766707 original size:282 final size:279
Alignment explanation
Indices: 43766227--43767019 Score: 831
Period size: 282 Copynumber: 2.9 Consensus size: 279
43766217 CAAAACAATG
*
43766227 CTAAGACGACACTTATGAGGCGACACTTTCCTAAGTGTTGAGATAGACTGGCCAACATACGCTTT
1 CTAAGACGAAACTTATGAGGCGACACTTTCCTAAGTGTTGAGATAGACTGGCCAACATACGCTTT
* * * * *
43766292 GGTAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAAGCAACACTTAAATAAGAGTTGTCTT
66 GGCAACTCTTTGCATAAGGGTTGAGATATGCATGACTAAAACAACACTTAAATAAGAGTTGGCTT
43766357 TGTCTAGTCCTAAGACGACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGAGTTGCGAAC
131 TGTCTAGTCCTAAGACGACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGAGTTGCGAAC
* * * * *
43766422 ATACGCTTTGTCGAACTCTTTGTAT-AAGAGTTG-GGATATGTATGCCTAAGGCAACACTTGAAT
196 ATACGCTTTGGCCAACTCTTTGTATAAAG-GTCGAGG-TATGCATGCCTAAGGCAACACTTAAAT
**
43766485 AAGAGTTGGCTTTTGTGTAGTC
259 AAGAGTTGG-TTTTGTCCAGTC
* * ** * * * *
43766507 CTAAGACGAAACTTTTGTGGCGACACTTTTGTAAGTGTTGGGATAGATTTGCCAACATCCGCTTT
1 CTAAGACGAAACTTATGAGGCGACACTTTCCTAAGTGTTGAGATAGACTGGCCAACATACGCTTT
* * * *
43766572 GGCCAACTCTTTGCGTAAGGGTTGAGATATGTATGCCTAAAACAACGCTTAAATAAGAGTTGGCT
66 GG-CAACTCTTTGCATAAGGGTTGAGATATGCATGACTAAAACAACACTTAAATAAGAGTTGGC-
* ** *
43766637 TTTGTCTAGTCCTAAGACGACAGTTTTG-GGACTGCACTTTCCTAAGTGTTGGGATAGATTTGTC
129 TTTGTCTAGTCCTAAGACGACACTTTTGAGG-CAACACTTTCCTAAGTGTTGGGATAGAGTTG-C
*
43766701 -AACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAGGTATGCATGCCTAAGGCAACGCTTAA
192 GAACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAGGTATGCATGCCTAAGGCAACACTTAA
43766765 ATAAGAGTTGGTTTTGTCCAGTC
257 ATAAGAGTTGGTTTTGTCCAGTC
* * * * *
43766788 CTAAGAC--AA--TAT----------TTTCCTAACTGTTGGGACAGACTTGCCGACATACGCTTT
1 CTAAGACGAAACTTATGAGGCGACACTTTCCTAAGTGTTGAGATAGACTGGCCAACATACGCTTT
* * * *** * *
43766839 GGTCAACTTTTTGTATAAGGGTTGGGATATGCAT-ACTTAAGGTAACGCTTAAATAAGAGTCGGC
66 GG-CAACTCTTTGCATAAGGGTTGAGATATGCATGAC-TAAAACAACACTTAAATAAGAGTTGGC
* * * * * * *
43766903 TTTGTCCA-ACACTATGACTACACTTTTG-GGCCGACACTTTCCCAAGTGTTGGGATAGACTTGC
129 TTTGTCTAGTC-CTAAGACGACACTTTTGAGG-CAACACTTTCCTAAGTGTTGGGATAGAGTTGC
* * * *
43766966 GAACATACACTTTGGCCAACTATTTGTAT-AAGGTTG-GTATATGCATGCCTAAGG
192 GAACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAG-GTATGCATGCCTAAGG
43767020 GGTTTAGGAT
Statistics
Matches: 440, Mismatches: 63, Indels: 35
0.82 0.12 0.07
Matches are distributed among these distances:
264 1 0.00
265 23 0.05
266 77 0.17
267 83 0.19
277 2 0.00
279 2 0.00
280 58 0.13
281 71 0.16
282 117 0.27
283 6 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (279 bp):
CTAAGACGAAACTTATGAGGCGACACTTTCCTAAGTGTTGAGATAGACTGGCCAACATACGCTTT
GGCAACTCTTTGCATAAGGGTTGAGATATGCATGACTAAAACAACACTTAAATAAGAGTTGGCTT
TGTCTAGTCCTAAGACGACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGAGTTGCGAAC
ATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAGGTATGCATGCCTAAGGCAACACTTAAATAA
GAGTTGGTTTTGTCCAGTC
Found at i:43766907 original size:126 final size:126
Alignment explanation
Indices: 43766674--43766910 Score: 332
Period size: 126 Copynumber: 1.9 Consensus size: 126
43766664 GGGACTGCAC
* * * *
43766674 TTTCCTAAGTGTTGGGATAGATTTGTCAACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAG
1 TTTCCTAACTGTTGGGACAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAG
* * *
43766739 GTATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTCCAGTCCTAAGACAATAT
66 GTATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGACAATAT
* * * * *
43766800 TTTCCTAACTGTTGGGACAGACTTGCCGACATACGCTTTGGTCAACTTTTTGTATAAGGGTTG-G
1 TTTCCTAACTGTTGGGACAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAG
* *
43766864 GATATGCATACTTAAGGTAACGCTTAAATAAGAGTCGGCTTTGTCCA
66 G-TATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
43766911 ACACTATGAC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
125 2 0.02
126 94 0.98
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (126 bp):
TTTCCTAACTGTTGGGACAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAAGGTCGAG
GTATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGACAATAT
Found at i:43767053 original size:7 final size:7
Alignment explanation
Indices: 43767019--43767117 Score: 67
Period size: 7 Copynumber: 14.0 Consensus size: 7
43767009 CATGCCTAAG
43767019 GGGTTTA
1 GGGTTTA
*
43767026 GGATTTTA
1 GG-GTTTA
43767034 GGGTTTTA
1 GGG-TTTA
*
43767042 AGGTTTA
1 GGGTTTA
*
43767049 TGGTTTA
1 GGGTTTA
43767056 GGGTTTA
1 GGGTTTA
43767063 GGGTTTA
1 GGGTTTA
* *
43767070 -AGATTA
1 GGGTTTA
*
43767076 GTGTTTA
1 GGGTTTA
43767083 GGGTTTCA
1 GGGTTT-A
43767091 -GGTTTA
1 GGGTTTA
*
43767097 GTGTTTA
1 GGGTTTA
* *
43767104 TGATTTA
1 GGGTTTA
*
43767111 AGGTTTA
1 GGGTTTA
43767118 AGAATTAGTT
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
6 5 0.07
7 53 0.75
8 13 0.18
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:43767067 original size:21 final size:20
Alignment explanation
Indices: 43767019--43767117 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 20
43767009 CATGCCTAAG
43767019 GGGTTTAGGATTTTAGGGTTTTA
1 GGGTTTAGG--TTTAGGG-TTTA
*
43767042 AGGTTTATGGTTTAGGGTTTA
1 GGGTTTA-GGTTTAGGGTTTA
* * *
43767063 GGGTTTAAGATTAGTGTTTA
1 GGGTTTAGGTTTAGGGTTTA
*
43767083 GGGTTTCAGGTTTAGTGTTTA
1 GGGTTT-AGGTTTAGGGTTTA
* *
43767104 TGATTTAAGGTTTA
1 GGGTTT-AGGTTTA
43767118 AGAATTAGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 16 0.25
21 33 0.52
22 7 0.11
23 6 0.09
24 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.47
Consensus pattern (20 bp):
GGGTTTAGGTTTAGGGTTTA
Found at i:43767081 original size:20 final size:21
Alignment explanation
Indices: 43767053--43767103 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
43767043 GGTTTATGGT
*
43767053 TTAGGGTTTAGGGTTT-AAGA
1 TTAGTGTTTAGGGTTTCAAGA
* *
43767073 TTAGTGTTTAGGGTTTCAGGT
1 TTAGTGTTTAGGGTTTCAAGA
43767094 TTAGTGTTTA
1 TTAGTGTTTA
43767104 TGATTTAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (21 bp):
TTAGTGTTTAGGGTTTCAAGA
Found at i:43767088 original size:34 final size:34
Alignment explanation
Indices: 43767044--43767108 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
43767034 GGGTTTTAAG
*
43767044 GTTTATGGTTT-AGGGTTTAGGGTTTAAGATTAGT
1 GTTTAGGGTTTCA-GGTTTAGGGTTTAAGATTAGT
* *
43767078 GTTTAGGGTTTCAGGTTTAGTGTTTATGATT
1 GTTTAGGGTTTCAGGTTTAGGGTTTAAGATT
43767109 TAAGGTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (34 bp):
GTTTAGGGTTTCAGGTTTAGGGTTTAAGATTAGT
Found at i:43777155 original size:18 final size:19
Alignment explanation
Indices: 43777127--43777167 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
43777117 GTTTATTACC
* *
43777127 TTCTGCTGGTATTTATTCT
1 TTCTGCTGGTACTTATTAT
43777146 TTCT-CTGGTACTTATTAT
1 TTCTGCTGGTACTTATTAT
43777164 TTCT
1 TTCT
43777168 TTGATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.59
Consensus pattern (19 bp):
TTCTGCTGGTACTTATTAT
Found at i:43781129 original size:35 final size:35
Alignment explanation
Indices: 43781077--43781784 Score: 193
Period size: 35 Copynumber: 19.4 Consensus size: 35
43781067 GACAAAGATC
*
43781077 TATCCCAACCTTTTTAAGTTTGCCTTGGACGGGTT
1 TATCCCAACCTTTTTAAGTTTGCCTTAGACGGGTT
*
43781112 TA-CCCTAACCTTTTTAAGGTTGCCTTAGACGGGTT
1 TATCCC-AACCTTTTTAAGTTTGCCTTAGACGGGTT
* * * **
43781147 TATCCCAACTTCTTTTAAG-TTGTCTTCGAAAAGGTT
1 TATCCCAACCT-TTTTAAGTTTGCCTTAG-ACGGGTT
* * * * * * *
43781183 TATTCCAACTTTTTTAGGGTTG-TTGTAAATGGGTT
1 TATCCCAACCTTTTTAAGTTTGCCT-TAGACGGGTT
* * * * * * *
43781218 TATCTCAACATTTTTAACATTT-TCTTAAACAGGTC
1 TATCCCAACCTTTTTAA-GTTTGCCTTAGACGGGTT
* * * *
43781253 AATCCCAACCTTTTCTAAAAGTTT-CCTTAGACAAGATC
1 TATCCCAACCTTTT-T--AAGTTTGCCTTAGAC-GGGTT
* * ** *
43781291 TATCCCAACCTTTTTAA-TGTTACCTTAGATGAATC
1 TATCCCAACCTTTTTAAGT-TTGCCTTAGACGGGTT
* ** *
43781326 TATCCCAACCTTTTTAACG-TTGCATTAGACAAGTC
1 TATCCCAACCTTTTTAA-GTTTGCCTTAGACGGGTT
* * * *
43781361 TATCTCAACCTTTTTTTAAGGTTGCCTTTA-ACAAGGTC
1 TATCCCAACC--TTTTTAAGTTTGCC-TTAGAC-GGGTT
* * ** *
43781399 TATCCTAACATTTTTAAAAAG-TTGCCTTAGATAGGTC
1 TATCCCAACCTTTTT---AAGTTTGCCTTAGACGGGTT
* * ** *
43781436 TATCCCAACATTTTTTAAAGGTTGCCTTAGATAAGGTC
1 TATCCCAAC-CTTTTT-AAGTTTGCCTTAGA-CGGGTT
* *** *
43781474 TATCCCAA-CTATTTTAAAAGGTTGCCTTAGATAAAGTC
1 TATCCCAACCT-TTTT--AAGTTTGCCTTAGA-CGGGTT
* * *
43781512 TATCCCACCCTTTTTTAAAAG-TTGCCTTAGACAAGGTC
1 TATCCCAACC-TTTTT--AAGTTTGCCTTAGAC-GGGTT
* * * * * *
43781550 TATACCAATCTATTTAAGGTTACCTTAGAC-GATT
1 TATCCCAACCTTTTTAAGTTTGCCTTAGACGGGTT
* * *
43781584 CTATCCCAATCTTTTTTAAAGGTTG-CTTAGACAAGGTT
1 -TATCCCAA-CCTTTTT-AAGTTTGCCTTAGAC-GGGTT
** * * ** *
43781622 TATCGTAACTTTTTTTAAATGTTGCCTTAGATAAGGTC
1 TATCCCAAC-CTTTTTAAGT-TTGCCTTAGA-CGGGTT
* * ** * *
43781660 TATCCCAACTTTTTTAAAAGGTTATCTTAGACTGGTC
1 TATCCCAACCTTTTT--AAGTTTGCCTTAGACGGGTT
* * *
43781697 TATCCCAACCTTTTTAAGGTTGTCTTAGACGGGTC
1 TATCCCAACCTTTTTAAGTTTGCCTTAGACGGGTT
* *
43781732 TATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTT
1 TATCCCAACCTTTTT--AA-GTTTGCCTTAGAC-GGGTT
43781770 TATCCCAACCTTTTT
1 TATCCCAACCTTTTT
43781785 TAATGGTTGG
Statistics
Matches: 534, Mismatches: 90, Indels: 95
0.74 0.13 0.13
Matches are distributed among these distances:
34 6 0.01
35 172 0.32
36 75 0.14
37 107 0.20
38 158 0.30
39 15 0.03
40 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (35 bp):
TATCCCAACCTTTTTAAGTTTGCCTTAGACGGGTT
Done.