Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 284 of 311
Found at i:92820701 original size:31 final size:31
Alignment explanation
Indices: 92820663--92820721 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
92820653 ATGGCAAGTA
92820663 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
92820694 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
92820722 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:92820729 original size:46 final size:46
Alignment explanation
Indices: 92820676--92820767 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
92820666 AGTGGTAGCT
* *
92820676 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
* * *
92820722 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
92820768 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCGGCTACCTGATCA
Found at i:92820771 original size:31 final size:31
Alignment explanation
Indices: 92820723--92820791 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
92820713 ACCTGATCAT
* * *
92820723 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
92820754 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
92820785 CGGCTAC
1 CGGCTAC
92820792 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:92825632 original size:99 final size:99
Alignment explanation
Indices: 92825516--92825790 Score: 453
Period size: 99 Copynumber: 2.8 Consensus size: 99
92825506 CCATGGCAAC
92825516 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAATGAAAGTGATAAGTGATAG
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAATGAAAGTGATAAGTGATAG
92825581 CTTCGGCTACACTTATCTGATCAAGGACAAATGA
66 CTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
92825615 AAGTGATAAGTGATAGCTTCGG-TACACTTATTTGATCAAGGATAAGTGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAA-TGAAAGTGATAAGTGATA
92825679 GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
65 GCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
92825714 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGCAAGTAAAAAGTGGT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAC-AAT-GAAAGTGATAAGTGAT
92825779 AGCTTCGGCTAC
64 AGCTTCGGCTAC
92825791 CTGATCAATG
Statistics
Matches: 163, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
98 21 0.13
99 96 0.59
100 20 0.12
101 26 0.16
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (99 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAATGAAAGTGATAAGTGATAG
CTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:92825635 original size:50 final size:50
Alignment explanation
Indices: 92825516--92825790 Score: 455
Period size: 50 Copynumber: 5.5 Consensus size: 50
92825506 CCATGGCAAC
92825516 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAC-AATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
92825565 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
92825615 AAGTGATAAGTGATAGCTTCGG-TACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
92825664 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
92825714 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
92825765 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
92825791 CTGATCAATG
Statistics
Matches: 211, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
49 90 0.43
50 98 0.46
51 23 0.11
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:92825808 original size:31 final size:31
Alignment explanation
Indices: 92825770--92825828 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
92825760 ATGGCAAGTA
*
92825770 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAATG
92825801 AAAAGTGGTAGCTTCAGCTACCTGATCA
1 AAAAGTGGTAGCTTCAGCTACCTGATCA
92825829 TCGGCTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCAGCTACCTGATCAATG
Found at i:92825836 original size:46 final size:46
Alignment explanation
Indices: 92825783--92825874 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
92825773 AGTGGTAGCT
* *
92825783 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCAGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCAGCTACCTGATCA
* * * *
92825829 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTCCAGCTACCTGATCA
92825875 GTGAATAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTCCAGCTACCTGATCA
Found at i:92825878 original size:31 final size:31
Alignment explanation
Indices: 92825830--92825898 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
92825820 ACCTGATCAT
* * *
92825830 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
92825861 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
92825892 CGGCTAC
1 CGGCTAC
92825899 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:92827816 original size:4 final size:4
Alignment explanation
Indices: 92827807--92827844 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
92827797 CCTTTTCTCC
92827807 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
92827845 CCCCTGTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:92827886 original size:22 final size:21
Alignment explanation
Indices: 92827854--92827894 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
92827844 TCCCCTGTTC
*
92827854 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
92827876 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
92827895 TATTTCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.10, T:0.68
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:92827976 original size:22 final size:23
Alignment explanation
Indices: 92827927--92827979 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
92827917 AACTATTATA
* * *
92827927 ATATTTATTATTTATACATGTGT
1 ATATTTATTATATACACATGTAT
92827950 ATATTTATTA-ATACACATGTAT
1 ATATTTATTATATACACATGTAT
*
92827972 TTATTTAT
1 ATATTTAT
92827980 CACCTTACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (23 bp):
ATATTTATTATATACACATGTAT
Found at i:92828502 original size:58 final size:56
Alignment explanation
Indices: 92828407--92828530 Score: 194
Period size: 58 Copynumber: 2.2 Consensus size: 56
92828397 TCGGGTCATT
* *
92828407 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATACATCGGAGTC
1 ACATATCGATGCCAACGTATTAAACGTAGACTTACTCG--CACATATACATCGGAGTC
* *
92828465 ACATGTCGATGCCAACGTATTAAACGTAGACTTACTCGCACATATATATCGGAGTC
1 ACATATCGATGCCAACGTATTAAACGTAGACTTACTCGCACATATACATCGGAGTC
92828521 ACATATCGAT
1 ACATATCGAT
92828531 ACCACATATA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 26 0.43
58 35 0.57
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (56 bp):
ACATATCGATGCCAACGTATTAAACGTAGACTTACTCGCACATATACATCGGAGTC
Found at i:92828783 original size:12 final size:12
Alignment explanation
Indices: 92828768--92828794 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
92828758 GTAATAACTT
92828768 TTAATATTAAAC
1 TTAATATTAAAC
92828780 TTAATATTAAAC
1 TTAATATTAAAC
92828792 TTA
1 TTA
92828795 TTCATCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATATTAAAC
Found at i:92838217 original size:11 final size:11
Alignment explanation
Indices: 92838201--92838225 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92838191 TTGTGAGTTG
92838201 TCTTTTTTTTT
1 TCTTTTTTTTT
92838212 TCTTTTTTTTT
1 TCTTTTTTTTT
92838223 TCT
1 TCT
92838226 GGCTAGCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:92839445 original size:35 final size:36
Alignment explanation
Indices: 92839406--92839483 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
92839396 TAGTAGTATG
**
92839406 AAACATAAGAAATGTATA-TATCTGTTGGCGTTATA
1 AAACATAAGAAATGTATACTATCTGTTGGCAATATA
* * *
92839441 AAACATAAGAAATGTGTACTGTCTGTTGGTAATATA
1 AAACATAAGAAATGTATACTATCTGTTGGCAATATA
92839477 AAACATA
1 AAACATA
92839484 TAAATGCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 17 0.46
36 20 0.54
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (36 bp):
AAACATAAGAAATGTATACTATCTGTTGGCAATATA
Found at i:92839477 original size:36 final size:35
Alignment explanation
Indices: 92839406--92839525 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 35
92839396 TAGTAGTATG
**
92839406 AAACATAAGAAATGTATATATCTGTTGGCGTTATA
1 AAACATAAGAAATGTATATATCTGTTGGCAATATA
* * *
92839441 AAACATAAGAAATGTGTACTGTCTGTTGGTAATATA
1 AAACATAAGAAATGTATA-TATCTGTTGGCAATATA
* *
92839477 AAACAT-ATAAATGCATATCAT-TCGTTGG-AGATATA
1 AAACATAAGAAATGTATAT-ATCT-GTTGGCA-ATATA
* *
92839512 ATACGTAAGAAATG
1 AAACATAAGAAATG
92839526 AATAAAGCCC
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
34 3 0.04
35 40 0.59
36 25 0.37
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (35 bp):
AAACATAAGAAATGTATATATCTGTTGGCAATATA
Found at i:92840051 original size:98 final size:98
Alignment explanation
Indices: 92839906--92840136 Score: 255
Period size: 98 Copynumber: 2.4 Consensus size: 98
92839896 TGGAAGGAGG
* * * * *
92839906 CTTACAGAAGGTAATAAAGTGATATTGCTCCCTAACATATGGGGGAAGGCTTATGGAAAGCAATA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGAGGAAGGCTTATGGAAAGCAATA
*
92839971 AACTGGACCTACTCCTAGACCTATGGGGGGAAT
66 AACTAGACCTACTCCTAGACCTATGGGGGGAAT
* * * * *
92840004 CTTATAGAAGGTAATAAAGTGACCTTGCTTCCAAATACATAGAGGAAGGTTTATGGAAAGCAATA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGAGGAAGGCTTATGGAAAGCAATA
* * * ** **
92840069 AATTAGACCTACTCCCAAATGTATGGGGGGAGG
66 AACTAGACCTACTCCTAGACCTATGGGGGGAAT
* * * * *
92840102 CTTACAAAAGGTGATAAAGTGGCTTTGCTCTCAAA
1 CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAA
92840137 TGCATAGGAA
Statistics
Matches: 108, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
98 108 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (98 bp):
CTTACAGAAGGTAATAAAGTGACATTGCTCCCAAACACATAGAGGAAGGCTTATGGAAAGCAATA
AACTAGACCTACTCCTAGACCTATGGGGGGAAT
Found at i:92840330 original size:54 final size:52
Alignment explanation
Indices: 92840247--92840385 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 52
92840237 TTATGCACGA
* *
92840247 GGGAGGCTTATGAGCAAGGTTTAATAATAATAT-CTCCACTCCCAAACGCATAGG
1 GGGAGGCTTATGA-CAAGGTTTAACAATAATATCCT-CACTCCCAAACACAT-GG
* * * *
92840301 GGTAGGCTTACTGACGAGGTTTAACAATAATATCCTTACTCTCAAACACATGG
1 GGGAGGCTTA-TGACAAGGTTTAACAATAATATCCTCACTCCCAAACACATGG
*
92840354 GGGAAGCTTATGGACAAGGTTTAACAATAATA
1 GGGAGGCTTAT-GACAAGGTTTAACAATAATA
92840386 ACCATGCTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 29 0.40
54 38 0.52
55 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (52 bp):
GGGAGGCTTATGACAAGGTTTAACAATAATATCCTCACTCCCAAACACATGG
Found at i:92840378 original size:53 final size:52
Alignment explanation
Indices: 92840247--92840419 Score: 161
Period size: 53 Copynumber: 3.2 Consensus size: 52
92840237 TTATGCACGA
* * * *
92840247 GGGAGGCTTATGAGCAAGGTTTAATAATAATAT-CTCCACTCCCAAACGCATAGG
1 GGGAAGCTTATGA-CAAGGTTTAACAATAATATCCT-TACTCTCAAACGCAT-GG
* * * *
92840301 GGTAGGCTTACTGACGAGGTTTAACAATAATATCCTTACTCTCAAACACATGG
1 GGGAAGCTTA-TGACAAGGTTTAACAATAATATCCTTACTCTCAAACGCATGG
* * * *
92840354 GGGAAGCTTATGGACAAGGTTTAACAATAATAACCATGCT-TCCAAATGCATGG
1 GGGAAGCTTAT-GACAAGGTTTAACAATAATATCCTTACTCT-CAAACGCATGG
92840407 GGGAAGACTTATG
1 GGGAAG-CTTATG
92840420 GTGAGAAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 50 0.50
54 43 0.43
55 5 0.05
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (52 bp):
GGGAAGCTTATGACAAGGTTTAACAATAATATCCTTACTCTCAAACGCATGG
Found at i:92851762 original size:29 final size:30
Alignment explanation
Indices: 92851712--92851777 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
92851702 AAAAATACAC
**
92851712 CTAAATTTTTAAATCTAAAAAGTAGA-GAGA
1 CTAAATTTTTAAAAATAAAAAGTA-ATGAGA
92851742 CTAAATTTTTAAAAAT-AAAAGTAATGAGA
1 CTAAATTTTTAAAAATAAAAAGTAATGAGA
92851771 CTAAATT
1 CTAAATT
92851778 CTAACTGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 18 0.55
30 14 0.42
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.32
Consensus pattern (30 bp):
CTAAATTTTTAAAAATAAAAAGTAATGAGA
Found at i:92854161 original size:26 final size:26
Alignment explanation
Indices: 92854130--92854184 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
92854120 CCTGTATTTT
*
92854130 GTTGTTAATCACATTGTTTCATATTG
1 GTTGTTAATCACATTGCTTCATATTG
*
92854156 GTTGTTAATCATATTGCTTCATATTG
1 GTTGTTAATCACATTGCTTCATATTG
92854182 GTT
1 GTT
92854185 ATATCATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (26 bp):
GTTGTTAATCACATTGCTTCATATTG
Found at i:92854198 original size:22 final size:24
Alignment explanation
Indices: 92854141--92854201 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
92854131 TTGTTAATCA
* *
92854141 CATTGTTTCATATTGGTTGTTAAT
1 CATTGCTTCATATTGGTTGATAAT
92854165 CATATTGCTTCATATTGGTT-AT-AT
1 C--ATTGCTTCATATTGGTTGATAAT
*
92854189 CATTGGTTCATAT
1 CATTGCTTCATAT
92854202 ATGCCTATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 11 0.34
24 4 0.12
25 1 0.03
26 16 0.50
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (24 bp):
CATTGCTTCATATTGGTTGATAAT
Found at i:92860439 original size:18 final size:17
Alignment explanation
Indices: 92860398--92860450 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
92860388 GAATATTACC
*
92860398 AAATCATAATAATTATAA
1 AAAT-ATAAAAATTATAA
* *
92860416 ATATATATAAATTAATAA
1 AAATATAAAAATT-ATAA
92860434 AAATATAAAAATATATA
1 AAATATAAAAAT-TATA
92860451 GTTCTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 7 0.25
18 20 0.71
19 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAAAAATTATAA
Found at i:92864715 original size:23 final size:23
Alignment explanation
Indices: 92864685--92864730 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
92864675 CCGCTTAATA
92864685 GCATTCATAACAACTAAAAGATT
1 GCATTCATAACAACTAAAAGATT
92864708 GCATTCATAACAACTAAAAGATT
1 GCATTCATAACAACTAAAAGATT
92864731 TTAAGAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (23 bp):
GCATTCATAACAACTAAAAGATT
Found at i:92865217 original size:15 final size:15
Alignment explanation
Indices: 92865197--92865226 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
92865187 GATATTAGAA
92865197 ACAGAACATAAGTCT
1 ACAGAACATAAGTCT
92865212 ACAGAACATAAGTCT
1 ACAGAACATAAGTCT
92865227 TAAAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
ACAGAACATAAGTCT
Found at i:92876356 original size:43 final size:44
Alignment explanation
Indices: 92876295--92876400 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 44
92876285 TAAAGACAGA
*
92876295 ATTTAGCTTGGACTGGTAATTC-TGATCT-TACATTG-AAATCAGG
1 ATTTAGCCTGGACTGGTAATTCATGAT-TATACATTGAAAAT-AGG
* **
92876338 ATTTAGCCTAGACTGGTAA-TCATGATTATATGTTGAAAATAGG
1 ATTTAGCCTGGACTGGTAATTCATGATTATACATTGAAAATAGG
*
92876381 ATCTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
92876401 CCCGATCTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 3 0.06
43 46 0.87
44 4 0.08
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (44 bp):
ATTTAGCCTGGACTGGTAATTCATGATTATACATTGAAAATAGG
Found at i:92877619 original size:18 final size:18
Alignment explanation
Indices: 92877596--92877631 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
92877586 TGAAGTTAAT
92877596 ATTTTATTGATGTAAATA
1 ATTTTATTGATGTAAATA
92877614 ATTTTATTGATGTAAATA
1 ATTTTATTGATGTAAATA
92877632 GCATGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTTTATTGATGTAAATA
Found at i:92878304 original size:25 final size:25
Alignment explanation
Indices: 92878266--92878314 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
92878256 TCATACAAGA
*
92878266 TAAATATAATTATTCATAAAAAATAT
1 TAAATATAAATATT-ATAAAAAATAT
*
92878292 TAAA-ATAAATATTTTAAAAAATA
1 TAAATATAAATATTATAAAAAATA
92878315 AACACGTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 8 0.38
26 4 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATATAAATATTATAAAAAATAT
Found at i:92878633 original size:25 final size:26
Alignment explanation
Indices: 92878600--92878656 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
92878590 ATATTTTACC
*
92878600 TATACAAAT-AAT-TATATTTATTTAA
1 TATAAAAATAAATATATATTT-TTTAA
92878625 TATAAAAATAAATATATATTTTTTAA
1 TATAAAAATAAATATATATTTTTTAA
*
92878651 AATAAA
1 TATAAA
92878657 CGTAATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 13 0.46
27 7 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TATAAAAATAAATATATATTTTTTAA
Found at i:92879157 original size:23 final size:23
Alignment explanation
Indices: 92879130--92879175 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
92879120 ACAATAAATA
*
92879130 TTAAATTATTTAAA-ATTTTTTAT
1 TTAAATCA-TTAAATATTTTTTAT
92879153 TTAAATCATTAAATTATTTTTTA
1 TTAAATCATTAAA-TATTTTTTA
92879176 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTAAATCATTAAATATTTTTTAT
Found at i:92881739 original size:22 final size:20
Alignment explanation
Indices: 92881691--92881740 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
92881681 ATTTTATATC
92881691 TAATAAAAATTTAAAATAAT
1 TAATAAAAATTTAAAATAAT
*
92881711 TATTAAATACATTTAAAAT-AT
1 TAATAAA-A-ATTTAAAATAAT
92881732 TAAATAAAA
1 T-AATAAAA
92881741 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 5 0.20
22 14 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAAAAATTTAAAATAAT
Found at i:92884950 original size:21 final size:20
Alignment explanation
Indices: 92884901--92884942 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
92884891 TGCATATATT
92884901 ATATTT-TATATTATTAATA
1 ATATTTATATATTATTAATA
*
92884920 ATATTTATATATTTTTAA-A
1 ATATTTATATATTATTAATA
92884939 ATAT
1 ATAT
92884943 AATTATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTATATATTATTAATA
Found at i:92885043 original size:17 final size:16
Alignment explanation
Indices: 92885023--92885069 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
92885013 ATTTTTATTC
92885023 ATATATGTATTTTTT-
1 ATATATGTATTTTTTA
*
92885038 ATATATGTTTTTTTTTA
1 ATATATG-TATTTTTTA
**
92885055 AGGTATGTATTTTTT
1 ATATATGTATTTTTT
92885070 TATTATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 7 0.27
16 14 0.54
17 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (16 bp):
ATATATGTATTTTTTA
Found at i:92885052 original size:15 final size:15
Alignment explanation
Indices: 92885023--92885051 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92885013 ATTTTTATTC
92885023 ATATATGTATTTTTT
1 ATATATGTATTTTTT
92885038 ATATATGT-TTTTTT
1 ATATATGTATTTTTT
92885052 TTAAGGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (15 bp):
ATATATGTATTTTTT
Found at i:92890225 original size:148 final size:148
Alignment explanation
Indices: 92889957--92890256 Score: 566
Period size: 148 Copynumber: 2.0 Consensus size: 148
92889947 TCATATATTT
92889957 ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTAAGCTTGCT
1 ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTAAGCTTGCT
*
92890022 GACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAGTGGATATTGTGATTTAACTA
66 GACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACTA
92890087 AGTTTTATGGATATTGTG
131 AGTTTTATGGATATTGTG
*
92890105 ATTTCTAAACATTGGACAGGCACAAATCATTATCATCATATATCCGAATACTGTG-ACAGCTTGC
1 ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTA-AGCTTGC
92890169 TGACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACT
65 TGACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACT
92890234 AAGTTTTATGGATATTGTG
130 AAGTTTTATGGATATTGTG
92890253 ATTT
1 ATTT
92890257 AACTAAGTTT
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
147 1 0.01
148 148 0.99
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (148 bp):
ATTTCTAAACATTGGACAGGCACAAATCATTATCAACATATATCCGAATACTGTGTAAGCTTGCT
GACATATGTTCAATAGGATTAGATAGATCTCATTAAGAATACAAATGGATATTGTGATTTAACTA
AGTTTTATGGATATTGTG
Found at i:92890246 original size:27 final size:27
Alignment explanation
Indices: 92890214--92890267 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
92890204 AAGAATACAA
92890214 ATGGATATTGTGATTTAACTAAGTTTT
1 ATGGATATTGTGATTTAACTAAGTTTT
92890241 ATGGATATTGTGATTTAACTAAGTTTT
1 ATGGATATTGTGATTTAACTAAGTTTT
92890268 CTCCTCTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (27 bp):
ATGGATATTGTGATTTAACTAAGTTTT
Found at i:92890520 original size:3 final size:3
Alignment explanation
Indices: 92890493--92890534 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
92890483 AGCCTCAGAG
* * *
92890493 GAT GAA GAT GAT GAA GAT GAA GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
92890535 AGCGAAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:92892049 original size:16 final size:16
Alignment explanation
Indices: 92892028--92892058 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
92892018 TTCGAGCTGA
92892028 TACTTGATATCTATAC
1 TACTTGATATCTATAC
92892044 TACTTGATATCTATA
1 TACTTGATATCTATA
92892059 TCAATAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
TACTTGATATCTATAC
Found at i:92894907 original size:27 final size:27
Alignment explanation
Indices: 92894869--92894924 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
92894859 TCCGATAGAT
92894869 GTTAGTTCAGTGTTCTATGTTTAACAG
1 GTTAGTTCAGTGTTCTATGTTTAACAG
92894896 GTTAGTTCAGTGTTCTATGTTTAACAG
1 GTTAGTTCAGTGTTCTATGTTTAACAG
92894923 GT
1 GT
92894925 AGAAGGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (27 bp):
GTTAGTTCAGTGTTCTATGTTTAACAG
Found at i:92901362 original size:15 final size:16
Alignment explanation
Indices: 92901342--92901376 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
92901332 AATTTAAAAG
*
92901342 ATAAATATATTTTT-T
1 ATAAATACATTTTTAT
92901357 ATAAATACATTTTTAT
1 ATAAATACATTTTTAT
92901373 ATAA
1 ATAA
92901377 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAAATACATTTTTAT
Found at i:92903995 original size:28 final size:27
Alignment explanation
Indices: 92903953--92904005 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
92903943 TTTAATTAAA
*
92903953 TAAAATTGTTTAAATTTAAAATAAATT
1 TAAAATTGTTTAAATTAAAAATAAATT
*
92903980 TAAAATTATTTTAAATTAAAAATAAA
1 TAAAATT-GTTTAAATTAAAAATAAA
92904006 AAATTTCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
TAAAATTGTTTAAATTAAAAATAAATT
Found at i:92908121 original size:43 final size:43
Alignment explanation
Indices: 92908051--92908147 Score: 169
Period size: 43 Copynumber: 2.3 Consensus size: 43
92908041 TTATGGGTGG
*
92908051 CACTTGAAGAAAATTTTTTGAAGAAAACAGTCAAAATAAGCTT
1 CACTTGAAGAAAATTTTTTGAAGAAAACAGTCAAAATAAGCTC
92908094 CACTTGAAGAAAA-TTTTTGAAGAAAAACAGTCAAAATAAGCTC
1 CACTTGAAGAAAATTTTTTGAAG-AAAACAGTCAAAATAAGCTC
92908137 CACTTGAAGAA
1 CACTTGAAGAA
92908148 GACTGTTTCG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 9 0.17
43 43 0.83
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (43 bp):
CACTTGAAGAAAATTTTTTGAAGAAAACAGTCAAAATAAGCTC
Found at i:92914610 original size:24 final size:25
Alignment explanation
Indices: 92914560--92914611 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
92914550 AAAAAAGTAA
* *
92914560 TTGGATATTTTTTTTGTGCTTTTTC
1 TTGGAGATTTTGTTTGTGCTTTTTC
92914585 TTGGAGATTTTGTTT-T-CTTTTGTC
1 TTGGAGATTTTGTTTGTGCTTTT-TC
92914609 TTG
1 TTG
92914612 AATCTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 6 0.25
25 13 0.54
ACGTcount: A:0.08, C:0.08, G:0.19, T:0.65
Consensus pattern (25 bp):
TTGGAGATTTTGTTTGTGCTTTTTC
Found at i:92919576 original size:15 final size:17
Alignment explanation
Indices: 92919551--92919582 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92919541 CCAAAATTTC
92919551 AATGAAATTAGA-TAAT
1 AATGAAATTAGAGTAAT
92919567 AATG-AATTAGAGTAAT
1 AATGAAATTAGAGTAAT
92919583 CGAATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (17 bp):
AATGAAATTAGAGTAAT
Found at i:92922375 original size:45 final size:45
Alignment explanation
Indices: 92922326--92922411 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
92922316 AATGATAATA
92922326 ATTAAAATAAAACAA-TGTAAAAGTGCAATATTAAATTATTAAAAT
1 ATTAAAATAAAACAAGTGTAAAA-TGCAATATTAAATTATTAAAAT
* * **
92922371 ATTAAAATAAAACAAGTGTGACATTTAATATTAAATTATTA
1 ATTAAAATAAAACAAGTGTAAAATGCAATATTAAATTATTA
92922412 TTATAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 31 0.86
46 5 0.14
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
ATTAAAATAAAACAAGTGTAAAATGCAATATTAAATTATTAAAAT
Found at i:92932459 original size:39 final size:39
Alignment explanation
Indices: 92932416--92932516 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
92932406 ACTAGCTCGA
* * *
92932416 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACAT
* *
92932455 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
* * * *
92932494 AACCTGCAGACCCTAAGTCCGGA
1 AGCCTGCGGACCTTAAGCCCGGA
92932517 TATACATCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 3 0.06
39 50 0.94
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
Found at i:92932517 original size:39 final size:39
Alignment explanation
Indices: 92932434--92932520 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
92932424 GGACTTTAGC
* * * * * *
92932434 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
92932473 CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
1 CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
92932512 CCGGATATA
1 CCGGATATA
92932521 CATCACATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAACCTGCAGACCCTAAGT
Found at i:92939824 original size:68 final size:68
Alignment explanation
Indices: 92939675--92939832 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
92939665 CTAGCCGATT
* * * *
92939675 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
92939740 TCTA
65 TATA
* * *
92939744 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
92939806 CTATATA
63 C-ATATA
92939813 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
92939833 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:92942703 original size:39 final size:40
Alignment explanation
Indices: 92942608--92942760 Score: 120
Period size: 39 Copynumber: 3.9 Consensus size: 40
92942598 ACTTGAAACC
** * *
92942608 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
92942647 AATACTAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
92942686 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
92942725 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
92942761 TATACATCAC
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 16 0.17
39 76 0.83
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:92942761 original size:39 final size:39
Alignment explanation
Indices: 92942678--92942764 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
92942668 GGACTTTAGC
* * * *
92942678 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
92942717 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
92942756 CCGGATATA
1 CCGGATATA
92942765 CATCACATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:92951762 original size:48 final size:49
Alignment explanation
Indices: 92951691--92951788 Score: 189
Period size: 48 Copynumber: 2.0 Consensus size: 49
92951681 GCCATGTGGG
92951691 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGG-AAAAAAAAATCTA
1 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
92951739 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
1 TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
92951788 T
1 T
92951789 CATTCTTTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.54, C:0.18, G:0.12, T:0.15
Consensus pattern (49 bp):
TGTAGTAAACGCATTAACCCCAAAAGCCAAAAAGGAAAAAAAAAATCTA
Found at i:92958946 original size:48 final size:49
Alignment explanation
Indices: 92958875--92958974 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 49
92958865 CGCAGACCAT
*
92958875 CCCAGTTCACCATAAATTCATTTCTCATCTT-CTCATTGCTTCATGCTC
1 CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
92958923 CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
1 CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
92958972 CCC
1 CCC
92958975 TGGATTTTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 31 0.62
49 19 0.38
ACGTcount: A:0.20, C:0.36, G:0.07, T:0.37
Consensus pattern (49 bp):
CCCAGTTCACCATAAATTCATTTCTCATCTTCCGCATTGCTTCATGCTC
Found at i:92968139 original size:17 final size:18
Alignment explanation
Indices: 92968117--92968162 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
92968107 ATTTATTTAT
92968117 ATCATATTATATA-ATGC
1 ATCATATTATATATATGC
92968134 ATCATA-TATGATATATGC
1 ATCATATTAT-ATATATGC
*
92968152 AT-ACATTATAT
1 ATCATATTATAT
92968163 TTGCGACGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 9 0.36
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (18 bp):
ATCATATTATATATATGC
Found at i:92968904 original size:25 final size:23
Alignment explanation
Indices: 92968855--92968913 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 23
92968845 GTTTTTTATA
*
92968855 ATTTTATTTAGTTAAAAAATATT
1 ATTTTATTTATTTAAAAAATATT
*
92968878 ATTTTATTTATTTGAAGAAAATTTT
1 ATTTTATTTATTT-AA-AAAATATT
**
92968903 ATAATATTTAT
1 ATTTTATTTAT
92968914 GGATAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.40
24 2 0.07
25 16 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
ATTTTATTTATTTAAAAAATATT
Found at i:92971216 original size:31 final size:31
Alignment explanation
Indices: 92971154--92971217 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
92971144 TTGAAATGTT
* *
92971154 ACATTTTAGTCACTTACGTTAATACGTTGTA
1 ACATTTTAGTCACTAACGTTAACACGTTGTA
92971185 ACATTTTAGTCACTGAATCGTTAACA-G-TGTA
1 ACATTTTAGTCACT-AA-CGTTAACACGTTGTA
92971216 AC
1 AC
92971218 GGTAAGCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 20 0.69
32 2 0.07
33 7 0.24
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (31 bp):
ACATTTTAGTCACTAACGTTAACACGTTGTA
Found at i:92971803 original size:31 final size:31
Alignment explanation
Indices: 92971765--92971838 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
92971755 AATGATCTAA
* **
92971765 TGACTAAAATGTTACAACAGGATAACGTAAG
1 TGACTAAAACGTTACAACAGGATAACACAAG
* *
92971796 TGACTAAAACGTTGCAACAGGATAATACAAG
1 TGACTAAAACGTTACAACAGGATAACACAAG
92971827 TGACTAAAACGT
1 TGACTAAAACGT
92971839 AACATTTTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.22
Consensus pattern (31 bp):
TGACTAAAACGTTACAACAGGATAACACAAG
Found at i:92973228 original size:21 final size:22
Alignment explanation
Indices: 92973202--92973242 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
92973192 AATTTACAGA
*
92973202 AGAAGAAGATAG-AAAGAAAGG
1 AGAAGAAGAAAGAAAAGAAAGG
92973223 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
92973243 AAGTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:92979931 original size:147 final size:147
Alignment explanation
Indices: 92979557--92980001 Score: 631
Period size: 147 Copynumber: 3.0 Consensus size: 147
92979547 TTTGATATTT
*
92979557 ATTTTATTTTTTAAAATATA-T-TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATA
1 ATTTTATTTTTTAAAATATACTATTTTTTC-TATTTTATTTTTTATATTATTTTAGTACATAATA
* * *
92979620 TTTCAAATGTATTATTTATATATATTTTTTTACTAATTTAGTAAAAAACTCTGATTTTTGCCGTT
65 TTTCAAATGTATTATTT-TA-ATATTTTTATATTAATTTAGTAAAAAACTCTGA-TTTTGGCGTT
92979685 TGTTTTTTTTTTATTTTATTTTCGG
127 TG----TTTTTTATTTTATTTTCGG
* *
92979710 ATTTTATTTTTTAAAATATACTA-TTTTTGTATTTTA-TTTTTATATTATTTTAGTACATAATGT
1 ATTTTATTTTTTAAAATATACTATTTTTTCTATTTTATTTTTTATATTATTTTAGTACATAATAT
*
92979773 TTCAAACGTATTATTTTAAT-TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCAGTTTGT
66 TTCAAATGTATTATTTTAATATTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGC-GTTTGT
92979837 TTTTTATTTTATTTTCGG
130 TTTTTATTTTATTTTCGG
*
92979855 ATTTTATTTTTCAAAATATACTATTTTTTCTATTTTATTTTTTATATTATTTTAGTACATAATAT
1 ATTTTATTTTTTAAAATATACTATTTTTTCTATTTTATTTTTTATATTATTTTAGTACATAATAT
* * * *
92979920 TTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAACT-TGATTTTGGC----CTT
66 TTCAAATGTATTATTTTAATATTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCGTTTGTT
92979980 TTTTATTTTATTTTCGG
131 TTTTATTTTATTTTCGG
92979997 ATTTT
1 ATTTT
92980002 TTAAAATATA
Statistics
Matches: 271, Mismatches: 15, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
142 24 0.09
145 41 0.15
146 12 0.04
147 53 0.20
148 31 0.11
149 33 0.12
150 2 0.01
151 2 0.01
152 41 0.15
153 27 0.10
154 5 0.02
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (147 bp):
ATTTTATTTTTTAAAATATACTATTTTTTCTATTTTATTTTTTATATTATTTTAGTACATAATAT
TTCAAATGTATTATTTTAATATTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCGTTTGTT
TTTTATTTTATTTTCGG
Found at i:92980014 original size:14 final size:14
Alignment explanation
Indices: 92979997--92980025 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92979987 TTATTTTCGG
92979997 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
92980011 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
92980025 A
1 A
92980026 CTATTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:92986855 original size:7 final size:7
Alignment explanation
Indices: 92986807--92986838 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
92986797 AAGGATAGGA
92986807 GGAAATG
1 GGAAATG
92986814 GGAAATG
1 GGAAATG
92986821 GGAAATG
1 GGAAATG
*
92986828 GGAAATA
1 GGAAATG
92986835 GGAA
1 GGAA
92986839 GTAGTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (7 bp):
GGAAATG
Found at i:92987286 original size:14 final size:14
Alignment explanation
Indices: 92987267--92987293 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92987257 GAAAGTAAAT
92987267 AATTAAAAATATGC
1 AATTAAAAATATGC
92987281 AATTAAAAATATG
1 AATTAAAAATATG
92987294 TTTAATGACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AATTAAAAATATGC
Found at i:92987580 original size:20 final size:20
Alignment explanation
Indices: 92987521--92987591 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
92987511 AATAATAAAA
* * *
92987521 TAAATAAATAATGCATTAAAT
1 TAAAAAAATAACGCA-TAATT
* *
92987542 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACGCATAATT
92987562 TAAAGAAAATAA-GCATAATT
1 TAAA-AAAATAACGCATAATT
92987582 ATATAAAAAA
1 -TA-AAAAAA
92987592 AATTAACTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
20 14 0.35
21 24 0.60
22 2 0.05
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAAAATAACGCATAATT
Found at i:92988572 original size:30 final size:31
Alignment explanation
Indices: 92988538--92988595 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
92988528 AGTATGACAA
*
92988538 AATTTA-ATAATTTA-ATAATTTTTTAAAAAT
1 AATTTACAT-ATTTATATAAGTTTTTAAAAAT
*
92988568 AATTTACATATTTATATCAGTTTTTAAA
1 AATTTACATATTTATATAAGTTTTTAAA
92988596 TTTCTCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (31 bp):
AATTTACATATTTATATAAGTTTTTAAAAAT
Found at i:92992145 original size:48 final size:48
Alignment explanation
Indices: 92992090--92992186 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
92992080 GTGAGGAGAG
92992090 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
1 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
92992138 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
1 TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
92992186 T
1 T
92992187 TGCCTACGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (48 bp):
TAAGTAAAGATGACACAGCAATTTTGTTATTAGTTGAAGAGAAAAGCA
Found at i:92997063 original size:15 final size:15
Alignment explanation
Indices: 92997039--92997078 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
92997029 ATATAAATAG
92997039 AAAAATTAAGT-GCTT
1 AAAAATTAAGTAG-TT
*
92997054 AAAAAATAAGTAGTT
1 AAAAATTAAGTAGTT
92997069 AAAAATTAAG
1 AAAAATTAAG
92997079 CACTGAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTAGTT
Found at i:93010609 original size:16 final size:17
Alignment explanation
Indices: 93010583--93010621 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
93010573 AGCTTTAACA
* *
93010583 TTCTATTTTTTTTTTTG
1 TTCTATTTTTTCTTTTC
93010600 TTCT-TTTTTTCTTTTC
1 TTCTATTTTTTCTTTTC
93010616 TTCTAT
1 TTCTAT
93010622 GAAATTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (17 bp):
TTCTATTTTTTCTTTTC
Found at i:93023251 original size:21 final size:22
Alignment explanation
Indices: 93023207--93023256 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
93023197 TTTTATTACT
*
93023207 CTTTTATATCATTAACTCTATA
1 CTTTTATATCATTAACTATATA
93023229 CTTTTATA-CATTAA-TATATTA
1 CTTTTATATCATTAACTATA-TA
*
93023250 CTGTTAT
1 CTTTTAT
93023257 CTAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 14 0.56
22 8 0.32
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (22 bp):
CTTTTATATCATTAACTATATA
Found at i:93030777 original size:99 final size:99
Alignment explanation
Indices: 93030579--93031291 Score: 602
Period size: 99 Copynumber: 7.2 Consensus size: 99
93030569 ACTGACAGCG
* * *
93030579 ATCTTACTTCCCTAACATTGCAAAT-AAAAGATTGAAAGCTACAACAGCGGATC-TAC-TTC-CA
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTG-AAGCTACAACAGCGGATCTTACTTTCTTA
** * * *
93030640 GGCAATGCAGAGGAATAGATTGAAAG-CTACAACAACGA
65 -GCGTTGCAGTGGAACAGATTG--AGTC-ACAACGACGA
*
93030678 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
* * *
93030743 CGTTGCAGTGAAATAGATTGAGTCACAATGACGA
66 CGTTGCAGTGGAACAGATTGAGTCACAACGACGA
* *
93030777 ATCTTAAAACACTTTCCCCGACATTGCAATTAAAAAGA-TGAAAAGCTACAATAGCGGATCTTAC
1 ATCTT-----AC-TTCCCTGACATTGCAATTAAAAAGATTG--AAGCTACAACAGCGGATCTTAC
93030841 TTTCTTAGCAGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
58 TTTCTTAGC-GTTGCAGTGGAACAGATTG-AGTCACAACGACGA
* *
93030885 ATCTTAC-TCCCTGACATTGCAATTAAAAA-ATTGAAGCTACAATAGCGGATATTAC-TT-TTA-
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
93030945 -GTTGCAGTGGAACAGA---AGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAGTCACAACGACGA
93030975 ATC-TACTTCCCTGACATTGCAATTAAAAAGATTGAAG-TACAACAGCGGATCTTACTTTCCTTA
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTT-CTTA
****
93031038 GCGTTGCA-TGGAACAGGCAAAGTCACAACGACGA
65 GCGTTGCAGTGGAACAGATTGAGTCACAACGACGA
* * * * *
93031072 ATCTCACTTCTTCC-G-CATTGCAA--AGAAAGAATTGAAGCCACAACGGCGAATCTTA-TTTCT
1 ATCTTACTTC--CCTGACATTGCAATTAAAAAG-ATTGAAGCTACAACAGCGGATCTTACTTTCT
* ** *
93031132 CCAGGCGTTGCAGTGGAACAGATCAATTCAACAA-GACGA
63 -TA-GCGTTGCAGTGGAACAGATTGAGTC-ACAACGACGA
* * * * * **
93031171 ATCTTGCTTCCCCGACATTGCAATGT-TAAAGATTGAAGC-ACAACGGCGAATCTTA-TTTCCCA
1 ATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA
** *
93031233 G-GTGATGCAGCAGAACAGAATTGAAGTAACAACGACGA
65 GCGT--TGCAGTGGAACAG-ATTG-AGTCACAACGACGA
*
93031271 A-CTTGCTTCCACCTGACATTG
1 ATCTTACTT-C-CCTGACATTG
93031292 TTAAAGATGC
Statistics
Matches: 527, Mismatches: 40, Indels: 92
0.80 0.06 0.14
Matches are distributed among these distances:
89 3 0.01
90 55 0.10
91 9 0.02
93 3 0.01
94 24 0.05
95 6 0.01
96 9 0.02
97 34 0.06
98 51 0.10
99 143 0.27
100 37 0.07
101 56 0.11
102 1 0.00
103 2 0.00
104 4 0.01
105 24 0.05
106 31 0.06
107 17 0.03
108 18 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (99 bp):
ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
CGTTGCAGTGGAACAGATTGAGTCACAACGACGA
Found at i:93043580 original size:100 final size:100
Alignment explanation
Indices: 93043309--93043878 Score: 448
Period size: 100 Copynumber: 5.7 Consensus size: 100
93043299 CTGACAGCGG
* * * * *
93043309 ATCTTACTTCCCTAACATTGCAAATAAAAAGATTGAAG-CTACAAC-AGCGGATCTTACTTTCCA
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGTC-ACAACGA-CGAATCTTACTTCCCT
* * * * *
93043372 GGCAATGCAGA-GGAATAGATTGAAGCTACAACAACGA
64 GACATTGCA-ATGAAAAAGATTGAAGCTACAACGACGA
* * *
93043409 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAG-CTACAA-TAGCGGATCTTACTT-TCT
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGTC-ACAACGA-CGAATCTTACTTCCCT
* * * *
93043471 TAGCGTTGCAGTGAAACAGATTGAAG-TCACAACGACGA
64 GA-CATTGCAATGAAAAAGATTGAAGCT-ACAACGACGA
93043509 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGTCACAACGACGAATCTTACTTCCCTGA
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGTCACAACGACGAATCTTACTTCCCTGA
* * *
93043574 CATTGCAATTAAAAAGATTGAAGCTACAA-TAGCGG
66 CATTGCAATGAAAAAGATTGAAGCTACAACGA-CGA
* * * * ** *
93043609 ATCTTACTT-TCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTG
1 ATCTTACTTCCCTGA-CATTGCAATTAAAAAGATTGAAGTCACAACGACGAATCTTACTTCCCTG
* *
93043673 ACATTGCAATTAAAAAGATTGAAGCTACAAC-AGCGG
65 ACATTGCAATGAAAAAGATTGAAGCTACAACGA-CGA
** * * ** * * ** *
93043709 ATCTTACTT-TTTTAGCATTGCAGTGGAACAGGTCAAAGTCACAACGACGAATCTCACTTCTCC-
1 ATCTTACTTCCCTGA-CATTGCAATTAAAAAGATTGAAGTCACAACGACGAATCTTACTTC-CCT
* * * *
93043772 GGCATTGCAATGTAAAAGATTGAAGCCACAACGGCGA
64 GACATTGCAATGAAAAAGATTGAAGCTACAACGACGA
* * ** ** * *
93043809 ATCTTATTTCCCAGGTGA-TGC-AGCAGAACAGATTGAAGTCACAACGACGAATCTTGCTTCCCT
1 ATCTTACTTCCC-TGACATTGCAATTA-AAAAGATTGAAGTCACAACGACGAATCTTACTTCCCT
93043872 GACATTG
64 GACATTG
93043879 TTAAAGATGG
Statistics
Matches: 395, Mismatches: 58, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
99 8 0.02
100 378 0.96
101 9 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGTCACAACGACGAATCTTACTTCCCTGA
CATTGCAATGAAAAAGATTGAAGCTACAACGACGA
Found at i:93043730 original size:50 final size:50
Alignment explanation
Indices: 93043302--93043717 Score: 397
Period size: 50 Copynumber: 8.3 Consensus size: 50
93043292 TCCTGTACTG
* *
93043302 ACAGCGGATCTTACTTCCCTAACATTGCAAATAAAAAGATTGAAGCTACA
1 ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCTACA
* * ** *
93043352 ACAGCGGATCTTACTTTCC-AGGCAATGCAGA-GGAATAGATTGAAGCTACA
1 ACAGCGGATCTTACTTCCCTA-GCATTGCA-ATTAAAAAGATTGAAGCTACA
* *
93043402 ACAACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAGCGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTACA
* * * * * * *
93043452 ATAGCGGATCTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCT-ACA
*
93043502 AC-GACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAG-TCACA
1 ACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCT-ACA
*
93043552 AC-GACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTACA
* * * * * ** *
93043602 ATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCT-ACA
*
93043652 AC-GACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTACA
93043702 ACAGCGGATCTTACTT
1 ACAGCGGATCTTACTT
93043718 TTTTAGCATT
Statistics
Matches: 300, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
49 9 0.03
50 284 0.95
51 7 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (50 bp):
ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCTACA
Found at i:93043730 original size:150 final size:150
Alignment explanation
Indices: 93043388--93043717 Score: 601
Period size: 150 Copynumber: 2.2 Consensus size: 150
93043378 GCAGAGGAAT
*
93043388 AGATTGAAGCTACAACAACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
93043453 TAGCGGATCTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACTT
66 TAGCGGATCTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACTT
93043518 CCCTGACATTGCAATTAAAA
131 CCCTGACATTGCAATTAAAA
93043538 AGATTGAAG-TCACAAC-GACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTAC
1 AGATTGAAGCT-ACAACAG-CGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTAC
*
93043601 AATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTAC
64 AATAGCGGATCTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTAC
93043666 TTCCCTGACATTGCAATTAAAA
129 TTCCCTGACATTGCAATTAAAA
*
93043688 AGATTGAAGCTACAACAGCGGATCTTACTT
1 AGATTGAAGCTACAACAGCGAATCTTACTT
93043718 TTTTAGCATT
Statistics
Matches: 173, Mismatches: 3, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
149 1 0.01
150 170 0.98
151 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (150 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
TAGCGGATCTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACTT
CCCTGACATTGCAATTAAAA
Found at i:93043780 original size:150 final size:150
Alignment explanation
Indices: 93043388--93043878 Score: 480
Period size: 150 Copynumber: 3.3 Consensus size: 150
93043378 GCAGAGGAAT
* * **
93043388 AGATTGAAG-CTACAACAACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
1 AGATTGAAGTC-ACAACGACGAATCTTACTTCCCTGACATTGCAATGAAAAAGATCAAAGCTACA
* * * * *
93043452 ATAGCGGATCTTACTTTCTTAGCGTTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACT
65 AGAGCGAATCTCACTTTCTCAGCATTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACT
93043517 TCCCTGACATTGCAATTAAAA
130 TCCCTGACATTGCAATTAAAA
* **
93043538 AGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAA
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATGAAAAAGATCAAAGCTACAA
* * * * * *
93043603 TAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTT
66 GAGCGAATCTCACTTTCTCAGCATTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACTT
93043668 CCCTGACATTGCAATTAAAA
131 CCCTGACATTGCAATTAAAA
* ** * * * * *
93043688 AGATTGAAG-CTACAAC-AGCGGATCTTACTT-TTTTAGCATTGCAGTGGAACAGGTCAAAG-TC
1 AGATTGAAGTC-ACAACGA-CGAATCTTACTTCCCTGA-CATTGCAATGAAAAAGATCAAAGCT-
* * * *
93043749 ACAACGA-CGAATCTCAC-TTCTCCGGCATTGCAATGTAAA-AGATTGAAGCCACAACGGCGAAT
62 ACAA-GAGCGAATCTCACTTTCT-CAGCATTGCAGTG-AAACAGATTGAAGTCACAACGACGAAT
* * ** ** *
93043811 CTTATTTCCCAGGTGA-TGC-AGCAGAAC
124 CTTACTTCCC-TGACATTGCAATTA-AAA
*
93043838 AGATTGAAGTCACAACGACGAATCTTGCTTCCCTGACATTG
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTG
93043879 TTAAAGATGG
Statistics
Matches: 293, Mismatches: 35, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
149 11 0.04
150 272 0.93
151 10 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (150 bp):
AGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATGAAAAAGATCAAAGCTACAA
GAGCGAATCTCACTTTCTCAGCATTGCAGTGAAACAGATTGAAGTCACAACGACGAATCTTACTT
CCCTGACATTGCAATTAAAA
Found at i:93043802 original size:50 final size:51
Alignment explanation
Indices: 93043309--93043878 Score: 337
Period size: 50 Copynumber: 11.4 Consensus size: 51
93043299 CTGACAGCGG
** * * *
93043309 ATCTTACTTC-CCTAACATTGCAAAT-AAAAAGATTGAAGCTACAAC-AGCGG
1 ATCTTACTTCTCCTGGCATTGC-AATGTAAAAGATTGAAGCCACAACGA-CGA
* * * * * *
93043359 ATCTTACTT-TCCAGGCAATGCAGA-GGAATAGATTGAAGCTACAACAACGA
1 ATCTTACTTCTCCTGGCATTGCA-ATGTAAAAGATTGAAGCCACAACGACGA
* * * *
93043409 ATCTTACTTC-CCTGACATTGCAAT-TAAAAAGATTGAAGCTACAA-TAGCGG
1 ATCTTACTTCTCCTGGCATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
* * * * *
93043459 ATCTTACTT-TCTTAGCGTTGCAGTG-AAACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCTCCTGGCATTGCAATGTAAA-AGATTGAAGCCACAACGACGA
* *
93043509 ATCTTACTTC-CCTGACATTGCAAT-TAAAAAGATTGAAGTCACAACGACGA
1 ATCTTACTTCTCCTGGCATTGCAATGT-AAAAGATTGAAGCCACAACGACGA
* * * *
93043559 ATCTTACTTC-CCTGACATTGCAAT-TAAAAAGATTGAAGCTACAA-TAGCGG
1 ATCTTACTTCTCCTGGCATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
* * * * * * *
93043609 ATCTTACTT-TCTTAGCGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCTCCTGGCATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * *
93043659 ATCTTACTTC-CCTGACATTGCAAT-TAAAAAGATTGAAGCTACAAC-AGCGG
1 ATCTTACTTCTCCTGGCATTGCAATGT-AAAAGATTGAAGCCACAACGA-CGA
** * * * * * ** *
93043709 ATCTTACTT-TTTTAGCATTGCAGTGGAACAGGTCAAAGTCACAACGACGA
1 ATCTTACTTCTCCTGGCATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* *
93043759 ATCTCACTTCTCC-GGCATTGCAATGTAAAAGATTGAAGCCACAACGGCGA
1 ATCTTACTTCTCCTGGCATTGCAATGTAAAAGATTGAAGCCACAACGACGA
* * * * *
93043809 ATCTTATTTC-CCAGGTGA-TGCAGCA-G-AACAGATTGAAGTCACAACGACGA
1 ATCTTACTTCTCCTGG-CATTGCA--ATGTAAAAGATTGAAGCCACAACGACGA
* *
93043859 ATCTTGCTTC-CCTGACATTG
1 ATCTTACTTCTCCTGGCATTG
93043879 TTAAAGATGG
Statistics
Matches: 400, Mismatches: 89, Indels: 62
0.73 0.16 0.11
Matches are distributed among these distances:
49 11 0.03
50 378 0.94
51 10 0.03
52 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (51 bp):
ATCTTACTTCTCCTGGCATTGCAATGTAAAAGATTGAAGCCACAACGACGA
Found at i:93047320 original size:3 final size:3
Alignment explanation
Indices: 93047312--93047403 Score: 96
Period size: 3 Copynumber: 30.0 Consensus size: 3
93047302 ATTTAAAAAG
* *
93047312 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GATA ACA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
** * *
93047358 ATA ATA GCA ATA ATA ATA TTA A-A ATTA ATTA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA
93047404 TTAAAATTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.03
3 64 0.86
4 8 0.11
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93047359 original size:34 final size:33
Alignment explanation
Indices: 93047316--93047403 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 33
93047306 AAAAAGATAA
*
93047316 TAATAATAATAATAATAATAATAATAGATAACAG
1 TAATAATAATAATAATAATAATAATA-ATAAAAG
** * *
93047350 TAATAATAATAATAGCAATAATAATATTAAAAT
1 TAATAATAATAATAATAATAATAATAATAAAAG
*
93047383 TAATTACTAATAATAATAATA
1 TAA-TAATAATAATAATAATA
93047404 TTAAAATTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
33 7 0.16
34 38 0.84
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (33 bp):
TAATAATAATAATAATAATAATAATAATAAAAG
Found at i:93048212 original size:18 final size:19
Alignment explanation
Indices: 93048165--93048229 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
93048155 TCGTTTTTAA
* * *
93048165 AAAATAATAATAATAACAA
1 AAAATAATAAAAATGACAC
*
93048184 AAATATAAATATAAATG-CAC
1 AAA-AT-AATAAAAATGACAC
*
93048204 AAAATAATAAAAATGATAC
1 AAAATAATAAAAATGACAC
93048223 AAAATAA
1 AAAATAA
93048230 AATAGACCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.24
19 14 0.38
20 7 0.19
21 7 0.19
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATAATAAAAATGACAC
Found at i:93049837 original size:20 final size:19
Alignment explanation
Indices: 93049798--93049837 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
93049788 AAATGGCCTA
* *
93049798 TTAACATTTGATTTATGAT
1 TTAACATTTCATTGATGAT
93049817 TTAACATTTCACTTGATGAT
1 TTAACATTTCA-TTGATGAT
93049837 T
1 T
93049838 AATAAGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
TTAACATTTCATTGATGAT
Found at i:93050893 original size:31 final size:31
Alignment explanation
Indices: 93050819--93050893 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
93050809 ATATATACAC
* * *
93050819 TTATATTATAA-CTATTTATTTACTTAAAAT
1 TTATATTATAAGATATTTATTTAATTAAAAA
*
93050849 TTA-AGTTAAAAGATATTTA-TTAATTAAATAA
1 TTATA-TTATAAGATATTTATTTAATTAAA-AA
93050880 TTATATTATAAGAT
1 TTATATTATAAGAT
93050894 TTTTGTATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.03
30 16 0.44
31 18 0.50
32 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (31 bp):
TTATATTATAAGATATTTATTTAATTAAAAA
Found at i:93051023 original size:12 final size:12
Alignment explanation
Indices: 93051006--93051033 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
93050996 TAAAAGATAT
93051006 TTATTATAATTA
1 TTATTATAATTA
93051018 TTATTATAATTA
1 TTATTATAATTA
93051030 TTAT
1 TTAT
93051034 CATTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:93052910 original size:29 final size:29
Alignment explanation
Indices: 93052877--93052937 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
93052867 GGTGAAATAA
93052877 GTAAATTTTAGATTTGGTAATGGTATATG
1 GTAAATTTTAGATTTGGTAATGGTATATG
*
93052906 GTAAATTTTATATTTGGTAATGGTATATG
1 GTAAATTTTAGATTTGGTAATGGTATATG
93052935 GTA
1 GTA
93052938 GGAATTGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (29 bp):
GTAAATTTTAGATTTGGTAATGGTATATG
Found at i:93052925 original size:16 final size:16
Alignment explanation
Indices: 93052877--93052925 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
93052867 GGTGAAATAA
*
93052877 GTAAATTTTAGATTTG
1 GTAAATTTTATATTTG
**
93052893 GT-AATGGTATA--TG
1 GTAAATTTTATATTTG
93052906 GTAAATTTTATATTTG
1 GTAAATTTTATATTTG
93052922 GTAA
1 GTAA
93052926 TGGTATATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
13 4 0.16
14 7 0.28
15 6 0.24
16 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
GTAAATTTTATATTTG
Found at i:93053265 original size:21 final size:21
Alignment explanation
Indices: 93053239--93053293 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
93053229 GGGCTCTCAT
93053239 CATGACCGTGTGACCTAGCGA
1 CATGACCGTGTGACCTAGCGA
* * *
93053260 CATGACCGTATGATCTAGTGA
1 CATGACCGTGTGACCTAGCGA
* *
93053281 CACGATCGTGTGA
1 CATGACCGTGTGA
93053294 GTCATACGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
CATGACCGTGTGACCTAGCGA
Found at i:93056266 original size:52 final size:52
Alignment explanation
Indices: 93056191--93056390 Score: 195
Period size: 52 Copynumber: 3.9 Consensus size: 52
93056181 GATAGAAAAT
*
93056191 ATGTGATATATGATTCCGTATAAGACCATAGAC-GGGCTATGGCATCGGTAAA
1 ATGTGATATGTGATTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAAA
* ***
93056243 ATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTCGGCTATGGCATCGGTGTG
1 ATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
* *
93056295 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT---
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
* * *
93056345 A--TGATATGTGA-TCCGTGTAAGACCAT-GGTAGGGCTATGGCTTCGGT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCT-GGGCTATGGCATCGGT
93056391 GTGTGATATG
Statistics
Matches: 128, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.01
46 28 0.22
47 6 0.05
48 4 0.03
50 1 0.01
51 4 0.03
52 47 0.37
53 34 0.27
54 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAA
Found at i:93056390 original size:46 final size:48
Alignment explanation
Indices: 93056201--93056370 Score: 116
Period size: 53 Copynumber: 3.4 Consensus size: 48
93056191 ATGTGATATA
* * *
93056201 TGATTCCGTATAAGACCATA-GACGGGCTATGGCATCGGTAAAATG-TGATTCG
1 TGATTCCGTATAAGACCATATCA-GGGATATGGCATCGGT---ATGAT-AAT-G
* ** *
93056253 TG-TTCCCGTATAAGACCATAGCTCGGCTATGGCATCGGTGTGATGTGATAATG
1 TGATT-CCGTATAAGACCATATCAGGGATATGGCATC-G-GT-A--TGATAATG
*
93056306 TGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGAT-ATG
1 TGATTCCGTATAAGACCATATCAGGGATATGGCATCGGTATGATAATG
*
93056353 TGA-TCCGTGTAAGACCAT
1 TGATTCCGTATAAGACCAT
93056371 GGTAGGGCTA
Statistics
Matches: 101, Mismatches: 9, Indels: 22
0.77 0.07 0.17
Matches are distributed among these distances:
46 14 0.14
47 6 0.06
48 4 0.04
50 1 0.01
51 4 0.04
52 31 0.31
53 32 0.32
54 8 0.08
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
TGATTCCGTATAAGACCATATCAGGGATATGGCATCGGTATGATAATG
Found at i:93057167 original size:20 final size:20
Alignment explanation
Indices: 93057142--93057196 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
93057132 CCCATGGGCA
93057142 GCCACACGGGCATGTTCCAG
1 GCCACACGGGCATGTTCCAG
* *
93057162 GCCACACGGGCGTGTTCTAG
1 GCCACACGGGCATGTTCCAG
93057182 GCCACACGGGCATGT
1 GCCACACGGGCATGT
93057197 GCCCCTATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.16
Consensus pattern (20 bp):
GCCACACGGGCATGTTCCAG
Found at i:93057559 original size:3 final size:3
Alignment explanation
Indices: 93057546--93057593 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
93057536 ACTTTAACAG
*
93057546 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGCA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
93057591 AGA
1 AGA
93057594 GACTATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:93061416 original size:48 final size:48
Alignment explanation
Indices: 93061356--93061834 Score: 796
Period size: 48 Copynumber: 10.0 Consensus size: 48
93061346 TATATATGTA
* *
93061356 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATA
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
*
93061404 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
93061452 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
** *
93061500 TGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
** *
93061548 TGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
93061596 TGGTAAATCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
93061644 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
** *
93061692 TGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
93061740 TCGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
* *
93061788 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGATATGTGTATAT
1 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
93061835 ATTGTGGCCG
Statistics
Matches: 405, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 405 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG
Found at i:93062018 original size:37 final size:37
Alignment explanation
Indices: 93061968--93062077 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
93061958 GGAAATATAT
*
93061968 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
93062005 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
93062042 TCCGAGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
93062078 TCGAGCTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:93063531 original size:3 final size:3
Alignment explanation
Indices: 93063523--93063563 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
93063513 ATTTACAGTC
93063523 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CTCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT T
93063564 ATGGGGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:93063853 original size:2 final size:2
Alignment explanation
Indices: 93063846--93063876 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93063836 GTAATTTACC
93063846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93063877 AAAATAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93066163 original size:16 final size:16
Alignment explanation
Indices: 93066142--93066173 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93066132 TTTTACTGAA
93066142 GAGCAATGACTAATAT
1 GAGCAATGACTAATAT
93066158 GAGCAATGACTAATAT
1 GAGCAATGACTAATAT
93066174 AATTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
GAGCAATGACTAATAT
Found at i:93068967 original size:18 final size:17
Alignment explanation
Indices: 93068943--93068988 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
93068933 ATAAATATTT
93068943 AAAAAATAAAAAATTCA
1 AAAAAATAAAAAATTCA
93068960 AAATAAAT-AAAAATTCA
1 AAA-AAATAAAAAATTCA
93068977 AAAAAA-AAAAAA
1 AAAAAATAAAAAA
93068989 AGCTTAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.30
17 15 0.56
18 4 0.15
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAAAATTCA
Found at i:93081625 original size:2 final size:2
Alignment explanation
Indices: 93081618--93081647 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
93081608 ACAACACCAA
93081618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93081648 TCTTAAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93090831 original size:23 final size:20
Alignment explanation
Indices: 93090801--93090857 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
93090791 TAAAATATAA
93090801 AATTTTTTATATATTTTTGAAGG
1 AATTTTTTATATATTTTT--A-G
*
93090824 AATTTTTTAGA-ATTTTTAG
1 AATTTTTTATATATTTTTAG
93090843 AATTATTTTATATAT
1 AATT-TTTTATATAT
93090858 AAATTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 7 0.23
21 2 0.07
22 6 0.20
23 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (20 bp):
AATTTTTTATATATTTTTAG
Found at i:93091218 original size:44 final size:44
Alignment explanation
Indices: 93091165--93091251 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
93091155 TTTAAAATAA
* * * * *
93091165 AATAAAAGTTATTATAATTATATATTTAAAAATATTTATAATTC
1 AATAAAAGTTATGATAATTACACATTTAAAAATAATTAGAATTC
* * *
93091209 AATAGAAGTTGTGATAATTACCCATTTAAAAATAATTAGAATT
1 AATAAAAGTTATGATAATTACACATTTAAAAATAATTAGAATT
93091252 TAAATTATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (44 bp):
AATAAAAGTTATGATAATTACACATTTAAAAATAATTAGAATTC
Found at i:93100698 original size:3 final size:3
Alignment explanation
Indices: 93100690--93100715 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93100680 TCTTCCAGTT
93100690 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
93100716 TTTTTGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:93101723 original size:3 final size:3
Alignment explanation
Indices: 93101717--93101749 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
93101707 GGTGGTGGTG
93101717 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
93101750 ATTAAGGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:93107019 original size:32 final size:32
Alignment explanation
Indices: 93106928--93107020 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
93106918 GTCTATAAAA
* *
93106928 TTTTTGAAAGTTTTAATTAGACCTATC-AATT
1 TTTTTGAAAATTTTAATTAGACCTCTCAAATT
* * * *
93106959 TTTTTGAAAATTCTCATTAAAACTCTCAAATT
1 TTTTTGAAAATTTTAATTAGACCTCTCAAATT
* *
93106991 TTTTTAAAAATTTTAATTAGACCCCTCAAA
1 TTTTTGAAAATTTTAATTAGACCTCTCAAA
93107021 ACTTAATTTC
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 21 0.43
32 28 0.57
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (32 bp):
TTTTTGAAAATTTTAATTAGACCTCTCAAATT
Found at i:93110058 original size:20 final size:20
Alignment explanation
Indices: 93110018--93110075 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
93110008 ATAGAGTCCC
*
93110018 GAACCCAAAACCCAAAACCTA
1 GAACCCAAAACCC-CAACCTA
93110039 GAACCCAAAACCCCAACCTA
1 GAACCCAAAACCCCAACCTA
* *
93110059 TAACCCATGAACCCCAA
1 GAACCCA-AAACCCCAA
93110076 ACTCATAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.47, C:0.41, G:0.05, T:0.07
Consensus pattern (20 bp):
GAACCCAAAACCCCAACCTA
Found at i:93118301 original size:19 final size:19
Alignment explanation
Indices: 93118266--93118302 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93118256 AATATTGAAT
*
93118266 ATATACATACTAAATATAC
1 ATATACATAATAAATATAC
*
93118285 ATATACATAATATATATA
1 ATATACATAATAAATATA
93118303 AATGAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATACATAATAAATATAC
Found at i:93118304 original size:25 final size:25
Alignment explanation
Indices: 93118266--93118324 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
93118256 AATATTGAAT
*
93118266 ATATACATACTAAAT-ATACATATA-C
1 ATATATATA-TAAATGA-ACATATACC
93118291 ATAATATATATAAATGAACATATACC
1 AT-ATATATATAAATGAACATATACC
93118317 ATATATAT
1 ATATATAT
93118325 TAGAAATACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATATATATAAATGAACATATACC
Found at i:93118642 original size:3 final size:3
Alignment explanation
Indices: 93118634--93118698 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
93118624 ATTAACAATG
* * * *
93118634 ATA ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA CAAA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
93118679 A-A AT- ATA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
93118699 AGTAATTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.12
3 42 0.84
4 2 0.04
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:93118711 original size:18 final size:19
Alignment explanation
Indices: 93118634--93118699 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
93118624 ATTAACAATG
* *
93118634 ATAATAATAATAATAGTAATA
1 ATAATAA-AAT-ATAATAAAA
* *
93118655 ATATTAAAATACAA-AAAA
1 ATAATAAAATATAATAAAA
93118673 ATAATAAAATATAATAAAA
1 ATAATAAAATATAATAAAA
93118692 ATAATAAA
1 ATAATAAA
93118700 GTAATTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.39
19 14 0.37
20 3 0.08
21 6 0.16
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAATAAAATATAATAAAA
Found at i:93118771 original size:23 final size:25
Alignment explanation
Indices: 93118714--93118778 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
93118704 TTAAAAATCA
93118714 TACTATATATATAAATATATATACAC
1 TACTATATA-ATAAATATATATACAC
**
93118740 -A-TAGGTAATAAA-A-ATATACAC
1 TACTATATAATAAATATATATACAC
*
93118761 TACTATATAATAGATATA
1 TACTATATAATAAATATA
93118779 ATAATATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 9
0.68 0.11 0.20
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 13 0.43
24 5 0.17
25 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (25 bp):
TACTATATAATAAATATATATACAC
Found at i:93118781 original size:127 final size:126
Alignment explanation
Indices: 93118640--93118908 Score: 287
Period size: 128 Copynumber: 2.1 Consensus size: 126
93118630 AATGATAATA
* *
93118640 ATAATAATAGTAATAATATTAAAATAC-AAAAAAATAATAAAATATAATAAAAAT-AATAAAGTA
1 ATAATAATAGTAATAATATTAAAATACGAAAAAAAGAATAAAACA-AA-AAAAATAAATAAAGTA
* * * *
93118703 ATTAAAAATCATACTATATATATAA-ATATATATACACATAGGTAATAAAAA-TATACACTACTA
64 ATAAAAAATAAGACTATATACA-AATATATATATACACATA--TAATAAAAAGTATACACTACTA
93118766 T
126 T
* * * * *
93118767 ATAATAGATA-TAATAATATTGAAATACGAAAAAACGAATATAACAAAAATATTGAAATAAAGTA
1 ATAATA-ATAGTAATAATATTAAAATACGAAAAAAAGAATAAAACAAAAAAAAT-AAATAAAGTA
* * * *
93118831 ATAAAAAATAAGACTATGTACAAATATATATATACATATATGATAAAAAGTATACACTATTAT
64 ATAAAAAATAAGACTATATACAAATATATATATACACATATAATAAAAAGTATACACTACTAT
* *
93118894 ATAATATTAATAATA
1 ATAATAATAGTAATA
93118909 GTAACAAAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
126 14 0.12
127 49 0.41
128 56 0.47
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (126 bp):
ATAATAATAGTAATAATATTAAAATACGAAAAAAAGAATAAAACAAAAAAAATAAATAAAGTAAT
AAAAAATAAGACTATATACAAATATATATATACACATATAATAAAAAGTATACACTACTAT
Found at i:93119123 original size:19 final size:20
Alignment explanation
Indices: 93119089--93119148 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
93119079 ACACTACTAT
93119089 ATATATATAC-ACATATAATA
1 ATATATATACTA-ATATAATA
93119109 A-ATATATACTAATATTAATA
1 ATATATATACTAATA-TAATA
* * *
93119129 ATAAATATAATAGTATAATA
1 ATATATATACTAATATAATA
93119149 CTAATAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.32
20 13 0.38
21 10 0.29
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATATATACTAATATAATA
Found at i:93119137 original size:32 final size:32
Alignment explanation
Indices: 93119101--93119163 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
93119091 ATATATACAC
* *
93119101 ATATAATAA-ATATATACTAATATTAATAATAA
1 ATATAATAATATA-ATACTAATAATAACAATAA
*
93119133 ATATAATAGTATAATACTAATAATAACAATA
1 ATATAATAATATAATACTAATAATAACAATA
93119164 TGAAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (32 bp):
ATATAATAATATAATACTAATAATAACAATAA
Found at i:93119147 original size:26 final size:23
Alignment explanation
Indices: 93119103--93119158 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 23
93119093 ATATACACAT
* *
93119103 ATAATAAATATATACTAATATTA
1 ATAATAAATATATAATAATACTA
93119126 ATAATAAATATAATAGTATAATACTA
1 ATAATAAATAT-ATA--ATAATACTA
93119152 ATAATAA
1 ATAATAA
93119159 CAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 11 0.39
24 3 0.11
26 14 0.50
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATAAATATATAATAATACTA
Found at i:93119153 original size:23 final size:23
Alignment explanation
Indices: 93119103--93119155 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
93119093 ATATACACAT
*
93119103 ATAATAAATATATACTAATATTA
1 ATAATAAATATATACTAATAATA
*
93119126 ATAATAAATATAATAGT-ATAATA
1 ATAATAAATAT-ATACTAATAATA
*
93119149 CTAATAA
1 ATAATAA
93119156 TAACAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATAAATATATACTAATAATA
Found at i:93119268 original size:12 final size:13
Alignment explanation
Indices: 93119253--93119309 Score: 77
Period size: 12 Copynumber: 4.7 Consensus size: 13
93119243 ATAAATAATA
93119253 ATAATAATATT-G
1 ATAATAATATTAG
93119265 ATAATAATATTAG
1 ATAATAATATTAG
93119278 A-AATAATATT-G
1 ATAATAATATTAG
*
93119289 ATAATATTATTAG
1 ATAATAATATTAG
93119302 A-AATAATA
1 ATAATAATA
93119310 ATAATATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 2 0.05
12 34 0.85
13 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
ATAATAATATTAG
Found at i:93119282 original size:24 final size:24
Alignment explanation
Indices: 93119255--93119309 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
93119245 AAATAATAAT
93119255 AATAATATTGATAATAATATTAGA
1 AATAATATTGATAATAATATTAGA
*
93119279 AATAATATTGATAATATTATTAGA
1 AATAATATTGATAATAATATTAGA
93119303 AATAATA
1 AATAATA
93119310 ATAATATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (24 bp):
AATAATATTGATAATAATATTAGA
Found at i:93119313 original size:21 final size:22
Alignment explanation
Indices: 93119255--93119317 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 22
93119245 AAATAATAAT
*
93119255 AATAATATTGATAATAATATTAGA
1 AATAATA-T-ATAATATTATTAGA
93119279 AATAATATTGATAATATTATTAGA
1 AATAATA-T-ATAATATTATTAGA
93119303 AATAATA-ATAATATT
1 AATAATATATAATATT
93119318 TAATAAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 8 0.21
24 30 0.79
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (22 bp):
AATAATATATAATATTATTAGA
Found at i:93121120 original size:88 final size:88
Alignment explanation
Indices: 93120814--93121472 Score: 424
Period size: 89 Copynumber: 7.6 Consensus size: 88
93120804 GTGATCCTGA
* * ** * *
93120814 GCTCAACTCACTTCTCGCAATGTGAGTTGACTCTTTAAAAAAAACAGACATTAAAAATAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT-TGAAAAACAGAAATTGAAAATAGAAATT
* * * *
93120879 GAAAATAGCTCAGCACGTGAGCCCAT
63 GAAAATACCTCAGCATGTGAGCCAAG
*
93120905 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAATAGCAATT-AA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAGAAATTGAA
* *
93120968 AAAACCTCAGCATGT---CCTGAG
66 AATACCTCAGCATGTGAGCC-AAG
** *
93120989 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGAAATTGAAAATAGAAATTGAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAGAAATTGAA
*
93121054 GATACCTCAGCATGTGAGCCAAG
66 AATACCTCAGCATGTGAGCCAAG
* * * ** * *
93121077 GCTCAACTCGCATCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAT--ACCTCG-G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAGAAATTGAA
**
93121139 TGTAACCT--G-A---G-GCTCAA-
66 AAT-ACCTCAGCATGTGAGC-CAAG
* * ** ** * * *
93121156 -CTCAACTCTCGCAATAT-G--AGCTGA-TTTTTTTTTG-AAA-CATAAATTGAAAAACAGAAGT
1 GCTCAACTCAC-C--TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAAATAGAAAT
* * * *
93121214 TGAAAATACCTC-GACATGTAACCCGAT
62 TGAAAATACCTCAG-CATGTGAGCCAAG
* ** * * * *
93121241 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAAAATATAAATTAAAAAAAAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT----GAAAATAGAAAT
* *
93121306 TGAAAATACCTCAGC--GTG-TCCTGAG
62 TGAAAATACCTCAGCATGTGAGCC-AAG
* ** * *
93121331 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAATGCAGAAATTGAAAAACAGACATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTG-AAAATAGAAATT
* *
93121396 GAAAATACCTCAGC--GTG-CCCTGAG
63 GAAAATACCTCAGCATGTGAGCC-AAG
*
93121420 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
93121473 TTACCTTAGC
Statistics
Matches: 456, Mismatches: 73, Indels: 83
0.75 0.12 0.14
Matches are distributed among these distances:
75 8 0.02
76 6 0.01
77 8 0.02
78 20 0.04
79 4 0.01
80 5 0.01
81 3 0.01
83 5 0.01
84 52 0.11
85 15 0.03
86 51 0.11
87 35 0.08
88 69 0.15
89 77 0.17
90 33 0.07
91 28 0.06
92 36 0.08
93 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAGAAATTGAA
AATACCTCAGCATGTGAGCCAAG
Found at i:93121336 original size:181 final size:177
Alignment explanation
Indices: 93121115--93121454 Score: 492
Period size: 181 Copynumber: 1.9 Consensus size: 177
93121105 GATTTTTGAC
93121115 AAACAGAAATTGAAAATACCTCGGTGTAACCTGAGGCTCAACTCAACTCTCGCAATATGAGCTGA
1 AAACAGAAATTGAAAATACCTCGGTGT-ACCTGAGGCTCAACTCAACTCTCGCAATATGAGCTGA
* *
93121180 TTTTTTTTTGAAA-CATAAATTGAAAAACAGA-AGTTGAAAATACCTC-GACATGTAACCC-GAT
65 --TTTTTTTGAAAGCAGAAATTGAAAAACAGACA-TTGAAAATACCTCAG-C--GT-ACCCTGAG
*
93121241 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAAAATATAAATTAAAAAA
123 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAATATAAATTAAAAAA
* *
93121296 AAACAGAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTC-G-GTGTACCTGAGGCTCAACTCAACTCTCGCAATATGAGCTG
*
93121360 ATTTTTTTGAAATGCAGAAATTGAAAAACAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCA
64 ATTTTTTTGAAA-GCAGAAATTGAAAAACAGACATTGAAAATACCTCAGCGTACCCTGAGGCTCA
93121425 ACTCACCTCTCGCAATATGAGTTGATTTTT
128 ACTCACCTCTCGCAATATGAGTTGATTTTT
93121455 GACAAACAGA
Statistics
Matches: 146, Mismatches: 6, Indels: 16
0.87 0.04 0.10
Matches are distributed among these distances:
178 3 0.02
179 49 0.34
181 87 0.60
182 3 0.02
183 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (177 bp):
AAACAGAAATTGAAAATACCTCGGTGTACCTGAGGCTCAACTCAACTCTCGCAATATGAGCTGAT
TTTTTTGAAAGCAGAAATTGAAAAACAGACATTGAAAATACCTCAGCGTACCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTTAAAATATAAATTAAAAAA
Found at i:93121498 original size:343 final size:333
Alignment explanation
Indices: 93120903--93121527 Score: 862
Period size: 343 Copynumber: 1.8 Consensus size: 333
93120893 ACGTGAGCCC
* *
93120903 ATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAATAGCAATTAA
1 ATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAACAGAAATTAA
93120968 AAAACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAG
66 AAAACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC-AACAG
* ** * *
93121033 AAATTGAAAATAGAAATTGAGGATACCTCAGCATGTGAGCCAAGGCTCAACTCGCATCTCGCAAT
130 AAATTGAAAACAGAAATTGAAAATACCTCAGCA-GTGACCCAAGGCTCAACTCACATCTCGCAAT
*
93121098 ATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCGGTGTAACCTGAGGCTCAACTCAACT
194 ATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTAGGTGT-ACCTGAGGCTCAACTCAACT
93121163 CTCGCAATATGAGCTGATTTTTTTTTGAAACATAAATTGAAAAACAGAAGTTGAAAATACCTCGA
258 CTCGCAATATGAGCTGATTTTTTTTTGAAACATAAATTGAAAAACAGAAGTTGAAAATACCTCGA
93121228 CATGTAACCCG
323 CATGTAACCCG
* ** * *
93121239 ATGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAAAATATAAATTAAAAAAAAACAGAA
1 ATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-----AAAACAGAA
* * *
93121304 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTG
61 ATT-AAAAAACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
* *
93121369 A-AATGCAGAAATTGAAAAACAGACATTGAAAATACCTCAGC-GTG-CCCTGAGGCTCAACTCAC
123 ACAA--CAGAAATTG-AAAACAGAAATTGAAAATACCTCAGCAGTGACCC-AAGGCTCAACTCAC
* * *
93121431 CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTTAGCGTGT-TCTGAGGC
184 ATCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAATACC-TAG-GTGTACCTGAGGC
* *
93121495 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
247 TCAACTCAACTCTCGCAATATGAGCTGATTTTT
93121528 GAAAACAAAA
Statistics
Matches: 252, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
336 46 0.18
341 10 0.04
342 54 0.21
343 98 0.39
344 18 0.07
345 26 0.10
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (333 bp):
ATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAACAGAAATTAA
AAAACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAACAGA
AATTGAAAACAGAAATTGAAAATACCTCAGCAGTGACCCAAGGCTCAACTCACATCTCGCAATAT
GAGTTGATTTTTGACAAACAGAAATTGAAAATACCTAGGTGTACCTGAGGCTCAACTCAACTCTC
GCAATATGAGCTGATTTTTTTTTGAAACATAAATTGAAAAACAGAAGTTGAAAATACCTCGACAT
GTAACCCG
Found at i:93121504 original size:73 final size:72
Alignment explanation
Indices: 93121384--93121539 Score: 249
Period size: 73 Copynumber: 2.2 Consensus size: 72
93121374 CAGAAATTGA
*
93121384 AAAACAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
93121449 ATTTTTG
66 ATTTTTG
* * **
93121456 ACAAACAGAAATTGAAATTACCTTAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
93121521 GATTTTTG
65 GATTTTTG
*
93121529 AAAACAAAAAT
1 AAAACAGAAAT
93121540 AAAAACACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 10 0.13
73 67 0.87
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:93129067 original size:21 final size:21
Alignment explanation
Indices: 93129041--93129082 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
93129031 AGTGTATGAG
93129041 CAGATTATCTTCATTCACATA
1 CAGATTATCTTCATTCACATA
93129062 CAGATTATCTTCATTCACATA
1 CAGATTATCTTCATTCACATA
93129083 GCCGGTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (21 bp):
CAGATTATCTTCATTCACATA
Found at i:93133792 original size:3 final size:3
Alignment explanation
Indices: 93133784--93133851 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
93133774 ATTAACAATG
* * * * *
93133784 ATA ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA CAAA AAA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
93133829 ATA A-A AT- ATA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
93133852 AGTAATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:93133828 original size:21 final size:22
Alignment explanation
Indices: 93133804--93133851 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
93133794 TAATAGTAAT
*
93133804 AATATTAAAATACAA-AAAAAG
1 AATAATAAAATACAATAAAAAG
* *
93133825 AATAATAAAATATAATAAAAAT
1 AATAATAAAATACAATAAAAAG
93133847 AATAA
1 AATAA
93133852 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAATAAAATACAATAAAAAG
Found at i:93133903 original size:23 final size:25
Alignment explanation
Indices: 93133867--93133931 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
93133857 TTAAAAATCA
*
93133867 TACTATATATATAAATATATATACAC
1 TACTAGATA-ATAAATATATATACAC
*
93133893 -A-TAGGTAATAAA-A-ATATACAC
1 TACTAGATAATAAATATATATACAC
*
93133914 TACTATATAATAAATATA
1 TACTAGATAATAAATATA
93133932 ATAATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
21 8 0.26
22 2 0.06
23 14 0.45
24 5 0.16
25 2 0.06
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (25 bp):
TACTAGATAATAAATATATATACAC
Done.