Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 222 of 444
Found at i:62359132 original size:13 final size:13
Alignment explanation
Indices: 62359116--62359140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62359106 TCCCATAATT
62359116 ACACACATTATAG
1 ACACACATTATAG
62359129 ACACACATTATA
1 ACACACATTATA
62359141 ACATCAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
ACACACATTATAG
Found at i:62362374 original size:50 final size:50
Alignment explanation
Indices: 62362308--62362543 Score: 240
Period size: 50 Copynumber: 4.7 Consensus size: 50
62362298 AAGTTAACGT
* *
62362308 GTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* * * * * * *
62362358 GTGCACGTAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATTTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* * * * * ** * *
62362408 ATACAAATAGTAGCCTACACTTAGTACTACATATGTGATCGAAGTTAA-CGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTG
* * *
62362459 GTACGCATAGTAGCTTGCATTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* *
62362509 GTACACATAGTACCCGGCACTTAGTACTACACATG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATG
62362544 TGACTCACAA
Statistics
Matches: 144, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
49 3 0.02
50 107 0.74
51 33 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
Found at i:62362435 original size:151 final size:149
Alignment explanation
Indices: 62362163--62362548 Score: 548
Period size: 151 Copynumber: 2.6 Consensus size: 149
62362153 GAAGCTCTCT
* * *
62362163 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTATCAACCTGGT-AC----ACCCT
1 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTCACTAGTACCCT
* * ** * *
62362223 ACACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTCCACTTTGTACTACA
66 GCACTTAGTACTACACATGTGACTTAACCATCTGATACAAATAGTAGCCTACACTTAGTACTACA
62362288 CACGTGATCAAAGTTAACG
131 CACGTGATCAAAGTTAACG
* *
62362307 TGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTGCACGTAGTAGC
1 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGT-CAC-TAGTACC
*
62362372 CTGCACTTAGTACTACACATGTGACTTAACCATTTGATACAAATAGTAGCCTACACTTAGTACTA
64 CTGCACTTAGTACTACACATGTGACTTAACCATCTGATACAAATAGTAGCCTACACTTAGTACTA
* * *
62362437 CATATGTGATCGAAGTTAACG
129 CACACGTGATCAAAGTTAACG
*
62362458 GGTACGCATAGTAGCTTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTACC
1 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGT-CAC-TAGTACC
*
62362523 CGGCACTTAGTACTACACATGTGACT
64 CTGCACTTAGTACTACACATGTGACT
62362549 CACAACGGAT
Statistics
Matches: 214, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
144 49 0.23
146 2 0.01
151 163 0.76
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTCACTAGTACCCT
GCACTTAGTACTACACATGTGACTTAACCATCTGATACAAATAGTAGCCTACACTTAGTACTACA
CACGTGATCAAAGTTAACG
Found at i:62362470 original size:101 final size:101
Alignment explanation
Indices: 62362365--62362546 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
62362355 CTGGTGCACG
* * * * * *
62362365 TAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATTTGATACAAATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACAAATAGTACCCGACACTT
*
62362430 AGTACTACATATGTGATCGAAGTTAACGGGTACGCA
66 AGTACTACACATGTGATCGAAGTTAACGGGTACGCA
* * * * * *
62362466 TAGTAGCTTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTACCCGGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACAAATAGTACCCGACACTT
62362531 AGTACTACACATGTGA
66 AGTACTACACATGTGA
62362547 CTCACAACGG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 68 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACAAATAGTACCCGACACTT
AGTACTACACATGTGATCGAAGTTAACGGGTACGCA
Found at i:62362925 original size:19 final size:20
Alignment explanation
Indices: 62362897--62362943 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62362887 AAGAACATGT
62362897 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
62362918 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
62362937 TATATAT
1 TATATAT
62362944 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:62363208 original size:30 final size:29
Alignment explanation
Indices: 62363166--62363222 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
62363156 ATAATCATAC
* *
62363166 TTTTACAAATTTGTATTTTGACCCCTAAA
1 TTTTACAAATTTGCACTTTGACCCCTAAA
* *
62363195 TTTTCACATATTTGCACTTTGGCCCCTA
1 TTTT-ACAAATTTGCACTTTGACCCCTA
62363223 CGCTCGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.44
Consensus pattern (29 bp):
TTTTACAAATTTGCACTTTGACCCCTAAA
Found at i:62366065 original size:54 final size:54
Alignment explanation
Indices: 62365937--62366066 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 54
62365927 TCACTATTTT
* ** *
62365937 CATGCCTTGGCATGGTCTTACATAGGATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATA-GATCCTTGCCTTATAGTAACTTACCAATGC
* * *
62365992 CATGTCTTGACATGGTCTTACAT-GATTTCCTTGCCTTGTAG-AACTTACCAATGC
1 CATGCCTTGGCATGGTCTTACATAGA--TCCTTGCCTTATAGTAACTTACCAATGC
62366046 CATGCCTTGGCATGGTCTTAC
1 CATGCCTTGGCATGGTCTTAC
62366067 TTGGTATCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.03
54 29 0.45
55 33 0.52
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATAGATCCTTGCCTTATAGTAACTTACCAATGC
Found at i:62366077 original size:54 final size:54
Alignment explanation
Indices: 62365871--62366077 Score: 175
Period size: 54 Copynumber: 3.8 Consensus size: 54
62365861 TTTCTTTTTA
* * * * * *
62365871 AACTTACCATTTCCATGTCTTGACATGGTCTTGCGTGGTATCCTTGGCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTTGCCTTATAG
* * * ** * * *
62365924 AACTCACTATTTTCATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTAC-TTGGTATCCTTGCCTTATAG
** * * * * * *
62365978 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTTGCCTTATAG
*
62366033 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTT
62366078 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 34, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
53 39 0.34
54 41 0.35
55 36 0.31
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACTTGGTATCCTTGCCTTATAG
Found at i:62370928 original size:16 final size:16
Alignment explanation
Indices: 62370887--62370936 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
62370877 AATTTTTTTA
62370887 CAATTTTTTGTTCAACTT
1 CAATTTTTT-TTC-ACTT
*
62370905 CAAATTTTTTTCACTT
1 CAATTTTTTTTCACTT
* *
62370921 CGATTTTTTTTTACTT
1 CAATTTTTTTTCACTT
62370937 TTTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 17 0.61
17 3 0.11
18 8 0.29
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.60
Consensus pattern (16 bp):
CAATTTTTTTTCACTT
Found at i:62373783 original size:50 final size:52
Alignment explanation
Indices: 62373675--62373794 Score: 156
Period size: 52 Copynumber: 2.4 Consensus size: 52
62373665 ATGAAAAAAT
* * * *
62373675 GAGTTACTTAATGTATGACTTAATTTAATAATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATAATGCAAACTTTAACTAACATGA
* *
62373727 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATAATGCAAACTTTAACTAACATGA
*
62373777 GAGTTACAT-ATACATGAC
1 GAGTTACATAATGCATGAC
62373795 TTTATTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 7 0.12
50 21 0.35
51 10 0.17
52 22 0.37
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATAATGCAAACTTTAACTAACATGA
Found at i:62375452 original size:18 final size:18
Alignment explanation
Indices: 62375431--62375467 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62375421 CAAGCTCACA
62375431 TTCTCTTTCAGTCTCTTT
1 TTCTCTTTCAGTCTCTTT
* *
62375449 TTCTTTTTCATTCTCTTT
1 TTCTCTTTCAGTCTCTTT
62375467 T
1 T
62375468 CTCATACACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (18 bp):
TTCTCTTTCAGTCTCTTT
Found at i:62375549 original size:21 final size:21
Alignment explanation
Indices: 62375486--62375557 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
62375476 CTTTCTTTTT
*
62375486 ATTTCTTTTACTTTTTTCTATC-
1 ATTTCTTTTA--TTTTTCTCTCA
*
62375508 ATTTCTTTT-TTACTTCTCTCA
1 ATTTCTTTTATT-TTTCTCTCA
*
62375529 ATTTCTTTTATTTTTCGCTCA
1 ATTTCTTTTATTTTTCTCTCA
*
62375550 TTTTCTTT
1 ATTTCTTT
62375558 CATAAAACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.05
20 6 0.14
21 23 0.55
22 11 0.26
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.67
Consensus pattern (21 bp):
ATTTCTTTTATTTTTCTCTCA
Found at i:62377536 original size:50 final size:52
Alignment explanation
Indices: 62377424--62377541 Score: 168
Period size: 50 Copynumber: 2.3 Consensus size: 52
62377414 ATGAACAAAT
* * *
62377424 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* * *
62377476 GAGTTTCATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
62377526 GAGTTACATAATGCAT
1 GAGTTACATAATGCAT
62377542 AACTTTATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 26 0.44
51 11 0.19
52 22 0.37
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:62386720 original size:66 final size:68
Alignment explanation
Indices: 62386591--62386720 Score: 156
Period size: 66 Copynumber: 1.9 Consensus size: 68
62386581 GGGATGTATC
* * *
62386591 CCATCTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATCTAGACAAGAGAGCTAC--G-GAGACAAATGTAGCTAGGTCGCATGAGTGATACCAAGTGA
62386656 AGGACA
63 AGGACA
* * * *
62386662 CCATGTAGACAAGAGAGCTAC-GAGACAAAT-TGGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATCTAGACAAGAGAGCTACGGAGACAAATGTAGCTAGGTCGCATGAGTGATACCAAGTG
62386721 TTCACCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 24 0.46
67 8 0.15
71 20 0.38
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (68 bp):
CCATCTAGACAAGAGAGCTACGGAGACAAATGTAGCTAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:62386901 original size:2 final size:2
Alignment explanation
Indices: 62386894--62386920 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62386884 ATGATTTGTG
62386894 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 A
62386921 AGTTAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62391990 original size:39 final size:39
Alignment explanation
Indices: 62391911--62392001 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
62391901 TGCATGGTAT
* * *
62391911 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCAGACTTAAAGTCCGCAGGCTTAATGC
* *
62391950 TGGAAATATGTCCAGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCAGACTTAAAGTCCGCAGGCTTAA-TGC
62391989 TGGAAAAATATCC
1 TGGAAAAATATCC
62392002 GGGCTAAGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.05
39 42 0.95
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (39 bp):
TGGAAAAATATCCAGACTTAAAGTCCGCAGGCTTAATGC
Found at i:62392028 original size:39 final size:39
Alignment explanation
Indices: 62391996--62392172 Score: 273
Period size: 39 Copynumber: 4.5 Consensus size: 39
62391986 TGCTGGAAAA
*
62391996 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
62392035 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
62392074 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
62392113 ATATCCGAGCTAAGTCCCGAAGGCATTCATGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
62392152 ATATCCGGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
62392173 CATGCTTTGT
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 117 0.93
40 1 0.01
41 8 0.06
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:62397873 original size:39 final size:39
Alignment explanation
Indices: 62397819--62397911 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
62397809 TGCATGGTAT
* *
62397819 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
* *
62397858 TGGAAATATATCCGGACTTAAAGTCCGTAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
62397897 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
62397912 GCTAAGTCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.04
39 46 0.96
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
Found at i:62397936 original size:39 final size:39
Alignment explanation
Indices: 62397855--62398079 Score: 220
Period size: 39 Copynumber: 5.7 Consensus size: 39
62397845 GCAGGCTTTA
* * **
62397855 TGCTGGAAATATATCCGGACTTAAAGT-CCGTAGGC-TAAG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
*
62397894 TGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * * * *
62397933 TGCTAGTATTATATCCGGGCTAAGTCCTGAAGGAATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
*** *
62397972 TGCTGGTGCTATATCCGGGCTAGGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
*** *
62398011 TGCTGGCGTTATATCTGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
62398050 TGCTGGTATTATATCCGGGCTTAAAGTCCC
1 TGCTGGAAATATATCCGGGC-T-AAGTCCC
62398080 ACATGCTTTG
Statistics
Matches: 158, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
37 4 0.03
38 8 0.05
39 138 0.87
40 1 0.01
41 7 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:62405396 original size:18 final size:16
Alignment explanation
Indices: 62405372--62405416 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
62405362 TTTTTTTTTA
62405372 CAATTTTTTTTCAACTT
1 CAATTTTTTTTC-ACTT
*
62405389 CAAATTTTTCTTCACTT
1 C-AATTTTTTTTCACTT
*
62405406 CGATTTTTTTT
1 CAATTTTTTTT
62405417 TGCCTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.20, C:0.18, G:0.02, T:0.60
Consensus pattern (16 bp):
CAATTTTTTTTCACTT
Found at i:62406149 original size:10 final size:10
Alignment explanation
Indices: 62406134--62406167 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
62406124 CTCCATCCAA
62406134 CTCATTTGAG
1 CTCATTTGAG
62406144 CTCATTTGAG
1 CTCATTTGAG
*
62406154 CTCGTTTGAG
1 CTCATTTGAG
62406164 CTCA
1 CTCA
62406168 ACCGAGCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (10 bp):
CTCATTTGAG
Found at i:62417761 original size:15 final size:15
Alignment explanation
Indices: 62417733--62417810 Score: 86
Period size: 15 Copynumber: 5.2 Consensus size: 15
62417723 AGAAAACCGA
62417733 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
62417748 ATAGAGAAACCCAAA
1 ATAAAGAAATCCAAG
62417763 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
62417777 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62417793 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62417808 ATA
1 ATA
62417811 TGATACTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 1 0.02
15 48 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62417783 original size:45 final size:46
Alignment explanation
Indices: 62417713--62417806 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 46
62417703 AATTATGGAA
*
62417713 CAAAATAACAAGAAAACCGAATAAAGAAATCCAAGATAGAGAAACC
1 CAAAATAACAAGAAAACCGAATAAAGAAATCCAAGATAAAGAAACC
* * *
62417759 CAAAAT-A-AAGAAATCCAGAATAAAGAGATCCAGGATAAAGAAACC
1 CAAAATAACAAGAAAACC-GAATAAAGAAATCCAAGATAAAGAAACC
62417804 CAA
1 CAA
62417807 GATATGATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
44 8 0.19
45 29 0.67
46 6 0.14
ACGTcount: A:0.60, C:0.17, G:0.14, T:0.10
Consensus pattern (46 bp):
CAAAATAACAAGAAAACCGAATAAAGAAATCCAAGATAAAGAAACC
Found at i:62420811 original size:46 final size:46
Alignment explanation
Indices: 62420744--62420918 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
62420734 TGTAACCCGC
* *
62420744 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTTACAT
*
62420790 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CT-TTTACAT
* * *** * *
62420840 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAAACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTTACAT
*
62420883 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
62420919 ATGCCCAAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 61 0.58
47 25 0.24
48 1 0.01
49 2 0.02
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTTACAT
Found at i:62420860 original size:93 final size:93
Alignment explanation
Indices: 62420752--62420923 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
62420742 GCCCATAAGT
*** * **
62420752 GAACTCAGACTCAACTCAACGAGCTCGGGCTTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
62420817 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
62420845 GAACTCGGACTCAACTCAACGAGTTCAAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
62420910 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
62420924 CAAACATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:62420938 original size:46 final size:46
Alignment explanation
Indices: 62420749--62420938 Score: 140
Period size: 46 Copynumber: 4.1 Consensus size: 46
62420739 CCCGCCCATA
* * * ***
62420749 AGTGAACTCAGACTCAACTCAACGAGCTCGG--GCTTTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCC-T
* *
62420794 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--AACATC-CT
* ** * **
62420844 --CGAACTCGGACTCAACTCAACGAGTTC--AAACATTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCC-T
*
62420887 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
62420934 AGTGA
1 AGTGA
62420939 CATGTCACTT
Statistics
Matches: 115, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 3 0.03
46 61 0.53
47 26 0.23
48 11 0.10
50 6 0.05
51 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
Found at i:62442455 original size:50 final size:51
Alignment explanation
Indices: 62442376--62442504 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
62442366 GACCATGGCA
*
62442376 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAA-TG
* *
62442427 A-AAGTGATAAGTGATAGCTTCAGTTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
* *
62442477 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCAGCTAC
62442505 GCGATTAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
Found at i:62442518 original size:31 final size:31
Alignment explanation
Indices: 62442480--62442659 Score: 236
Period size: 31 Copynumber: 5.8 Consensus size: 31
62442470 ACAAATGACA
* * *
62442480 AGTGAAAAGTGGTAGCTTCAGCTACGCGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACGTGATC
*
62442511 AGTGAAAAGTGGTAGCTTCAGCTACGTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACGTGATC
* * * *
62442542 AGTGAAAAGTGGTAGGTTCTGCTATGTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACGTGATC
* *
62442573 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACGTGATC
*
62442604 AGTGAAAAGTGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACGTGATC
*
62442635 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
62442660 AAGTGACAAG
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 1 0.01
31 129 0.98
32 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACGTGATC
Found at i:62442754 original size:47 final size:46
Alignment explanation
Indices: 62442684--62442807 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
62442674 AAGTGATTTT
* *
62442684 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
62442730 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
62442777 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
62442808 ATATATGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:62442841 original size:42 final size:43
Alignment explanation
Indices: 62442778--62442892 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
62442768 TATGTGATTC
* *
62442778 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
62442820 GTGTAAGATCATAGCTAGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
62442862 GTGTAAGACCATAG-TTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTAG-GCTATGGCATCGA
62442893 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 59 0.94
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
Found at i:62445533 original size:2 final size:2
Alignment explanation
Indices: 62445526--62445560 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
62445516 TGTCTTTTCT
62445526 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62445561 GTTTATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62450946 original size:27 final size:27
Alignment explanation
Indices: 62450916--62451023 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
62450906 AATCTCATAT
* *
62450916 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
62450943 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * * * *
62450970 TTGTAGGATAGATTTACTGAATTGCCT
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
62450997 CTGTAGGGTGGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
62451024 TTGGTTTACA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:62451038 original size:27 final size:27
Alignment explanation
Indices: 62451008--62451350 Score: 282
Period size: 27 Copynumber: 12.7 Consensus size: 27
62450998 TGTAGGGTGG
* **
62451008 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
62451035 AATTACT-GAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * * *
62451061 AATTACCAAAGTACCCTTAATTAGCAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
62451088 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
62451115 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
62451142 AATTA-TCGAAATACCCCTGATTTGTGA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * ** *
62451169 AATTA-TCGAAATACCCTCGACCTATAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* *
62451196 AATTACTAAAATACCTTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
62451223 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
62451250 AATTACCAATATACCCTTGATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
62451277 AATTACTAAAATACCCTTGACTTT-TAAA
1 AATTACTAAAATACCCTTGA-TTTGT-AA
*
62451305 AATTA-TAGAAATACCCTTGGTTTGTAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* *
62451332 AATTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
62451351 TAGGGTGAAA
Statistics
Matches: 264, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 24 0.09
27 216 0.82
28 24 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:62451369 original size:82 final size:81
Alignment explanation
Indices: 62451194--62451374 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
62451184 CTCGACCTAT
* *
62451194 AAAATTACTAAAATACCTTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAA
1 AAAATGACTAAAATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAA
* * **
62451259 TATACCCTTGATTTGG
66 AACACCCTTGATAGGG
* * * *
62451275 AAAATTACTAAAATACCCTTGACTTTTAAAAATTA-TAGAAATACCCTTGGTTTGTAAAATTACC
1 AAAATGACTAAAATACCCTTGACTTGT-AAAATTACT-GAAATACCCTCGATTTGTAAAATTACC
62451339 AAAACACCCTTG-TAGGG
64 AAAACACCCTTGATAGGG
* *
62451356 TGAAATGATTAAAATACCC
1 -AAAATGACTAAAATACCC
62451375 CTAATAGGTA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
81 29 0.34
82 57 0.66
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (81 bp):
AAAATGACTAAAATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAA
AACACCCTTGATAGGG
Found at i:62451610 original size:41 final size:41
Alignment explanation
Indices: 62451564--62451687 Score: 194
Period size: 41 Copynumber: 3.0 Consensus size: 41
62451554 GAGGAAGAAA
*
62451564 TTGAGGATTGCATGGTTGCTTGACGACTGTGGATCCACCGG
1 TTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCGG
**
62451605 TTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCAA
1 TTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCGG
* * *
62451646 TTAAGGATCGCATGGTTGCTTGATGACCGTGGATCCACCGG
1 TTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCGG
62451687 T
1 T
62451688 GGCTTTTAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
TTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCGG
Found at i:62465810 original size:16 final size:17
Alignment explanation
Indices: 62465773--62465812 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
62465763 TGTTTCTCAC
62465773 TCTTTTTTCTTTTCTAT
1 TCTTTTTTCTTTTCTAT
62465790 T-TTTTTTC-TTTC-ATT
1 TCTTTTTTCTTTTCTA-T
62465805 TCTTTTTT
1 TCTTTTTT
62465813 TCGTCTCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 6 0.29
16 13 0.62
17 1 0.05
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTTTCTTTTCTAT
Found at i:62474268 original size:14 final size:14
Alignment explanation
Indices: 62474249--62474277 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62474239 ATATGCCTCA
62474249 TGCAAAATTTTCCG
1 TGCAAAATTTTCCG
62474263 TGCAAAATTTTCCG
1 TGCAAAATTTTCCG
62474277 T
1 T
62474278 ATAAGTTCCT
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:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TGCAAAATTTTCCG
Found at i:62476066 original size:2 final size:2
Alignment explanation
Indices: 62476059--62476093 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
62476049 GAGACTAGTC
62476059 AT AT 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 AT AT A
62476094 CATGTCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62478129 original size:30 final size:30
Alignment explanation
Indices: 62478095--62478155 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62478085 TCCTTAACTC
62478095 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
62478125 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
62478155 A
1 A
62478156 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:62480118 original size:10 final size:10
Alignment explanation
Indices: 62480099--62480145 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
62480089 TTCTCAATTC
62480099 ATCA-ACCAA
1 ATCATACCAA
62480108 ATCATACCAA
1 ATCATACCAA
*
62480118 ATCTAAACCAAA
1 ATC-ATACC-AA
62480130 ATCATACCAA
1 ATCATACCAA
*
62480140 AGCATA
1 ATCATA
62480146 TGTTTCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 8 0.25
12 5 0.16
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:62480925 original size:43 final size:42
Alignment explanation
Indices: 62480878--62480960 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
62480868 TCTTACATGT
* *
62480878 AATCAAATATAGATGCC-ACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAATA-AGATGCCAAC-ATCCCAGACAGGATCTTACACAA
* * *
62480921 AATCAAGTACGATGCCAACATCCCAGACATGATCTTACAC
1 AATCAAATAAGATGCCAACATCCCAGACAGGATCTTACAC
62480961 GTAAACCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 24 0.71
43 10 0.29
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.20
Consensus pattern (42 bp):
AATCAAATAAGATGCCAACATCCCAGACAGGATCTTACACAA
Found at i:62495094 original size:46 final size:46
Alignment explanation
Indices: 62494971--62495095 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
62494961 TGTAACCCGC
* * *
62494971 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
62495017 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
62495063 CCATAAGTGAACTCGGACTCAATTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
62495096 AGGATGCCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:62502522 original size:41 final size:42
Alignment explanation
Indices: 62502434--62502533 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
62502424 AATATTCGAT
*
62502434 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACA
*** *
62502476 ATCTCGCACACTAAGTGCCTTTG-ATAGCTGAAGCTATCT-CA
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTAT-TACA
* *
62502517 GTCTCGCGCACTAAGTG
1 ATCTCGCACACTAAGTG
62502534 TCATATTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 29 0.58
42 21 0.42
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACA
Found at i:62502601 original size:40 final size:41
Alignment explanation
Indices: 62502482--62502614 Score: 123
Period size: 40 Copynumber: 3.3 Consensus size: 41
62502472 TATAATCTCG
** *
62502482 CACACTAAGTGCCT-T-TGATAGCTGAAGCTATCTCAGTCTCG
1 CACACTAAGTG-CTATAT-ATAGCTGAAGCTATCTCAGAATCA
* * * *
62502523 CGCACTAAGTG-TCATATTTAGCAGAAGCTAT-TCTGAATCA
1 CACACTAAGTGCT-ATATATAGCTGAAGCTATCTCAGAATCA
*
62502563 CACACTAAGTGCTATATATAGCTGAAACTATCTC-GAATCA
1 CACACTAAGTGCTATATATAGCTGAAGCTATCTCAGAATCA
*
62502603 CACATTAAGTGC
1 CACACTAAGTGC
62502615 CAAACATAGT
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 47 0.63
41 26 0.35
42 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (41 bp):
CACACTAAGTGCTATATATAGCTGAAGCTATCTCAGAATCA
Found at i:62504883 original size:27 final size:27
Alignment explanation
Indices: 62504853--62504915 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
62504843 ATGTAAAAAC
62504853 TAAGACACATAATTAAAGTGCAGTATT
1 TAAGACACATAATTAAAGTGCAGTATT
*
62504880 TAAGACACATAATTATAGTGCAGTATT
1 TAAGACACATAATTAAAGTGCAGTATT
62504907 TAAGACACA
1 TAAGACACA
62504916 CATTTAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (27 bp):
TAAGACACATAATTAAAGTGCAGTATT
Found at i:62507403 original size:12 final size:12
Alignment explanation
Indices: 62507386--62507416 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
62507376 CTCTCCCTAT
62507386 ATCACTCTTAAG
1 ATCACTCTTAAG
62507398 ATCACTCTTAAG
1 ATCACTCTTAAG
62507410 ATCACTC
1 ATCACTC
62507417 AACTTTATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (12 bp):
ATCACTCTTAAG
Found at i:62508474 original size:27 final size:26
Alignment explanation
Indices: 62508418--62508474 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
62508408 CAACCTTAAC
* * *
62508418 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
62508444 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
62508471 CCTA
1 CCTA
62508475 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:62512752 original size:21 final size:22
Alignment explanation
Indices: 62512728--62512771 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
62512718 AAACGAGCTC
62512728 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
62512749 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
62512771 G
1 G
62512772 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:62515077 original size:10 final size:10
Alignment explanation
Indices: 62515062--62515088 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
62515052 TACTCCTTCA
62515062 AGCTCAAATC
1 AGCTCAAATC
62515072 AGCTCAAATC
1 AGCTCAAATC
62515082 AGCTCAA
1 AGCTCAA
62515089 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:62519536 original size:13 final size:14
Alignment explanation
Indices: 62519517--62519554 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
62519507 TGCATAAATC
62519517 ATTTTTTTTTCG-A
1 ATTTTTTTTTCGAA
*
62519530 TTTTTTTTTTCGAA
1 ATTTTTTTTTCGAA
62519544 ATTTTTTTTTC
1 ATTTTTTTTTC
62519555 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (14 bp):
ATTTTTTTTTCGAA
Found at i:62521192 original size:10 final size:10
Alignment explanation
Indices: 62521177--62521203 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
62521167 TAAGTTGAAG
62521177 TTGAGCTGAT
1 TTGAGCTGAT
62521187 TTGAGCTGAT
1 TTGAGCTGAT
62521197 TTGAGCT
1 TTGAGCT
62521204 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:62528284 original size:30 final size:30
Alignment explanation
Indices: 62528199--62528295 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
62528189 TAAACTAAAA
* *
62528199 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
62528229 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* *
62528259 TGAGTTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
62528288 ATGAGCTA
1 -TGAGCTA
62528296 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:62537014 original size:18 final size:18
Alignment explanation
Indices: 62536988--62537031 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
62536978 CTCGGTGGCT
* *
62536988 GCTGAACACCTTTCAGCG
1 GCTGTACACCCTTCAGCG
62537006 GCTGTACACCCTTCAGCG
1 GCTGTACACCCTTCAGCG
62537024 GCTGTACA
1 GCTGTACA
62537032 TTACCCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (18 bp):
GCTGTACACCCTTCAGCG
Found at i:62537812 original size:13 final size:13
Alignment explanation
Indices: 62537794--62537818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62537784 TATTTAAAAA
62537794 TTATTTTATGTGT
1 TTATTTTATGTGT
62537807 TTATTTTATGTG
1 TTATTTTATGTG
62537819 AATTTGTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TTATTTTATGTGT
Found at i:62561369 original size:14 final size:14
Alignment explanation
Indices: 62561350--62561394 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
62561340 AACTCATCTT
*
62561350 AGTTTAATTAAATG
1 AGTTTAATTTAATG
62561364 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
62561377 AATTTAATTTAATG
1 AGTTTAATTTAATG
62561391 AGTT
1 AGTT
62561395 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:62562399 original size:29 final size:29
Alignment explanation
Indices: 62562366--62562425 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
62562356 ATAACCAAAC
*
62562366 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
62562395 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
62562424 CT
1 CT
62562426 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:62562418 original size:15 final size:15
Alignment explanation
Indices: 62562372--62562419 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
62562362 AAACCTACAA
*
62562372 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
62562387 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
62562401 AAACTTCATATCCAT
1 AAACTTCATATCCAT
62562416 AAAC
1 AAAC
62562420 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:62563766 original size:18 final size:18
Alignment explanation
Indices: 62563743--62563792 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
62563733 GAAAGAAAAA
*
62563743 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
62563761 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
62563779 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
62563793 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:62563769 original size:24 final size:24
Alignment explanation
Indices: 62563736--62563817 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
62563726 AAGAAATGAA
62563736 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
62563760 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
62563784 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
*
62563808 AGAGAAAGAA
1 AGAAAAAGAA
62563818 TGTGAACAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:62566289 original size:14 final size:14
Alignment explanation
Indices: 62566270--62566314 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
62566260 AACTCATCTT
*
62566270 AGTTTAATTAAATG
1 AGTTTAATTTAATG
62566284 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
62566297 AATTTAATTTAATG
1 AGTTTAATTTAATG
62566311 AGTT
1 AGTT
62566315 GCTTTTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:62567327 original size:15 final size:15
Alignment explanation
Indices: 62567281--62567328 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
62567271 AAACCTAAAA
*
62567281 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
62567296 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
62567310 AAACTTCATATCCAT
1 AAACTTCATATCCAT
62567325 AAAC
1 AAAC
62567329 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:62568059 original size:14 final size:14
Alignment explanation
Indices: 62568012--62568059 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
62568002 GTACGAATGG
*
62568012 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
62568026 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
62568040 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
62568054 ATTGGT
1 AATGGT
62568060 CAGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:62572915 original size:13 final size:12
Alignment explanation
Indices: 62572885--62572920 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
62572875 TTATACAAGT
62572885 TTGAAAAAAAAA
1 TTGAAAAAAAAA
62572897 TT-AAAAAAAAA
1 TTGAAAAAAAAA
62572908 TTCGAAAAAAAAA
1 TT-GAAAAAAAAA
62572921 GTGATTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.50
12 2 0.09
13 9 0.41
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (12 bp):
TTGAAAAAAAAA
Found at i:62584784 original size:40 final size:40
Alignment explanation
Indices: 62584567--62584782 Score: 371
Period size: 40 Copynumber: 5.4 Consensus size: 40
62584557 ATAGCAACTC
* * *
62584567 GCACGAATGCCTTCGGGACTTAGCCCGGACATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
*
62584607 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
62584647 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
*
62584687 GCACAAATACCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
62584727 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATATAATCACTA
62584767 GCACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
62584783 ATAATCATGC
Statistics
Matches: 169, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 3 0.02
40 165 0.98
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
Found at i:62592551 original size:40 final size:40
Alignment explanation
Indices: 62592502--62592733 Score: 377
Period size: 40 Copynumber: 5.9 Consensus size: 40
62592492 ACCTTCGAAT
* *
62592502 TTAG-CCGGATATAG-CAACTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
62592541 TTAGCCCGG--ATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
62592579 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
62592618 TTAGCCCGGATA-AGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
62592657 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
62592697 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
62592734 ATCTTAGTCC
Statistics
Matches: 184, Mismatches: 3, Indels: 11
0.93 0.02 0.06
Matches are distributed among these distances:
38 56 0.30
39 37 0.20
40 91 0.49
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:62592634 original size:78 final size:79
Alignment explanation
Indices: 62592502--62592733 Score: 382
Period size: 78 Copynumber: 3.0 Consensus size: 79
62592492 ACCTTCGAAT
* *
62592502 TTAG-CCGGATATAG-CAACTCGCACGAATGCCTTCGGGACTTAGCCCGGAT-AGTCACTAGCAC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAGTCACTAGCAC
62592564 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
62592579 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGACTTAGCCCGGATAAGTCACTAGCACA
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAGTCACTAGCACA
62592643 AATGCCTTCGGGAC
66 AATGCCTTCGGGAC
* *
62592657 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA-AGTCACTAGCAC
62592722 AAATGCCTTCGG
65 AAATGCCTTCGG
62592734 ATCTTAGTCC
Statistics
Matches: 146, Mismatches: 4, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
77 19 0.13
78 87 0.60
79 17 0.12
80 23 0.16
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (79 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAGTCACTAGCACA
AATGCCTTCGGGAC
Found at i:62592709 original size:118 final size:117
Alignment explanation
Indices: 62592493--62592745 Score: 388
Period size: 118 Copynumber: 2.2 Consensus size: 117
62592483 AACCCAAGTA
* * * *
62592493 CCTTCGAAT-TTAG-CCGGATATAG-CAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATAGT
1 CCTTCGGATCTTAGCCCGGATA-AGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAT
*
62592555 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
64 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
62592609 CCTTCGGA-CTTAGCCCGGATAAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
1 CCTTCGGATCTTAGCCCGGATAAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG--ATAAT
62592673 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
64 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
62592727 CCTTCGGATCTTAGTCCGG
1 CCTTCGGATCTTAGCCCGG
62592746 TTATCATTCG
Statistics
Matches: 125, Mismatches: 6, Indels: 9
0.89 0.04 0.06
Matches are distributed among these distances:
116 43 0.34
117 8 0.06
118 65 0.52
119 9 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (117 bp):
CCTTCGGATCTTAGCCCGGATAAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAATCA
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:62596015 original size:15 final size:15
Alignment explanation
Indices: 62595995--62596024 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62595985 CGCTGAGGTA
62595995 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
62596010 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
62596025 CGTCAAAATC
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:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTCAATTTCTGTT
Found at i:62596129 original size:72 final size:72
Alignment explanation
Indices: 62596011--62596282 Score: 456
Period size: 72 Copynumber: 3.8 Consensus size: 72
62596001 ATTTCTGTTT
* *
62596011 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGT
62596075 TGAGGTAA
65 TGAGGTAA
62596083 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
62596148 GAGGTAA
66 GAGGTAA
* *
62596155 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
*
62596220 GAGGTAT
66 GAGGTAA
* *
62596227 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC
62596283 GGTTCACATG
Statistics
Matches: 189, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
71 2 0.01
72 153 0.81
73 34 0.18
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:62597552 original size:11 final size:11
Alignment explanation
Indices: 62597538--62597578 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
62597528 AAACATAAAA
62597538 AAAAAATATAC
1 AAAAAATATAC
*
62597549 AAAAGATATAC
1 AAAAAATATAC
62597560 AAAAAATATAC
1 AAAAAATATAC
62597571 AAAAAATA
1 AAAAAATA
62597579 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAAATATAC
Found at i:62597586 original size:22 final size:21
Alignment explanation
Indices: 62597535--62597588 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
62597525 TTAAAACATA
*
62597535 AAAAAAAAATATACAAAAGAT
1 AAAAAAAAATATACAAAAAAT
*
62597556 ATACAAAAAATATACAAAAAAT
1 A-AAAAAAAATATACAAAAAAT
62597578 AAAATAAAAAT
1 AAAA-AAAAAT
62597589 TTGGGCCTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAAAAAATATACAAAAAAT
Found at i:62598913 original size:46 final size:46
Alignment explanation
Indices: 62598863--62599037 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
62598853 TATTTGGGCA
62598863 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62598909 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
62598955 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
62599001 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62599038 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 9 0.08
46 80 0.73
47 9 0.08
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62599016 original size:92 final size:93
Alignment explanation
Indices: 62598859--62599029 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
62598849 TGGATATTTG
* *
62598859 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62598924 TTGAGT-CGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
62598951 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62599016 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62599030 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 68 0.91
93 7 0.09
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62603211 original size:29 final size:29
Alignment explanation
Indices: 62603183--62603283 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
62603173 CCTCCGAGCT
** * *
62603183 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTTCCAGCA
* *
62603212 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
62603241 CGCACACTTAGTGCCATA-TTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
62603269 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
62603284 GATCTCGTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 24 0.38
29 40 0.62
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATTTTTCCAGCA
Found at i:62605107 original size:15 final size:15
Alignment explanation
Indices: 62605068--62605147 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
62605058 GTATCTTGGG
*
62605068 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
62605083 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
62605098 TTTCTTTATTCT-GA
1 TTTCTTTATTCTGGA
*
62605112 GTTTCTCTA-TCTTGGA
1 -TTTCTTTATTC-TGGA
*
62605128 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
62605142 TTTCTT
1 TTTCTT
62605148 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.22
15 39 0.71
16 4 0.07
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62605137 original size:30 final size:30
Alignment explanation
Indices: 62605059--62605138 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
62605049 CATAGTATCG
* * *
62605059 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
62605089 TAT-TCTGGATTTCTTTATTCT-GAGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGA-TCTCTC
62605119 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
62605139 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 3 0.07
30 39 0.91
31 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:62607581 original size:46 final size:46
Alignment explanation
Indices: 62607528--62607703 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62607518 TATTTGGGCA
62607528 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62607574 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-CTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
62607621 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
62607667 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62607704 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 66 0.59
47 32 0.29
48 3 0.03
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62607683 original size:93 final size:93
Alignment explanation
Indices: 62607524--62607695 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62607514 GGGATATTTG
* *
62607524 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
62607589 TTGAGTTCGAGTTCCTGAGATGTAACTA
66 TTGAGTCCGAGTTCCTGAGATGTAACTA
*
62607617 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62607682 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62607696 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCCTGAGATGTAACTA
Found at i:62609516 original size:3 final size:3
Alignment explanation
Indices: 62609508--62609714 Score: 118
Period size: 3 Copynumber: 66.0 Consensus size: 3
62609498 TGCATTTCAA
62609508 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
62609556 TGA- AAT ACAT TAGT GTAT ATCT TCAT GTAT GTAT ATAT ATAT GTAG TAA
1 T-AT TAT -TAT TA-T -TAT -TAT T-AT -TAT -TAT -TAT -TAT -TAT TAT
* * * * * ** *
62609605 TGT T-T CTAT TAC T-T TAT T-T TAA TAT TTT TAT TAT AAT GGT TTT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
62609648 TGT GT-T TCAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62609694 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
62609715 ATATCCTTGT
Statistics
Matches: 164, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
2 6 0.04
3 129 0.79
4 26 0.16
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:62609989 original size:33 final size:30
Alignment explanation
Indices: 62609931--62610000 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
62609921 TAATATTATG
*
62609931 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
62609961 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
62609994 TATATAT
1 TATATAT
62610001 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:62609993 original size:2 final size:2
Alignment explanation
Indices: 62609986--62610010 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62609976 TACTATTATT
62609986 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
62610011 TTTCTTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62610419 original size:14 final size:14
Alignment explanation
Indices: 62610400--62610433 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
62610390 ATATTTTTGC
62610400 ATATTATCTTATAT
1 ATATTATCTTATAT
*
62610414 ATATTACCTTATAT
1 ATATTATCTTATAT
62610428 -TATTAT
1 ATATTAT
62610434 TACTAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTATCTTATAT
Found at i:62618743 original size:40 final size:40
Alignment explanation
Indices: 62618688--62618893 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
62618678 TGAATGATAC
*
62618688 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
62618728 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
62618768 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
62618808 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
62618848 CCGGGTTAAGA-CC-AAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
62618886 CC-GGCTAA
1 CCGGGCTAA
62618894 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
37 5 0.03
38 19 0.13
39 3 0.02
40 115 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:62625581 original size:37 final size:37
Alignment explanation
Indices: 62625502--62625584 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
62625492 AACCTTTAGT
* * *
62625502 TCGGGGCTTACCCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
*
62625539 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
62625576 TCGGGTCTT
1 TCGGGTCTT
62625585 TAGAGCTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.24
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
Found at i:62625771 original size:47 final size:47
Alignment explanation
Indices: 62625702--62626326 Score: 1018
Period size: 47 Copynumber: 13.3 Consensus size: 47
62625692 CCCTTCGGGA
* * * * *
62625702 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62625749 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62625796 CTTATCACATATATGCACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62625842 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
62625889 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62625936 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62625983 CTTGTCACATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62626030 CTTAGCACATCTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62626077 CGTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62626124 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62626171 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62626218 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62626265 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62626312 CTTATCACATATATA
1 CTTATCACATATATA
62626327 TATCTCATAC
Statistics
Matches: 542, Mismatches: 35, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 43 0.08
47 499 0.92
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62625780 original size:25 final size:25
Alignment explanation
Indices: 62625752--62625830 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
62625742 ACTCGGCCTT
*
62625752 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
62625777 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
62625799 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
62625824 ATCACAT
1 ATCACAT
62625831 GGCCATTAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:62636451 original size:40 final size:40
Alignment explanation
Indices: 62636406--62636535 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
62636396 CGGAATACAA
62636406 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
62636446 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
62636486 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62636526 CCGGATATAA
1 CCGGATATAA
62636536 TTTCCAGCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62645523 original size:29 final size:29
Alignment explanation
Indices: 62645490--62645552 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
62645480 ACACAGAGCA
*
62645490 AGCTAAAAAGAGCTTAGTAAGCCAAATAC
1 AGCTAAAAAGAGCTTAGCAAGCCAAATAC
* *
62645519 AGCTACAAAGAGCTTAGCAAGTCAAATAC
1 AGCTAAAAAGAGCTTAGCAAGCCAAATAC
62645548 AGCTA
1 AGCTA
62645553 GTCCATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.17
Consensus pattern (29 bp):
AGCTAAAAAGAGCTTAGCAAGCCAAATAC
Found at i:62652868 original size:30 final size:30
Alignment explanation
Indices: 62652827--62652900 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
62652817 TTGGACAACT
*
62652827 TGACTATTTTGCCCTTAGACTTTCACAAAA
1 TGACCATTTTGCCCTTAGACTTTCACAAAA
62652857 TGACCATTTTGCCCTTAGACTTTCACAAAA
1 TGACCATTTTGCCCTTAGACTTTCACAAAA
62652887 TGACCATTTTGCCC
1 TGACCATTTTGCCC
62652901 CTATACTCGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (30 bp):
TGACCATTTTGCCCTTAGACTTTCACAAAA
Found at i:62658029 original size:93 final size:93
Alignment explanation
Indices: 62657917--62658088 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62657907 GCCCATAAGT
* *
62657917 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62657982 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62658010 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62658075 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62658089 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62658084 original size:46 final size:46
Alignment explanation
Indices: 62657909--62658084 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62657899 TGTAACCCGC
* * *
62657909 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62657955 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62658005 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62658048 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62658085 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62660505 original size:29 final size:29
Alignment explanation
Indices: 62660466--62660553 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
62660456 CAAAGATAAC
*
62660466 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
62660495 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
62660524 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
62660554 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:62660524 original size:15 final size:15
Alignment explanation
Indices: 62660466--62660544 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
62660456 CAAAGATAAC
*
62660466 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62660480 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62660495 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
62660509 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62660524 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62660539 AAGAAA
1 AAGAAA
62660545 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62660553 original size:15 final size:15
Alignment explanation
Indices: 62660477--62660553 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
62660467 AGAAAACCGA
62660477 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
62660492 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
62660506 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
62660520 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62660536 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62660551 ATA
1 ATA
62660554 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62663579 original size:93 final size:93
Alignment explanation
Indices: 62663467--62663638 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62663457 GCCCATAAGT
* *
62663467 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62663532 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62663560 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62663625 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62663639 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62663634 original size:46 final size:46
Alignment explanation
Indices: 62663459--62663634 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62663449 TGTAACCCGC
* * *
62663459 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62663505 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62663555 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62663598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62663635 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62668007 original size:54 final size:54
Alignment explanation
Indices: 62667933--62668132 Score: 267
Period size: 54 Copynumber: 3.7 Consensus size: 54
62667923 ATTACTGAAA
** * * *
62667933 TACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCCTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* *
62667987 CACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTCTAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * *
62668041 TACCTTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* *
62668095 TACCTTC-AGTTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATT
62668133 GTGAAATTAC
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
53 1 0.01
54 129 0.99
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
Found at i:62668050 original size:81 final size:81
Alignment explanation
Indices: 62667933--62668132 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 81
62667923 ATTACTGAAA
* *
62667933 TACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCCTTTCACCCTCGATT
1 TACCCTCGATTTCTAGAATTACCATTTTACCCTCGATTTACAGAATTACCCTTTCACCCTCGATT
*
62667998 TACAAAATTACCGTTT
66 TACAAAATTACCATTT
* * *
62668014 TACCCTCGATTTCTAGAATTACCATTTTACCTTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTCTAGAATTACCATTTTACCCTCGATTTACAGAATTACCCTTTCACCCTCGATT
62668079 TACAAAATTACCATTT
66 TACAAAATTACCATTT
* * **
62668095 TACCTTC-AGTTTAC-AAAATTACTGTTTTACCCTCGATT
1 TACCCTCGA-TTT-CTAGAATTACCATTTTACCCTCGATT
62668133 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 104 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTCTAGAATTACCATTTTACCCTCGATTTACAGAATTACCCTTTCACCCTCGATT
TACAAAATTACCATTT
Found at i:62668095 original size:27 final size:27
Alignment explanation
Indices: 62667933--62668132 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
62667923 ATTACTGAAA
**
62667933 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
62667960 TACCCTCGATTTATAGAATTACCCTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
62667987 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
62668014 TACCCTCGATTT-CTAGAATTACCATTT
1 TACCCTCGATTTAC-AGAATTACCATTT
* *
62668041 TACCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
62668068 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
62668095 TACCTTC-AGTTTACAAAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCATTT
62668122 TACCCTCGATT
1 TACCCTCGATT
62668133 GTGAAATTAC
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 147 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:62668180 original size:54 final size:53
Alignment explanation
Indices: 62668122--62668288 Score: 147
Period size: 54 Copynumber: 3.1 Consensus size: 53
62668112 ATTACTGTTT
* * * * *
62668122 TACCCTCGATTGTGAAATTACTGAAATACCCTTTGTGGGATAGAATTACCAAAA
1 TACCCTAGTTTGTGAAATTACCGAAATACCCTTAGT-GGATAAAATTACCAAAA
* * * ***
62668176 TACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTTTAAAATTACCAAAA
1 TA-CCCTAGTTTGTGAAATTACCGAAATACCCTTAGTGGATAAAATTACCAAAA
* * * * *
62668230 TACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTG-TAAAATTACTAAAA
1 TACC-CTAGTTTGTGAAATTACCGAAATACCCT-TAGTGGATAAAATTACCAAAA
62668284 TACCC
1 TACCC
62668289 CTGATTTACA
Statistics
Matches: 91, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
53 3 0.03
54 58 0.64
55 30 0.33
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (53 bp):
TACCCTAGTTTGTGAAATTACCGAAATACCCTTAGTGGATAAAATTACCAAAA
Found at i:62668199 original size:27 final size:27
Alignment explanation
Indices: 62668165--62668290 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
62668155 TGTGGGATAG
62668165 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
62668192 AATTACCAAAATACCCCTAGTTTTTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
62668219 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
62668246 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
62668273 AATTACTAAAATACCCCT
1 AATTACCAAAATACCCCT
62668291 GATTTACAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.04
27 78 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:62668311 original size:54 final size:53
Alignment explanation
Indices: 62668165--62668372 Score: 154
Period size: 54 Copynumber: 3.8 Consensus size: 53
62668155 TGTGGGATAG
* * * *
62668165 AATTACCAAAATACCCCTAGTTTGTA-AAATTACCA-AAATACCC-CTAGTTTTTAA
1 AATTACCAAAATACCACT-GGTT-TACAAATTA-CAGAAATACCCTC-AATTTCTAA
** * *
62668219 AATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGGTTT-ACAAATTACAGAAATACCCTCAATTTCTAA
* * * * *
62668273 AATTACTAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGGTTTACAAA-TTACAGAAATACCC-TCAATTTCT-AA
* * *
62668329 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCACTGGTTTAC-AAATTACAGAAATACCCT
62668373 TGGTTTGTAG
Statistics
Matches: 126, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.06
54 71 0.56
55 10 0.08
56 34 0.27
57 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCACTGGTTTACAAATTACAGAAATACCCTCAATTTCTAA
Found at i:62668312 original size:81 final size:81
Alignment explanation
Indices: 62668165--62668314 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
62668155 TGTGGGATAG
* *
62668165 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTTTAAAATTACCAAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTATTTAAAATTACCAAAA
62668230 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
62668246 AATTACCGAAATA-CCCTCAATTTGTAAAATTACTAAAATACCCCT-G-ATTTACAAAGTTA-CA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAGTATTTA-AAA-TTACCA
62668307 GAAATACC
63 -AAATACC
62668315 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
79 4 0.07
80 10 0.16
81 47 0.77
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTATTTAAAATTACCAAAA
TACCACTGGTTTGTGA
Found at i:62668366 original size:27 final size:27
Alignment explanation
Indices: 62668271--62668378 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
62668261 CTCAATTTGT
* * *
62668271 AAAATTACTAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *
62668298 AAAGTTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
62668325 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
62668354 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
62668379 GTAGATTTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
27 40 0.62
28 7 0.11
29 18 0.28
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:62668455 original size:27 final size:27
Alignment explanation
Indices: 62668423--62668523 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 27
62668413 GAATAAAATA
*
62668423 CCCCTATTAGGTAAAAAGACCGTAAAG
1 CCCCTATTAGGTAAAATGACCGTAAAG
62668450 CCCCTA-TAGGGTAAAATGACCGTAAAG
1 CCCCTATTA-GGTAAAATGACCGTAAAG
* * *
62668477 CCCCTGTAAGGTAAAGTGACCGTAATA-
1 CCCCTATTAGGTAAAATGACCGTAA-AG
*
62668504 CCCCT-GTATGGTAAAATGAC
1 CCCCTATTA-GGTAAAATGAC
62668524 GAATATGCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 3 0.05
27 58 0.92
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (27 bp):
CCCCTATTAGGTAAAATGACCGTAAAG
Found at i:62669235 original size:9 final size:10
Alignment explanation
Indices: 62669223--62669277 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 10
62669213 TACGTGGGAT
62669223 ATGATAT-AC
1 ATGATATGAC
*
62669232 ATGAT-TGAT
1 ATGATATGAC
62669241 ATGATATGCAC
1 ATGATATG-AC
*
62669252 ATGATATG-T
1 ATGATATGAC
62669261 ATGATATGCAC
1 ATGATATG-AC
62669272 ATGATA
1 ATGATA
62669278 CGTATGAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.51
10 2 0.05
11 15 0.41
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:62669245 original size:5 final size:5
Alignment explanation
Indices: 62669220--62669268 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
62669210 TGATACGTGG
* *
62669220 GATAT GATAT -ACAT GAT-T GATAT GATAT GCACAT GATAT G-TAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT G-ATAT GATAT GATAT GATAT
62669268 G
1 G
62669269 CACATGATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 11 0.31
5 21 0.58
6 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (5 bp):
GATAT
Found at i:62669255 original size:20 final size:21
Alignment explanation
Indices: 62669220--62669296 Score: 92
Period size: 20 Copynumber: 3.9 Consensus size: 21
62669210 TGATACGTGG
62669220 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
62669238 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
62669259 G-TATGATATGCACATGATAC
1 GATATGATATGCACATGATAT
* *
62669279 G-TATGAGATGCAAATGAT
1 GATATGATATGCACATGAT
62669297 GAATTCATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 10 0.19
20 41 0.77
21 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:62669257 original size:11 final size:11
Alignment explanation
Indices: 62669241--62669277 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
62669231 CATGATTGAT
62669241 ATGATATGCAC
1 ATGATATGCAC
*
62669252 ATGATATG--T
1 ATGATATGCAC
62669261 ATGATATGCAC
1 ATGATATGCAC
62669272 ATGATA
1 ATGATA
62669278 CGTATGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62669375 original size:26 final size:26
Alignment explanation
Indices: 62669346--62669514 Score: 243
Period size: 26 Copynumber: 6.6 Consensus size: 26
62669336 GAGGAAGTGT
* *
62669346 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
62669372 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
62669398 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
62669424 AAAAGGGCTTATGCGCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
62669450 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
62669476 AAAAAGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
62669501 AAAAGGGCTT-TGCC
1 AAAAGGGCTTATGCC
62669515 TAGTTATTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 27 0.21
26 100 0.79
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:62669424 original size:52 final size:52
Alignment explanation
Indices: 62669346--62669514 Score: 279
Period size: 52 Copynumber: 3.3 Consensus size: 52
62669336 GAGGAAGTGT
* *
62669346 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
62669398 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCGCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
62669450 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
62669501 AAAAGGGCTT-TGCC
1 AAAAGGGCTTATGCC
62669515 TAGTTATTAA
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 4 0.04
51 23 0.21
52 84 0.76
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:62669723 original size:42 final size:42
Alignment explanation
Indices: 62669664--62669755 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
62669654 TAGTCTCCCC
* *
62669664 AAATGAGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
* *
62669706 AAATGGGCTTGCATACATTCCTTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
62669748 AAATGGGC
1 AAATGGGC
62669756 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:62669816 original size:31 final size:31
Alignment explanation
Indices: 62669771--62669831 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
62669761 GGCCATACCG
62669771 TTTATAATAAAGGCTTCGGCCCAGTGATATGA
1 TTTATAATAAAGGCTTCGGCCCAGT-ATATGA
62669803 TTTATAA-AAAGGCTTCGGCCCAGTATATG
1 TTTATAATAAAGGCTTCGGCCCAGTATATG
62669832 TCGAGACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 5 0.17
31 17 0.59
32 7 0.24
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (31 bp):
TTTATAATAAAGGCTTCGGCCCAGTATATGA
Found at i:62673049 original size:47 final size:47
Alignment explanation
Indices: 62672979--62673151 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
62672969 CCCTTCGGGA
* *
62672979 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
62673026 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
62673073 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
62673120 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
62673152 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:62673126 original size:22 final size:22
Alignment explanation
Indices: 62673054--62673129 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
62673044 CTTCACATCC
*
62673054 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
62673076 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
62673100 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
62673123 ATCACAT
1 ATCACAT
62673130 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:62676623 original size:28 final size:28
Alignment explanation
Indices: 62676591--62676684 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 28
62676581 TTCACGCACT
* *
62676591 TAGTGCCCACTGACCGATCTCGCACACA
1 TAGTGCCCAATGACAGATCTCGCACACA
* * *
62676619 TAGTGCTCAGTTGA-AGAACTCGCACACA
1 TAGTGCCCA-ATGACAGATCTCGCACACA
* * * *
62676647 CAGTGCCTCAATTACTGATTTCGCACACA
1 TAGTGCC-CAATGACAGATCTCGCACACA
62676676 TAGTGCCCA
1 TAGTGCCCA
62676685 TATTCATTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 29 0.57
29 22 0.43
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
TAGTGCCCAATGACAGATCTCGCACACA
Found at i:62676872 original size:43 final size:43
Alignment explanation
Indices: 62676813--62677080 Score: 448
Period size: 43 Copynumber: 6.3 Consensus size: 43
62676803 CCTTGCTCGA
** **
62676813 ATCACCGGCATTAAGCCTGCTAGGCACGAAAACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* * *
62676856 ATTATCGGCACAAAGCCTGCTAGGCACGAAGGCCTGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
62676899 ATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
62676942 ATCA-CGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
62676984 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
62677027 ATCACCGGCACAAAGCCTGCTAGGCATGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
62677070 ATCACCGGCAC
1 ATCACCGGCAC
62677081 GAATGCTCTT
Statistics
Matches: 214, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 42 0.20
43 172 0.80
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:62677046 original size:128 final size:129
Alignment explanation
Indices: 62676813--62677080 Score: 448
Period size: 128 Copynumber: 2.1 Consensus size: 129
62676803 CCTTGCTCGA
** * *
62676813 ATCACCGGCATTAAGCCTGCTAGGCACGAAAACCCGAATACATATTATCGGCACAAAGCCTGCTA
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAAACCCGAATACATATCACCGGCACAAAGCCTGCTA
* *
62676878 GGCACGAAGGCCTGAATACATATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
66 GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
**
62676942 ATCA-CGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTA
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAAACCCGAATACATATCACCGGCACAAAGCCTGCTA
*
62677006 GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCATGAAGGCCCGAATACAT
66 GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
62677070 ATCACCGGCAC
1 ATCACCGGCAC
62677081 GAATGCTCTT
Statistics
Matches: 129, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
128 119 0.92
129 10 0.08
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (129 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAAACCCGAATACATATCACCGGCACAAAGCCTGCTA
GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:62679132 original size:47 final size:47
Alignment explanation
Indices: 62679062--62679234 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
62679052 CCCTTCGGGA
* *
62679062 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
62679109 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
62679156 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
62679203 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
62679235 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:62679209 original size:22 final size:22
Alignment explanation
Indices: 62679137--62679212 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
62679127 CTTCACATCC
*
62679137 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
62679159 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
62679183 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
62679206 ATCACAT
1 ATCACAT
62679213 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Done.