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 182 of 311
Found at i:62376973 original size:25 final size:26
Alignment explanation
Indices: 62376927--62376994 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
62376917 ACACACCCTA
* *
62376927 GCTCTT-ATGAGCATCCCGATTAAA-G
1 GCTCTTCATGAGCTTCAC-ATTAAACG
*
62376952 GCTCTTCGTGAGCTTCACATTAAATCG
1 GCTCTTCATGAGCTTCACATTAAA-CG
*
62376979 GCTCTTTATGAGCTTC
1 GCTCTTCATGAGCTTC
62376995 CCTATAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.34
26 8 0.23
27 15 0.43
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCACATTAAACG
Found at i:62378448 original size:93 final size:92
Alignment explanation
Indices: 62378282--62378449 Score: 230
Period size: 93 Copynumber: 1.8 Consensus size: 92
62378272 TTATGAGAGC
** * *
62378282 CAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTACTGTAAGACCTGTCT
1 CAGTGTAAGACATGTCTGGGACAAACATCAGCCTCGAGATATACAAGCCACTGTAAGACCTGTCT
*
62378347 GGGACATGGCGTCAGCTTGTTGTTTGT
66 AGGACATGGCGTCAGCTTGTTGTTTGT
* * * *
62378374 CAGTGTAAGACCTGTCTGGGACACAACATCGGCCTCGATATATGA-AAGCCAGTGTAAGACCTGT
1 CAGTGTAAGACATGTCTGGGACA-AACATCAGCCTCGAGATAT-ACAAGCCACTGTAAGACCTGT
62378438 CTAGGACATGGC
64 CTAGGACATGGC
62378450 ATCGATTTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
92 22 0.34
93 42 0.65
94 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (92 bp):
CAGTGTAAGACATGTCTGGGACAAACATCAGCCTCGAGATATACAAGCCACTGTAAGACCTGTCT
AGGACATGGCGTCAGCTTGTTGTTTGT
Found at i:62378453 original size:49 final size:47
Alignment explanation
Indices: 62378237--62378453 Score: 167
Period size: 49 Copynumber: 4.6 Consensus size: 47
62378227 TATGTGTGCT
* * *
62378237 AGTGTAAGACATGTCTGGGACATGCATCGGCCGCAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCCTCATATATGAAAGCC
* * * * *
62378283 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGCATCGGCC-TCATATATGA-AAGCC
* * * * *** *
62378331 ACTGTAAGACCTGTCTGGGACATGGCGTCAG-CT--TGT-TGTTTGTC
1 AGTGTAAGACCTGTCTGGGACAT-GCATCGGCCTCATATATGAAAGCC
**
62378375 AGTGTAAGACCTGTCTGGGACACAACATCGGCCTCGATATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACA-TGCATCGGCCTC-ATATATGAAAGCC
*
62378424 AGTGTAAGACCTGTCTAGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACAT-GCATCG
62378454 ATTTTGATGT
Statistics
Matches: 130, Mismatches: 29, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
44 27 0.21
45 3 0.02
46 31 0.24
47 3 0.02
48 30 0.23
49 36 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGCATCGGCCTCATATATGAAAGCC
Found at i:62378491 original size:141 final size:138
Alignment explanation
Indices: 62378237--62378500 Score: 334
Period size: 141 Copynumber: 1.9 Consensus size: 138
62378227 TATGTGTGCT
** * *
62378237 AGTGTAAGACATGTCTGGGACATGCATCGGCCGCATTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACAAACATCGGCCGCATTATGAAAGCCAGTGTAAGACATGTCTAGG
* *
62378302 ACATGCATCAGCCTTGAGATATACAAGCTACTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGT
66 ACATGCATCAGCATTGAGATATACAAGCTACTGTAAGACCTGTATGGGACATGGCGTCAGCTTGT
62378367 TGTTTGTC
131 TGTTTGTC
* * *
62378375 AGTGTAAGACCTGTCTGGGACACAACATCGGCCTCGATATATGAAAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACA-AACATCGGCCGC-AT-TATGAAAGCCAGTGTAAGACATGTCT
** * * * *
62378440 AGGACATGGCATC-G-ATTTTGATGTGCTAGCTAGTGTAAGACCATGTATGGGACATGGCGTC
63 AGGACAT-GCATCAGCATTGAGATATACAAGCTACTGTAAGACC-TGTATGGGACATGGCGTC
62378501 GGCATCTTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
138 21 0.20
139 9 0.08
140 23 0.22
141 48 0.45
142 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACAAACATCGGCCGCATTATGAAAGCCAGTGTAAGACATGTCTAGG
ACATGCATCAGCATTGAGATATACAAGCTACTGTAAGACCTGTATGGGACATGGCGTCAGCTTGT
TGTTTGTC
Found at i:62385937 original size:68 final size:67
Alignment explanation
Indices: 62385872--62386048 Score: 200
Period size: 67 Copynumber: 2.6 Consensus size: 67
62385862 CATCATGTGT
* * *
62385872 ACAAGAAAGCTACGAGATACTATGTGGTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACC
1 ACAAGAGAGCTACGAGATA--AT-T-GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGATACC
62385934 ATGTAG
62 ATGTAG
* * * *
62385940 ACAAGAGAGCTACGGGATAATTGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGATACCATGT
1 ACAAGAGAGCTACGAGATAATTGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGATACCATGT
62386005 AG
66 AG
* * *
62386007 ACAAGAGAGCTACGAGATAA-AGTGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGAGATAATTGTAGCTAGGTCACATGTGTGG
62386049 TACTAAGCTA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 18 0.19
65 4 0.04
66 22 0.23
67 33 0.35
68 17 0.18
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATAATTGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGATACCATGT
AG
Found at i:62393403 original size:64 final size:65
Alignment explanation
Indices: 62393322--62393474 Score: 166
Period size: 67 Copynumber: 2.4 Consensus size: 65
62393312 ATACTATATG
* * * * * *
62393322 GTAGCTAGGTCATATGTGT-G-ATACGAGATGTATACCATGTAGATAAGAGAGCTACGGGATAAA
1 GTAGCTAGGTCACATGTGTGGTATACGAGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
* * * *
62393385 TGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 -GTAGCTAGGTCACATGTGTGG-TATACGAGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
62393450 AA
64 AA
* *
62393452 GTGGCTAGGTCACATGGGTGGTA
1 GTAGCTAGGTCACATGTGTGGTA
62393475 CTAAGCTAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
64 17 0.24
65 2 0.03
66 18 0.25
67 35 0.49
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (65 bp):
GTAGCTAGGTCACATGTGTGGTATACGAGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
Found at i:62396119 original size:32 final size:32
Alignment explanation
Indices: 62396083--62396148 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
62396073 ATAAATTGTT
*
62396083 ATGATTGTGAATATGAGTATGCATGTAGAGAA
1 ATGATTGTGAATATGAGTATGCACGTAGAGAA
*
62396115 ATGATTGTGAATATGAGTATGCACGTGGAGAA
1 ATGATTGTGAATATGAGTATGCACGTAGAGAA
62396147 AT
1 AT
62396149 TAACATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (32 bp):
ATGATTGTGAATATGAGTATGCACGTAGAGAA
Found at i:62396380 original size:49 final size:49
Alignment explanation
Indices: 62396317--62396445 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 49
62396307 CTTGTTGTGT
*
62396317 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAA
** * *
62396366 G-CAAGTGTAAGACCTGTCTGGGACATAACATCGGCCTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
* * *
62396415 GTCAGTGTAAGACCTTTCTAGCACATGGCAT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCAT
62396446 TGACTTTGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.03
49 64 0.96
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
Found at i:62419938 original size:34 final size:34
Alignment explanation
Indices: 62419897--62419971 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
62419887 CGCTTCAATA
62419897 TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
1 TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
*
62419931 TATTTATTCATGAGCATTCTCCTATCTCTTCTTT
1 TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
62419965 TATTTAT
1 TATTTAT
62419972 CTTTCGTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.19, C:0.23, G:0.05, T:0.53
Consensus pattern (34 bp):
TATTTATTCATGAGCATTCTCCTACCTCTTCTTT
Found at i:62433463 original size:6 final size:6
Alignment explanation
Indices: 62433445--62433532 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
62433435 AAGAAACATT
* *
62433445 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
62433494 ATCAAA ATCA-A TATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA AT
62433533 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
5 5 0.08
6 51 0.78
7 6 0.09
8 2 0.03
9 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:62433466 original size:18 final size:18
Alignment explanation
Indices: 62433454--62433532 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
62433444 TATCAGAACT
62433454 AGAATCAGAATCAAAATC
1 AGAATCAGAATCAAAATC
* *
62433472 AGAATCAG-GTGACAGAATC
1 AGAATCAGAAT--CAAAATC
* *
62433491 AGAATCAAAATCAATATC
1 AGAATCAGAATCAAAATC
62433509 AGGTAA-CAGAATCAAAATC
1 A-G-AATCAGAATCAAAATC
62433528 AGAAT
1 AGAAT
62433533 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.06
18 15 0.32
19 26 0.55
20 3 0.06
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (18 bp):
AGAATCAGAATCAAAATC
Found at i:62433492 original size:31 final size:31
Alignment explanation
Indices: 62433454--62433528 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
62433444 TATCAGAACT
*
62433454 AGAATCAGAATCAAAATCAGA-ATCAGGTGAC
1 AGAATCAGAATCAAAATCA-ATATCAGGTAAC
62433485 AGAATCAGAATCAAAATCAATATCAGGTAAC
1 AGAATCAGAATCAAAATCAATATCAGGTAAC
*
62433516 AGAATCAAAATCA
1 AGAATCAGAATCA
62433529 GAATGTGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAAAATCAATATCAGGTAAC
Found at i:62433741 original size:67 final size:67
Alignment explanation
Indices: 62433633--62433788 Score: 276
Period size: 67 Copynumber: 2.3 Consensus size: 67
62433623 CACACCACAG
**
62433633 AAATTGCAGCGAGGCTTTCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
62433698 CC
66 CC
*
62433700 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCA
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
62433765 CC
66 CC
*
62433767 AGATTGCAGCGAGGCTGCCAGA
1 AAATTGCAGCGAGGCTGCCAGA
62433789 ACGCTTTCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCA
CC
Found at i:62433766 original size:27 final size:26
Alignment explanation
Indices: 62433718--62433769 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62433708 GCGAGGCTGC
*
62433718 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
62433744 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
62433770 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62434033 original size:27 final size:28
Alignment explanation
Indices: 62434003--62434063 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
62433993 TTAACACCCT
*
62434003 AAGGGTAAAAT-GGTAATTTTACCCTAC
1 AAGGGTAAAATCGGTAATTTTACCCCAC
**
62434030 AAGGGT-ATCTCGGTAATTTTACCCCAC
1 AAGGGTAAAATCGGTAATTTTACCCCAC
62434057 AAGGGTA
1 AAGGGTA
62434064 TCTCCGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (28 bp):
AAGGGTAAAATCGGTAATTTTACCCCAC
Found at i:62434064 original size:27 final size:27
Alignment explanation
Indices: 62434014--62434345 Score: 300
Period size: 27 Copynumber: 12.3 Consensus size: 27
62434004 AGGGTAAAAT
*
62434014 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
62434041 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
62434068 CGTAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
62434094 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
62434121 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
62434148 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
62434175 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
62434202 GGT-ATTTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
62434229 GGT-ATTTCTACCCTAAAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
62434256 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
* *
62434283 GGT-ATTTCTACCCTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
62434310 GGT-ATTTCTACCATATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
62434337 AGTAATTTT
1 GGTAATTTT
62434346 GTAAATCGAG
Statistics
Matches: 255, Mismatches: 41, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
26 33 0.13
27 211 0.83
28 11 0.04
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:62434208 original size:81 final size:81
Alignment explanation
Indices: 62434015--62434343 Score: 446
Period size: 81 Copynumber: 4.1 Consensus size: 81
62434005 GGGTAAAATG
* * * * * *
62434015 GTAATTTTACCCTACAAGGGTATCTCGGTAATTT-TACCCCACAAGGGTATCTCCGTAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTAC
62434079 CCTAC-AGGGTATTTTA
65 CCTACAAGGGTATTTTA
* *
62434095 GTAATTCTATCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
62434160 CTACAGGGGTATTTTA
66 CTACAAGGGTATTTTA
* * * *
62434176 GTAATTCTACCCTATAGGGGTATTTCGGTATTTCTATCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
62434241 CTAAAAGGGTATTTTA
66 CTACAAGGGTATTTTA
* * * *
62434257 GTAATTCTACCCTACAGAGGTATTTCGGTATTTCTACCCTATAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
* * *
62434322 ATATAAGGGTATTTCA
66 CTACAAGGGTATTTTA
62434338 GTAATT
1 GTAATT
62434344 TTGTAAATCG
Statistics
Matches: 223, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
79 4 0.02
80 56 0.25
81 163 0.73
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
CTACAAGGGTATTTTA
Found at i:62434357 original size:27 final size:27
Alignment explanation
Indices: 62434327--62434620 Score: 107
Period size: 27 Copynumber: 10.9 Consensus size: 27
62434317 CTACCATATA
**
62434327 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*** * * ** **
62434354 AGGGTAAAACGGTAATTCTGTAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
62434381 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* * **
62434408 AGGGTATTTTAATAATTTTACAGGTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
62434435 AGGGTATTTCAATAATTTCACAAAT-T
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
62434461 AGGGGTATTTTGGTAATTTTTCAAA-CT
1 A-GGGTATTTCAGTAATTTTACAAATCG
* * *
62434488 AGGGGTATTT-TGATAATTTTGCAAA-CT
1 A-GGGTATTTCAG-TAATTTTACAAATCG
** * *
62434515 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTCAGTAATTTTACAAATC-G
* *
62434543 AGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTACAAATCG
** ** * *
62434569 AGAGGTATTTTGGTAATTTTGTAAACCA
1 AG-GGTATTTCAGTAATTTTACAAATCG
**
62434597 AGGGTATTTTGGTAATTTTACAAA
1 AGGGTATTTCAGTAATTTTACAAA
62434621 CCAGAGGTAT
Statistics
Matches: 214, Mismatches: 44, Indels: 18
0.78 0.16 0.07
Matches are distributed among these distances:
26 7 0.03
27 202 0.94
28 5 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:62434621 original size:27 final size:27
Alignment explanation
Indices: 62434380--62434641 Score: 231
Period size: 27 Copynumber: 9.7 Consensus size: 27
62434370 TCTGTAAATT
* **
62434380 AAGGGTACTTTGGTAATTTTACAAGTC
1 AAGGGTATTTTGGTAATTTTACAAACC
* ** ***
62434407 GAGGGTATTTTAATAATTTTACAGGTC
1 AAGGGTATTTTGGTAATTTTACAAACC
* *** * **
62434434 GAGGGTATTTCAATAATTTCACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
62434461 AGGGGTATTTTGGTAATTTTTCAAACT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * * *
62434488 AGGGGTATTTTGATAATTTTGCAAACT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
62434515 AGGGGTATTTTGGTAATTTTATAAACA
1 AAGGGTATTTTGGTAATTTTACAAACC
*
62434542 AAGGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
**
62434569 -AGAGGTATTTTGGTAATTTTGTAAACC
1 AAG-GGTATTTTGGTAATTTTACAAACC
62434596 AAGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
62434623 -AGAGGTATTTTGGTAATTT
1 AAG-GGTATTTTGGTAATTT
62434642 GGTAAACTAA
Statistics
Matches: 199, Mismatches: 33, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 193 0.97
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACC
Found at i:62434647 original size:54 final size:54
Alignment explanation
Indices: 62434464--62434653 Score: 265
Period size: 54 Copynumber: 3.5 Consensus size: 54
62434454 ACAAATTAGG
* * * * * *
62434464 GGTATTTTGGTAATTTT-TCAAACTAGGGGTATTTTGATAATTTTGCAAACTAGG
1 GGTATTTTGGTAATTTTGT-AAACAAAGGGTATTTTGGTAATTTTACAAACCAGA
* *
62434518 GGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGA
1 GGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGA
*
62434572 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGA
1 GGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGA
*
62434626 GGTATTTTGGTAATTTGGTAAACTAAAG
1 GGTATTTTGGTAATTTTGTAAAC-AAAG
62434654 TATTCTAAAC
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
54 118 0.97
55 4 0.03
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGA
Found at i:62448297 original size:43 final size:43
Alignment explanation
Indices: 62448229--62448391 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
62448219 AGATCATACA
* * * **
62448229 ATGCCA-TATCCCAGATATAGTCTTACATGCCATCATATATCG
1 ATGCCATTGTCCCAGACATGGTCTTACATGAAATCATATATCG
* * *
62448271 ATGCCATTGTCCTAGACAGGGTCTTACACGAAATCGAT-TAAT-G
1 ATGCCATTGTCCCAGACATGGTCTTACATGAAATC-ATAT-ATCG
* * *
62448314 ATGCCATTCTCCCAGACATGGTCTTACATGTAATC-TCATA-CA
1 ATGCCATTGTCCCAGACATGGTCTTACATGAAATCAT-ATATCG
* *
62448356 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 ATGCCATTGTCCCAGACATGGTCTTACATGAAATCA
62448392 CATCTCAATA
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 40 0.41
43 53 0.54
44 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCATTGTCCCAGACATGGTCTTACATGAAATCATATATCG
Found at i:62459865 original size:49 final size:50
Alignment explanation
Indices: 62459775--62460004 Score: 284
Period size: 49 Copynumber: 4.6 Consensus size: 50
62459765 ATCTATTGTG
* *
62459775 AGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
62459825 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
62459875 CGATCACATGTGTAGTACTAAATGCAGACTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
62459925 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
62459975 -GGTCGCATGTGTACTACTAAGTGCAGGCTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTA
62460005 TTATGCGTAC
Statistics
Matches: 150, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 68 0.45
50 45 0.30
51 37 0.25
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:62459958 original size:101 final size:98
Alignment explanation
Indices: 62459778--62460000 Score: 275
Period size: 101 Copynumber: 2.2 Consensus size: 98
62459768 TATTGTGAGG
* * * * *
62459778 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
*
62459843 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * ** *
62459878 TCACATGTGTAGTACTAAATGCAGACTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
62459943 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* *
62459977 TCGCATGTGTACTACTAAGTGCAG
1 TCACATGTGTAGTACTAAGTGCAG
62460001 GCTATTATGC
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 22 0.21
100 41 0.39
101 42 0.40
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:62460342 original size:28 final size:28
Alignment explanation
Indices: 62460282--62460342 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
62460272 GTTGTGTGAC
* * *
62460282 TTTGAAAATTCACCAAAAAATTGTGTAA
1 TTTGAAAATTCACAAAAAAATTATGAAA
* **
62460310 GTTGAAAATTTTCAAAAAAATTATGAAA
1 TTTGAAAATTCACAAAAAAATTATGAAA
62460338 TTTGA
1 TTTGA
62460343 TGAGTCTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (28 bp):
TTTGAAAATTCACAAAAAAATTATGAAA
Found at i:62466376 original size:37 final size:36
Alignment explanation
Indices: 62466300--62466377 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
62466290 TTATTACGAA
* * * *
62466300 GTCTTACCCGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGACAAAATCCCCACACGAAGTCATCAG
*
62466336 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCC-GACAAAATCCCCACACGAAGTCATCAG
62466373 GTCTT
1 GTCTT
62466378 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 9 0.25
37 27 0.75
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGACAAAATCCCCACACGAAGTCATCAG
Found at i:62466624 original size:47 final size:47
Alignment explanation
Indices: 62466496--62466882 Score: 607
Period size: 47 Copynumber: 8.1 Consensus size: 47
62466486 CCCTTCGGGA
* * * * * * *
62466496 CTTATCACATTTATACACTTTCACATCCATCACGTTGCCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
62466543 CCTGTCACATATATATACACTTCCACATTTATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466639 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466686 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466732 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466780 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466829 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466876 CTTATCA
1 CTTATCA
62466883 TCATTTCATA
Statistics
Matches: 320, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 52 0.16
47 137 0.43
48 40 0.12
49 91 0.28
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62466834 original size:190 final size:190
Alignment explanation
Indices: 62466496--62466882 Score: 652
Period size: 190 Copynumber: 2.0 Consensus size: 190
62466486 CCCTTCGGGA
* * * * *
62466496 CTTATCACATTTATACACTTTCACATCCATCACGTTGCCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGCCCACTAGGCCCTATCACATATATATAC
*
62466561 ACTTCCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
62466626 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62466686 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGCCCACTAGGCCCTATCACATATATATAC
*
62466749 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
62466814 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62466876 CTTATCA
1 CTTATCA
62466883 TCATTTCATA
Statistics
Matches: 184, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
188 54 0.29
189 37 0.20
190 88 0.48
191 5 0.03
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGCCCACTAGGCCCTATCACATATATATAC
ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62470442 original size:40 final size:40
Alignment explanation
Indices: 62470356--62470538 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
62470346 CCAGCATGAT
* * *
62470356 TGCTCTTCGGGACCTAGCCCGGATA-AACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
62470395 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
62470435 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
62470475 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
62470515 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
62470539 TTAGTAACTC
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 21 0.16
40 107 0.84
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:62470582 original size:39 final size:39
Alignment explanation
Indices: 62470513--62470654 Score: 139
Period size: 39 Copynumber: 3.6 Consensus size: 39
62470503 CACTAGCATG
* *
62470513 AATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGTACC
1 AATGC-CTTCGGGACTTAGCCCGGAATTAGTAACTCGCA-C
*
62470554 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* * * *
62470592 AATGCCTTC-GGATCTTAG-TCGG-ATATGGTCACTTAGCAC
1 AATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCAC
*
62470631 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62470655 CATCATTCGA
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
37 4 0.05
38 17 0.20
39 45 0.54
40 13 0.15
41 5 0.06
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
Found at i:62470996 original size:29 final size:29
Alignment explanation
Indices: 62470962--62471035 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
62470952 ATAATCACCA
* *
62470962 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACC
* *
62470991 CGCACACTTAGTGCTATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAACC
62471020 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62471036 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACC
Found at i:62471127 original size:44 final size:43
Alignment explanation
Indices: 62471017--62471163 Score: 285
Period size: 43 Copynumber: 3.4 Consensus size: 43
62471007 TGCATTTCAA
62471017 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
62471060 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
62471103 GCCCTGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCC-GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
62471147 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
62471164 TGAAAACCAA
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
43 60 0.58
44 43 0.42
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:62473624 original size:47 final size:47
Alignment explanation
Indices: 62473214--62473599 Score: 614
Period size: 47 Copynumber: 8.1 Consensus size: 47
62473204 CCCTTCGGGA
* * * * * *
62473214 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62473261 CCTGTCACATATATTATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
62473311 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62473358 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62473405 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62473451 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62473497 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62473546 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62473593 CTTATCA
1 CTTATCA
62473600 TCATTTCATA
Statistics
Matches: 319, Mismatches: 14, Indels: 12
0.92 0.04 0.03
Matches are distributed among these distances:
46 92 0.29
47 140 0.44
48 3 0.01
49 48 0.15
50 36 0.11
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62483326 original size:20 final size:18
Alignment explanation
Indices: 62483301--62483337 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
62483291 ACCTAACACG
62483301 AATTAAATTTAAGCCATATT
1 AATTAAA-TTAAG-CATATT
62483321 AATTAAATTAAGCATAT
1 AATTAAATTAAGCATAT
62483338 CAACAGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAGCATATT
Found at i:62483507 original size:20 final size:20
Alignment explanation
Indices: 62483482--62483547 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
62483472 TTGAATCGAG
62483482 GCTTCTACGAGCACTTGAAT
1 GCTTCTACGAGCACTTGAAT
* * *
62483502 GCTTCTGCAAGAACTTGAAT
1 GCTTCTACGAGCACTTGAAT
* *
62483522 GCTTCTACGAGCACTTTAGT
1 GCTTCTACGAGCACTTGAAT
62483542 GCTTCT
1 GCTTCT
62483548 TCCAATGGCG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
GCTTCTACGAGCACTTGAAT
Found at i:62486359 original size:39 final size:39
Alignment explanation
Indices: 62486316--62486626 Score: 523
Period size: 39 Copynumber: 8.0 Consensus size: 39
62486306 ATTATATTAT
* **
62486316 CAGCACAAAGCCTGCGGGACTTTAAACCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
62486355 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
62486394 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
62486433 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
62486472 CAGCACGAAGCCTGCGGAACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
62486511 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
62486550 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
62486589 CAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
62486627 TCAGTGTCTT
Statistics
Matches: 258, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 258 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:62494090 original size:27 final size:27
Alignment explanation
Indices: 62494048--62494128 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
62494038 AATCTCATAT
* * *
62494048 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
62494075 CTGTAGGGTAGAATTACTGAAATTCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
62494102 CTATAGGGTAAAATTACTGAAGTACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
62494129 TTGGTTTACA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:62494153 original size:26 final size:26
Alignment explanation
Indices: 62494111--62494182 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
62494101 CCTATAGGGT
*
62494111 AAAATTACTGAAGTACCCTTGGTTTAC
1 AAAATTACT-AAATACCCTTGGTTTAC
*
62494138 AAAATTACTAAATACCATTGGTTTAC
1 AAAATTACTAAATACCCTTGGTTTAC
*
62494164 AAAATTACCAGAATACCCT
1 AAAATTACTA-AATACCCT
62494183 CAATTAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.60
27 16 0.40
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAATTACTAAATACCCTTGGTTTAC
Found at i:62494222 original size:27 final size:27
Alignment explanation
Indices: 62494060--62494323 Score: 142
Period size: 27 Copynumber: 9.8 Consensus size: 27
62494050 GTAGGCTAGT
** *
62494060 ATTACTAAAATACCCCTG-TAGGGTAGA
1 ATTACTAAAATACCCCTGAT-TTGTAAA
* * **
62494087 ATTACTGAAATTCCCCT-ATAGGGTAAA
1 ATTACTAAAATACCCCTGAT-TTGTAAA
* * * * **
62494114 ATTACTGAAGTACCCTTGGTTTACAAA
1 ATTACTAAAATACCCCTGATTTGTAAA
** * **
62494141 ATTACT-AAATACCATTGGTTTACAAA
1 ATTACTAAAATACCCCTGATTTGTAAA
* * * * *
62494167 ATTACCAGAATA-CCCTCAATTAGAAAA
1 ATTACTAAAATACCCCT-GATTTGTAAA
* *
62494194 ATTACCAAAATACCCCTGATTTGTGAA
1 ATTACTAAAATACCCCTGATTTGTAAA
* * *
62494221 ATTATTGAAATACCCTTGATTTGTAAA
1 ATTACTAAAATACCCCTGATTTGTAAA
* * **
62494248 ATTACCAAAATACCCCTAATTTGGCAA
1 ATTACTAAAATACCCCTGATTTGTAAA
** *
62494275 ATTACTAAAATACCGTTGATTTGAAAA
1 ATTACTAAAATACCCCTGATTTGTAAA
62494302 ATTA-TAGAAATACCCCTGATTT
1 ATTACTA-AAATACCCCTGATTT
62494324 ACAAATTTAT
Statistics
Matches: 184, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
26 27 0.15
27 152 0.83
28 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
ATTACTAAAATACCCCTGATTTGTAAA
Found at i:62494233 original size:54 final size:54
Alignment explanation
Indices: 62494165--62494425 Score: 210
Period size: 54 Copynumber: 4.8 Consensus size: 54
62494155 TTGGTTTACA
* * ** *
62494165 AAATTACCAGAATACCCTCAATTAGAAAAATTACCAAAATACCCCTGATTTGTG-
1 AAATTACTAAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTG-GC
* * * *
62494219 AAATTATTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGGC
1 AAATTACTAAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGGC
* * *
62494273 AAATTACTAAAATACCGTTGATTTGAAAAATTA-TAGAAATACCCCTGATTT-AC
1 AAATTACTAAAATACCCTTGATTTGAAAAATTACCA-AAATACCCCTGATTTGGC
* * * *
62494326 AAATTTA-TAGAAATACCCTTGACTTTCAAAAATTA-CAGAAATA-CCATTATTTTGC
1 AAA-TTACTA-AAATACCCTTGA-TTTGAAAAATTACCA-AAATACCCCTGATTTGGC
* * * * * * *
62494381 AAAATTGCTGAAATATCCTTGGTTTGTAGATTTACCAAAATACCC
1 -AAATTACTAAAATACCCTTGATTTGAAAAATTACCAAAATACCC
62494426 TTGTGGGGTG
Statistics
Matches: 167, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
53 8 0.05
54 120 0.72
55 35 0.21
56 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGGC
Found at i:62494343 original size:81 final size:81
Alignment explanation
Indices: 62494159--62494328 Score: 207
Period size: 81 Copynumber: 2.1 Consensus size: 81
62494149 ATACCATTGG
* * ** **
62494159 TTTACAAAATTACCAGAATA-CCCTCAATTAGAAAAATTACCAAAATACCCCTGATTTGTGAAAT
1 TTTACAAAATTACCAAAATACCCCT-AATTTGGCAAATTACCAAAATACCCCTGATTTGAAAAAT
* *
62494223 TATTGAAATACCCTTGA
65 TATAGAAATACCCCTGA
** * **
62494240 TTTGTAAAATTACCAAAATACCCCTAATTTGGCAAATTACTAAAATACCGTTGATTTGAAAAATT
1 TTTACAAAATTACCAAAATACCCCTAATTTGGCAAATTACCAAAATACCCCTGATTTGAAAAATT
62494305 ATAGAAATACCCCTGA
66 ATAGAAATACCCCTGA
62494321 TTTACAAA
1 TTTACAAA
62494329 TTTATAGAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 69 0.95
82 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTAATTTGGCAAATTACCAAAATACCCCTGATTTGAAAAATT
ATAGAAATACCCCTGA
Found at i:62494370 original size:28 final size:26
Alignment explanation
Indices: 62494111--62494370 Score: 143
Period size: 27 Copynumber: 9.7 Consensus size: 26
62494101 CCTATAGGGT
* * *
62494111 AAAATTACTGAAGTACCCTTGGTTTA
1 AAAATTACAGAAATACCCTTGATTTA
* * *
62494137 CAAAATTAC-TAAATACCATTGGTTTA
1 -AAAATTACAGAAATACCCTTGATTTA
** *
62494163 CAAAATTACCAG-AATACCCTCAATTAGA
1 -AAAATTA-CAGAAATACCCTTGATT-TA
* *
62494191 AAAATTACCA-AAATACCCCTGATTTGT
1 AAAATTA-CAGAAATACCCTTGATTT-A
* ** *
62494218 GAAATTATTGAAATACCCTTGATTTGT
1 AAAATTACAGAAATACCCTTGATTT-A
* * *
62494245 AAAATTACCA-AAATACCCCTAATTTGG
1 AAAATTA-CAGAAATACCCTTGATTT-A
* *
62494272 CAAATTACTA-AAATACCGTTGATTTGA
1 AAAATTAC-AGAAATACCCTTGATTT-A
* *
62494299 AAAATTATAGAAATACCCCTGATTTA
1 AAAATTACAGAAATACCCTTGATTTA
* *
62494325 CAAATTTATAGAAATACCCTTGACTTTCA
1 -AAAATTACAGAAATACCCTTGA-TTT-A
62494354 AAAATTACAGAAATACC
1 AAAATTACAGAAATACC
62494371 ATTATTTTGC
Statistics
Matches: 184, Mismatches: 37, Indels: 23
0.75 0.15 0.09
Matches are distributed among these distances:
26 25 0.14
27 139 0.76
28 19 0.10
29 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (26 bp):
AAAATTACAGAAATACCCTTGATTTA
Found at i:62494711 original size:41 final size:41
Alignment explanation
Indices: 62494670--62494829 Score: 248
Period size: 41 Copynumber: 3.9 Consensus size: 41
62494660 GAAGAAATTG
* * * * *
62494670 AGGATCGCATGGTTTCTTGACGATCGTGGATCCACTGATTG
1 AGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
62494711 AGAATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCGATTA
62494752 AGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCGATTA
*
62494793 AGGATCGCAGGGTTGCTTGACGACCATGGATCCACCG
1 AGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCG
62494830 GTGGCTTTTA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (41 bp):
AGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:62495167 original size:25 final size:25
Alignment explanation
Indices: 62494976--62495166 Score: 229
Period size: 25 Copynumber: 7.6 Consensus size: 25
62494966 TATTTTAATT
*
62494976 ATGGCTTTGTGCCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
62495001 AAGGCTTTGTACCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * * *
62495026 AAGGCTTTGTGCTGGTATGTTATTT
1 ATGGCTTTGTGCCGATATGTTATTG
*
62495051 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * * *
62495076 ATGGCTATGTCCCGATCTGTTATCG
1 ATGGCTTTGTGCCGATATGTTATTG
*
62495101 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
62495126 ATGGCTATGTGTCGATCTGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
62495151 ATGGCTTTGTGCCGAT
1 ATGGCTTTGTGCCGAT
62495167 CGTTTTATCT
Statistics
Matches: 138, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 138 1.00
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.40
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGTTATTG
Found at i:62502246 original size:27 final size:26
Alignment explanation
Indices: 62502198--62502257 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
62502188 GTGAGGCTGC
*
62502198 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
62502225 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
62502251 CAGATAT
1 CAGATAT
62502258 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62502303 original size:71 final size:67
Alignment explanation
Indices: 62502225--62502362 Score: 177
Period size: 67 Copynumber: 2.0 Consensus size: 67
62502215 TCACCAGATA
* * * *
62502225 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCATATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
62502290 GGCTGC
62 GGCTGC
* * *
62502296 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGTGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
62502361 GC
66 GC
62502363 TAGAACGCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
67 35 0.58
71 25 0.42
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:62502344 original size:27 final size:26
Alignment explanation
Indices: 62502296--62502347 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62502286 GCGAGGCTGC
*
62502296 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
62502322 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
62502348 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62513766 original size:20 final size:20
Alignment explanation
Indices: 62513723--62513768 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
62513713 ACTGTTCTGT
*
62513723 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTATTCA
* *
62513742 AATGGGCCCAACTGTGTTCA
1 TATGGGCCCAACTGTATTCA
62513762 TATGGGC
1 TATGGGC
62513769 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTCA
Found at i:62522001 original size:25 final size:27
Alignment explanation
Indices: 62521964--62522016 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62521954 TCAAACATGC
62521964 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
62521990 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
62522016 A
1 A
62522017 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:62523533 original size:26 final size:26
Alignment explanation
Indices: 62523502--62523583 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
62523492 TGAAATTCCC
62523502 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
62523528 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
62523554 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
62523580 ATCA
1 ATCA
62523584 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:62530853 original size:43 final size:43
Alignment explanation
Indices: 62530790--62530955 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
62530780 AGCTCGTACA
* * * * *
62530790 ATGCC-ATATCCCAGATATGGTCTTGCATGTTATCACATATTG
1 ATGCCAATATCCCAAACATGGTCTTACATGTAATCACATATCG
* * *
62530832 ATGCCAATATCCCAAACATGGTCTTACATGAAATCATATAACG
1 ATGCCAATATCCCAAACATGGTCTTACATGTAATCACATATCG
* * * *
62530875 ATGCCAATGTCCCAGACAAGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATATCCCAAACATGGTCTTACATGTAATCACATAT-CG
* * *
62530918 ATGCCAAT-GCCCCAACATGGTCTTACAAGTAATCACAT
1 ATGCCAATATCCCAAACATGGTCTTACATGTAATCACAT
62530956 CTCGGTAATC
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 30 0.30
43 71 0.70
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAAACATGGTCTTACATGTAATCACATATCG
Found at i:62537287 original size:40 final size:40
Alignment explanation
Indices: 62537232--62537449 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
62537222 CGGATGATAA
* *
62537232 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
62537272 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
62537312 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62537352 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62537392 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
62537432 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62537450 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62539705 original size:44 final size:44
Alignment explanation
Indices: 62539631--62540381 Score: 477
Period size: 44 Copynumber: 16.8 Consensus size: 44
62539621 TATCATGGTG
* * * * *
62539631 AATCTTATCCCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
62539675 AATTTTATCTCTCTGAAGTTGCAGTCGAGCAAATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
** ** * *
62539720 AATCTTATCTCTTTGAAGTTGCAGTACAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
62539764 AACCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTACA
* * * * * * *
62539808 AGTCTTATCTCCCTGAAGTTACTGTGGAGTAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
** * *
62539853 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
62539897 AACCTTATCCCCCTAAAGTTGCAGTGGAGCA-AGTTGAAG-TCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCT-ACA
* * * * * * * **
62539941 AGTCTTATCTCTCTGAAGTTGTAATGTAGTAGACTAAAAATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
** * *
62539986 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
62540030 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
62540074 AATCTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAA-ATAGCA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-CA
* *** * ***
62540120 AATCCTATAC-CCCTGAAGTTGCAGTGGAATGGATTGAATTTGTCGTGGTG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AG-C-T-ACA
* * * * *
62540170 AATCATATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
62540214 AATTTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * ** * * * *
62540259 AATCTTATCTCCTTAAAGTTATAATGGAGCAGAATGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
62540303 AATCTTATTTCTCTGAAGTTTCAGTAGAGCATATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
62540347 AATCTTATTTCCTTAAAGTTGTAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
62540382 GAAATTACAA
Statistics
Matches: 536, Mismatches: 150, Indels: 42
0.74 0.21 0.06
Matches are distributed among these distances:
43 3 0.01
44 294 0.55
45 198 0.37
46 9 0.02
47 1 0.00
49 3 0.01
50 28 0.05
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:62539757 original size:89 final size:88
Alignment explanation
Indices: 62539631--62540381 Score: 454
Period size: 89 Copynumber: 8.4 Consensus size: 88
62539621 TATCATGGTG
* * * * *
62539631 AATCTTATCCCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCACAAATTTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* *
62539696 CAGTCGAGCAAATTGAAGATAACA
66 CAGTGGAGCAGATTGAAG-TAACA
** * * * * *
62539720 AATCTTATCTCTTTGAAGTTGCAGTACAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* *
62539785 TAGTGGAGCA-AGTTGAAGTTACA
66 CAGTGGAGCAGA-TTGAAGTAACA
* * * * * * * * *
62539808 AGTCTTATCTCCCTGAAGTTACTGTGGAGTAGATTGAAGATAGAAAATCTTATCTTTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-CAAATCTTATCTCTCTGAAGTT
* * *
62539873 GCAGTAGAGCAGATTAAAGCT-ATA
65 GCAGTGGAGCAGATTGAAG-TAACA
* * * * * *
62539897 AACCTTATCCCCCTAAAGTTGCAGTGGAGCA-AGTTGAAG-TCACAAGTCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TTAAAGCT-ACAAATCTTATCTCTCTGAAGT
* * * * ** * *
62539960 TGTAATGTAGTAGACTAAAAATAGCA
64 TGCAGTGGAGCAGA-TTGAAGTAACA
** * * * *
62539986 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* * *
62540051 CAGTGGAGTAGATTGAAGTTATA
66 CAGTGGAGCAGATTGAAGTAACA
* * * * * *
62540074 AATCTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAA-ATAGCAAATCCTATAC-CCCTGAA
1 AATC-TTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AAAGCTA-CAAATCTTAT-CTCTCTGAA
* ** ****
62540137 GTTGCAGTGGAATGGATTGAATTTGTCGTGGTG
62 GTTGCAGTGG-A-GCA--G-A-TTGAAGTAACA
* * * * * *
62540170 AATCATATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCACAAATTTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* *
62540235 CAGTAGAGCAGATTGAAGATAGCA
66 CAGTGGAGCAGATTGAAG-TAACA
* * ** * * * * * * *
62540259 AATCTTATCTCCTTAAAGTTATAATGGAGCAGAATGAAGTTACAAATCTTATTTCTCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* * *
62540324 CAGTAGAGCATATTAAAGCT-ACA
66 CAGTGGAGCAGATTGAAG-TAACA
* * * * * *
62540347 AATCTTATTTCCTTAAAGTTGTAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
62540382 GAAATTACAA
Statistics
Matches: 508, Mismatches: 131, Indels: 47
0.74 0.19 0.07
Matches are distributed among these distances:
88 113 0.22
89 291 0.57
90 31 0.06
91 2 0.00
92 4 0.01
93 2 0.00
94 28 0.06
95 27 0.05
96 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
CAGTGGAGCAGATTGAAGTAACA
Found at i:62539844 original size:133 final size:134
Alignment explanation
Indices: 62539634--62540268 Score: 575
Period size: 133 Copynumber: 4.7 Consensus size: 134
62539624 CATGGTGAAT
* * * * * * *
62539634 CTTATCCCCCTAAAGTTGTAGTAGAGC-AGATTAAAGCCACAAATTTTATCTCTCTGAAGTTGCA
1 CTTATCCCCCTAAAGTTGCAGTGGAGCAAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTACA
* * * * *
62539698 GTCGAGCAAATTGAAGATAACAAATCTTATCTCTT-TGAAGTTGCAGTACAGTAGATTAAAGCTA
66 GTGGAGCAGATTGAAAATAACAAATCTTATCT-TTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA
62539762 TAAAC
130 TAAAC
* * * * * *
62539767 CTTATCTCCCTGAAGTTGTAGTGGAGCAAG-TTGAAGTTACAAGTCTTATCTCCCTGAAGTTACT
1 CTTATCCCCCTAAAGTTGCAGTGGAGCAAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTACA
* *
62539831 GTGGAGTAGATTGAAGATAGA-AAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA
66 GTGGAGCAGATTGAAAATA-ACAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA
62539895 TAAAC
130 TAAAC
* * **
62539900 CTTATCCCCCTAAAGTTGCAGTGGAGCAAG-TTGAAGTCACAAGTCTTATCTCTCTGAAGTTGTA
1 CTTATCCCCCTAAAGTTGCAGTGGAGCAAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTACA
* * * * * *
62539964 ATGTAGTAGACTAAAAATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
66 GTGGAGCAGATTGAAAATAACAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
*
62540029 AAAT
131 AAAC
* * * * *
62540033 CTTATCTCCCTAAAGTTACAGTGGAG-TAGATTGAAGTTATAAATCTTTATCTCCCTGAAGTTAC
1 CTTATCCCCCTAAAGTTGCAGTGGAGCAAGATTGAAGTCACAAATC-TTATCTCCCTGAAGTTAC
* * * ** * *** *
62540097 AATGGAGCAGATTGAAAATAGCAAATCCTATAC-CCCTGAAGTTGCAGTGGAATGGATTGAATTT
65 AGTGGAGCAGATTGAAAATAACAAATCTTAT-CTTTCTGAAGTTGCAGTAGAGCAGATT-AA--A
* * *
62540161 GTCGTGGTGAAT
126 G-C-T-ATAAAC
* * * * * * * * *
62540173 CATATCTCCCTGAAGTTGCAGTAGAG-AAAATTAAAGCCACAAATTTTATCTCCCTGAAGTTGCA
1 CTTATCCCCCTAAAGTTGCAGTGGAGCAAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTACA
* * *
62540237 GTAGAGCAGATTGAAGATAGCAAATCTTATCT
66 GTGGAGCAGATTGAAAATAACAAATCTTATCT
62540269 CCTTAAAGTT
Statistics
Matches: 418, Mismatches: 70, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
132 4 0.01
133 262 0.63
134 63 0.15
135 3 0.01
137 1 0.00
138 2 0.00
139 45 0.11
140 38 0.09
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (134 bp):
CTTATCCCCCTAAAGTTGCAGTGGAGCAAGATTGAAGTCACAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTGAAAATAACAAATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
AAAC
Found at i:62555229 original size:38 final size:38
Alignment explanation
Indices: 62555186--62555618 Score: 146
Period size: 38 Copynumber: 9.9 Consensus size: 38
62555176 TTTCAAATTA
*
62555186 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
62555224 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
62555265 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
62555309 ACATGTATCAATATGTGTATGCGTGGTATATCCATTTAGCACCACGTTAAT
1 ACATG--T--ATA-----A-CCGTGGCATATCCACTTAGCACCACG-T--T
* * *
62555360 GAATCAATATATATAATCATGGCATATCCACTTAGCACCACGTT
1 --A-C---ATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
62555404 ACATGTATCAATATGTGTATGCGTGGTATATCCACTTAGCACCACGTT
1 ACATG--T--ATA-----A-CCGTGGCATATCCACTTAGCACCACGTT
* * *
62555452 ATATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGT---T
*
62555493 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTAT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACC-----AC--GT-T
* * * * *
62555545 CAATATGTATAATCGTGGTATATCCACTTAGTAGCACGTT
1 --ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
62555585 ACACGTATAACCGTGGTATATCCACTTAGCACCA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCA
62555619 TGTTTTTTCA
Statistics
Matches: 303, Mismatches: 38, Indels: 108
0.67 0.08 0.24
Matches are distributed among these distances:
38 90 0.30
39 2 0.01
40 4 0.01
41 6 0.02
42 8 0.03
43 4 0.01
44 6 0.02
45 6 0.02
46 3 0.01
47 77 0.25
48 75 0.25
49 1 0.00
50 4 0.01
51 1 0.00
52 6 0.02
53 4 0.01
54 3 0.01
55 1 0.00
57 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:62555398 original size:95 final size:95
Alignment explanation
Indices: 62555235--62555592 Score: 457
Period size: 95 Copynumber: 3.9 Consensus size: 95
62555225 CATGTTTAAC
*
62555235 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
62555300 CACCACGTTACATGTATCAATATGTGTATG
66 CACCACGTTACATGTATCAATATGTGTATG
* * *
62555330 CGTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATATAATCATGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
62555395 CACCACGTTACATGTATCAATATGTGTATG
66 CACCACGTTACATGTATCAATATGTGTATG
* *
62555425 CGTGGTATATCCACTTAGCACCACG-T--T--AT--ATGT-T-TAACCGTGGTATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
* * * **
62555481 CACCACGTCA-ATGAATCAATATATGTAAC
66 CACCACGTTACATGTATCAATATGTGTATG
* * * * * *
62555510 CGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTA
1 CGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATATAACCGTGGCATATCCACTTA
* * *
62555575 GTAGCACGTTACACGTAT
65 GCACCACGTTACATGTAT
62555593 AACCGTGGTA
Statistics
Matches: 229, Mismatches: 23, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
85 38 0.17
86 29 0.13
87 1 0.00
88 3 0.01
89 1 0.00
90 2 0.01
91 2 0.01
92 1 0.00
93 3 0.01
94 2 0.01
95 143 0.62
96 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (95 bp):
CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
CACCACGTTACATGTATCAATATGTGTATG
Found at i:62555562 original size:133 final size:133
Alignment explanation
Indices: 62555330--62555618 Score: 454
Period size: 133 Copynumber: 2.2 Consensus size: 133
62555320 TATGTGTATG
* * *
62555330 CGTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATATAATCATGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATATAACCATGGCATATCCACTTAG
* * * *
62555395 CACCACGTTACATGTATCAATATGTGTATGCGTGGTATATCCACTTAGCACCACGTTATATGTTT
66 CACCACGTTACATGTATCAATATGTATATGCGTGGTATATCCACTTAGCACCACGTTACACGTAT
62555460 AAC
131 AAC
* *
62555463 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATATAACCATGGCATATCCACTTAG
* * *
62555528 CACCATGTTACATGTATCAATATGTATAAT-CGTGGTATATCCACTTAGTAGCACGTTACACGTA
66 CACCACGTTACATGTATCAATATGTAT-ATGCGTGGTATATCCACTTAGCACCACGTTACACGTA
62555592 TAAC
130 TAAC
62555596 CGTGGTATATCCACTTAGCACCA
1 CGTGGTATATCCACTTAGCACCA
62555619 TGTTTTTTCA
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 141 0.99
134 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (133 bp):
CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATATAACCATGGCATATCCACTTAG
CACCACGTTACATGTATCAATATGTATATGCGTGGTATATCCACTTAGCACCACGTTACACGTAT
AAC
Found at i:62557058 original size:22 final size:23
Alignment explanation
Indices: 62557030--62557086 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
62557020 CACTATTAAA
*
62557030 CTGAAACGGTAAGCTC-TATCGAG
1 CTGAAACAGTAAGCTCATA-CGAG
*
62557053 CT-AAACAGCAAGCTCATACGAG
1 CTGAAACAGTAAGCTCATACGAG
*
62557075 CTGAAACTGTAA
1 CTGAAACAGTAA
62557087 CACTCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
CTGAAACAGTAAGCTCATACGAG
Found at i:62558637 original size:41 final size:41
Alignment explanation
Indices: 62558541--62558652 Score: 147
Period size: 41 Copynumber: 2.7 Consensus size: 41
62558531 GCTCGTACAT
*
62558541 TGCC-ATGTCCCAGATATGGTCTTACATGCGATCACATATCGA
1 TGCCAATGTCCCAGACATGGTCTTACA--CGATCACATATCGA
* * *
62558583 TGCCACTGTCCCAGACAGGGTCTTACACGAATCATATA-CGA
1 TGCCAATGTCCCAGACATGGTCTTACACG-ATCACATATCGA
62558624 TGCCAATGTCCCAGACATGGTCTTACACG
1 TGCCAATGTCCCAGACATGGTCTTACACG
62558653 TTTTCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 32 0.52
42 11 0.18
43 19 0.31
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (41 bp):
TGCCAATGTCCCAGACATGGTCTTACACGATCACATATCGA
Found at i:62574204 original size:37 final size:37
Alignment explanation
Indices: 62574154--62574232 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
62574144 TTATTACGAA
* * *
62574154 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
62574191 GTCTTACTCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62574228 GTCTT
1 GTCTT
62574233 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62574501 original size:47 final size:47
Alignment explanation
Indices: 62574351--62574917 Score: 866
Period size: 47 Copynumber: 12.1 Consensus size: 47
62574341 CCCTTCGGGA
* * * * * * *
62574351 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62574398 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62574444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62574491 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62574538 CTTATCACCTATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62574585 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62574632 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62574679 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62574726 CTTATCACACATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62574773 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62574820 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62574867 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62574914 CTTA
1 CTTA
62574918 CTATCATTTC
Statistics
Matches: 485, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 0.08
47 445 0.92
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62596926 original size:30 final size:30
Alignment explanation
Indices: 62596892--62596952 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62596882 TCCTTAACTC
62596892 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
62596922 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
62596952 A
1 A
62596953 GGCTCGGGAA
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:62599906 original size:47 final size:47
Alignment explanation
Indices: 62599780--62600270 Score: 775
Period size: 47 Copynumber: 10.3 Consensus size: 47
62599770 CCCTTCGGGA
* * * * *
62599780 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62599827 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62599876 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62599923 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62599972 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62600019 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62600066 CTTATCACATATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62600115 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62600162 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62600209 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62600258 CTTGATTACATAT
1 CTT-ATCACATAT
62600271 TTTAGTCAGC
Statistics
Matches: 420, Mismatches: 15, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
47 235 0.56
48 4 0.01
49 177 0.42
50 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62599944 original size:96 final size:96
Alignment explanation
Indices: 62599780--62600270 Score: 801
Period size: 96 Copynumber: 5.1 Consensus size: 96
62599770 CCCTTCGGGA
* * * * *
62599780 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
62599845 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62599876 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
62599941 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
62599972 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
62600035 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
62600066 CTTATCACATATATATACACTTTCACATTCATAACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
62600129 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
62600162 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
62600227 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
62600258 CTTGATTACATAT
1 CTT-ATCACATAT
62600271 TTTAGTCAGC
Statistics
Matches: 373, Mismatches: 17, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
94 92 0.25
96 273 0.73
97 8 0.02
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62600038 original size:143 final size:143
Alignment explanation
Indices: 62599780--62600270 Score: 833
Period size: 143 Copynumber: 3.4 Consensus size: 143
62599770 CCCTTCGGGA
* * * *
62599780 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * *
62599843 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCA
62599908 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
62599923 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
62599988 ACTTTCACATTCATCATATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
62600053 TCGGCTATTAGGC
131 TCGGCCATTAGGC
*
62600066 CTTATCACATATATATACACTTTCACATTCATAACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62600131 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
62600196 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
62600209 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGATTACATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT-ATCACATAT
62600271 TTTAGTCAGC
Statistics
Matches: 330, Mismatches: 15, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
143 281 0.85
144 9 0.03
145 40 0.12
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:62600921 original size:85 final size:85
Alignment explanation
Indices: 62600821--62600999 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
62600811 TATTTTATTG
*
62600821 CCCATGCCCTTTATTTTATTAATCCTCACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTCACATAATGCACTACCCCAACATGTTTATGACATGTTTT
62600886 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
62600906 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTCACATAATGCACTACCCCAACATGTTTATGACATGTTTT
62600971 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
62600991 CCCATGCTC
1 CCCATGCTC
62601000 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTCACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:62604500 original size:49 final size:49
Alignment explanation
Indices: 62604430--62604665 Score: 235
Period size: 49 Copynumber: 4.7 Consensus size: 49
62604420 TGAGGTCATG
*
62604430 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACA
* * * * *
62604479 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACA
** *
62604530 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG--GTC-AC-A
* * *
62604582 CGTGTACCGGA-TAA-TGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTA--GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACA
* * * *
62604631 TGTTTAGTACTAAGTGTAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
62604666 AATAGATTTG
Statistics
Matches: 152, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
47 2 0.01
48 4 0.03
49 60 0.39
50 5 0.03
51 44 0.29
52 30 0.20
53 5 0.03
54 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACA
Found at i:62604573 original size:26 final size:26
Alignment explanation
Indices: 62604544--62604622 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
62604534 TAGTACTAAG
*
62604544 TGCAGGCTACTACGTGTACTGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
62604570 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
62604596 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
62604622 T
1 T
62604623 TGGTCACATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
TGCAGGCTACTACGTGTACCGGATAA
Found at i:62604680 original size:101 final size:103
Alignment explanation
Indices: 62604430--62604669 Score: 235
Period size: 100 Copynumber: 2.4 Consensus size: 103
62604420 TGAGGTCATG
* * * * * *
62604430 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT--TGG-T-CGCATGTGTA--GTAC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAATAATGCAGGCTAC-TACGTGTACCGGA-
* *
62604489 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
64 TAA-TGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
* ***
62604530 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATGCAGGCTACTACGTGTACCGGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAATAATGCAGGCTACTACGTGTACCGGATA
* * *
62604595 ATGCAGGCTACTACGTGTACCGGATAA-TT-GGTCACA
66 ATGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
* * *
62604631 TGTTTAGTACTAAGTGTAGGCTACTATGCGTACCAAATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAATA
62604670 GATTTGGCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
100 39 0.34
101 37 0.32
102 4 0.03
103 30 0.26
104 4 0.03
105 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (103 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAATAATGCAGGCTACTACGTGTACCGGATA
ATGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
Found at i:62609216 original size:49 final size:49
Alignment explanation
Indices: 62609153--62609491 Score: 290
Period size: 49 Copynumber: 6.8 Consensus size: 49
62609143 GATGTCACGC
* *
62609153 GTGTAATACTAAGTGCAGGCTACTATGTGTACCGGATAATTGTTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCAT
* * * * * * *
62609202 TTGTAGTACTAAGTGTAGGCTATTATGCGTACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT-GATCGCAT
* * * *
62609253 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGTTAATTGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCAT
* ** * * *
62609302 GTGTAGTACTAAGTTCAGGCTACTATGCATACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT-GATCGCAT
* * * * *
62609353 GTGTAGTACTAAGTGCAGCCTAGTACGTGTACTGGATAA-TGCA-GGCTACT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTG-ATCGC-A-T
* * *
62609403 ACGTGTACCGGA-TAA-TGCAGGCTACTACGTGTACCGGATAATTGGTCGCAT
1 --GTGTA--GTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCAT
* *
62609454 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
62609492 GCTTTGGCTA
Statistics
Matches: 224, Mismatches: 51, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
47 2 0.01
48 5 0.02
49 99 0.44
50 7 0.03
51 73 0.33
52 29 0.13
53 7 0.03
54 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCAT
Found at i:62609322 original size:100 final size:100
Alignment explanation
Indices: 62609147--62609392 Score: 368
Period size: 100 Copynumber: 2.5 Consensus size: 100
62609137 TATTGTGATG
* * * * *
62609147 TCACGCGTGTAATACTAAGTGCAGGCTACTATGTGTACCGGATAATTGTTCGCATTTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
* *
62609212 AAGTGTAGGCTATTATGCGTACCCGATAACTTCGA
66 AAGTGTAGGCTACTATGCATACCCGATAACTTCGA
* *
62609247 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGTTAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
62609312 AAGT-TCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTGT-AGGCTACTATGCATACCCGATAACTTCGA
* * *
62609347 TCACGTGTGTAGTACTAAGTGCAGCCTAGTACGTGTACTGGATAAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
62609393 GCAGGCTACT
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.01
100 130 0.99
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGTAGGCTACTATGCATACCCGATAACTTCGA
Found at i:62609395 original size:26 final size:26
Alignment explanation
Indices: 62609366--62609444 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
62609356 TAGTACTAAG
* * *
62609366 TGCAGCCTAGTACGTGTACTGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
62609392 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
62609418 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
62609444 T
1 T
62609445 TGGTCGCATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
TGCAGGCTACTACGTGTACCGGATAA
Found at i:62616220 original size:22 final size:21
Alignment explanation
Indices: 62616181--62616221 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
62616171 CACCTGACAC
*
62616181 AGGGGCACACGCCCGTGTGGA
1 AGGGGCACACGCCAGTGTGGA
*
62616202 AGGGGCAACACGCTAGTGTG
1 AGGGGC-ACACGCCAGTGTG
62616222 ACTAGGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.24, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCAGTGTGGA
Found at i:62617476 original size:46 final size:47
Alignment explanation
Indices: 62617296--62617558 Score: 149
Period size: 46 Copynumber: 5.6 Consensus size: 47
62617286 TAAGGTGCCA
* * *
62617296 ATGCTATGTCCCAGACATGGTCTTACACTA--ACTTATATCTC-AAGTCG
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATA-CTCGAGGCCG
* * *
62617343 ATGC-TAGTCCCAAACATGGTCTTACACT-G-ACT-ATCATCTTGCA-GCCA
1 ATGCAT-GTCCCAGACAT-GTCTTACACTAGCACTCAT-A-CTCG-AGGCCG
* * *
62617390 ATGCATGTCGCC-GACATGTCTTAC-CTTG-GCTTATTACTCGAGGCCG
1 ATGCATGTC-CCAGACATGTCTTACACTAGCACTCA-TACTCGAGGCCG
* * * *
62617436 ATGCATGTCCTAGACATGTCTTACACTAGCACTCGT-CTCGATGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCATACTCGAGGCCG
* * * * *
62617482 ATGCTATGTCCCAGA-ATGGTCTTACACTGGCTCTCATAAT-GTGGCCA
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATACTCGAGGCCG
*
62617529 ATGCATGTCCCAAACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
62617559 TCACAATAAC
Statistics
Matches: 172, Mismatches: 26, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
45 7 0.04
46 100 0.58
47 57 0.33
48 8 0.05
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCATACTCGAGGCCG
Found at i:62621506 original size:42 final size:42
Alignment explanation
Indices: 62621447--62621533 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
62621437 AAATTGAAAG
62621447 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
1 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
62621489 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
1 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
62621531 TAT
1 TAT
62621534 ATTAATGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.41
Consensus pattern (42 bp):
TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
Found at i:62643984 original size:232 final size:232
Alignment explanation
Indices: 62643578--62644018 Score: 765
Period size: 232 Copynumber: 1.9 Consensus size: 232
62643568 ACATTCGAAA
* * *
62643578 TGGGATCCCATGGCAGTGTCCCAGCCTATTTTCGACCCCGTGTAACCCTCTGACTTGGGTTACAC
1 TGGGATCCCATGGCAGTGTCCCAGCCCATGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
* *
62643643 GGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTGTGCCA
66 AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
*
62643708 AGTCGTGTGCAAGGCCGTGTAAATACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
131 AGTCGTGTGCAAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
62643773 AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
196 AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
* *
62643810 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACTCTCTGACTTGGGTCACAC
1 TGGGATCCCATGGCAGTGTCCCAGCCCATGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
* * * *
62643875 AGCCAACCACGCCTGTGTGACTAGCCAGTGTTCCCTTCAAAATTGCCTCACACGCCTGTATGCCA
66 AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
*
62643940 AGTCGTGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
131 AGTCGTGTGCAAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
62644005 AACCCATGTGCTAG
196 AACCCATGTGCTAG
62644019 GCCCTATGAC
Statistics
Matches: 196, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
232 196 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (232 bp):
TGGGATCCCATGGCAGTGTCCCAGCCCATGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
AGTCGTGTGCAAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
Found at i:62648499 original size:29 final size:29
Alignment explanation
Indices: 62648464--62648637 Score: 201
Period size: 29 Copynumber: 6.1 Consensus size: 29
62648454 GGAATATAAG
* * * *
62648464 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
62648493 GTGATTTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
62648522 ATGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
62648551 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
62648580 GTGAATTGGGCCTGATGGGCTATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
62648609 GAG-A-TGGGCC-AAGTGGGCCATATGCAT
1 GTGAATTGGGCCTAA-TGGGCCATATGAAT
62648636 GT
1 GT
62648638 ATTTAGGGGT
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 19 0.15
28 1 0.01
29 108 0.84
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:62660911 original size:13 final size:13
Alignment explanation
Indices: 62660893--62660919 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62660883 ATATGTGATA
62660893 TGTGTGAAAATTT
1 TGTGTGAAAATTT
62660906 TGTGTGAAAATTT
1 TGTGTGAAAATTT
62660919 T
1 T
62660920 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:62661475 original size:28 final size:29
Alignment explanation
Indices: 62661444--62661500 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
62661434 AAAGTGATTT
* *
62661444 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATATAAATTGAGGGATTAAA
* *
62661472 TTGAGAAAAATATAAATTGAGGGGTTAAA
1 TTGACAAAAATATAAATTGAGGGATTAAA
62661501 GTGTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (29 bp):
TTGACAAAAATATAAATTGAGGGATTAAA
Found at i:62662098 original size:47 final size:47
Alignment explanation
Indices: 62662041--62662171 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
62662031 GTGTGAATAA
* *
62662041 TACCTTGATTTGGATACGGGCCATGATATAGGTACTTTGAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
* * * *
62662088 TACCTTGATTTGTCTACGGGCCATGATATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
* *
62662135 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACTT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTT
62662172 ATCGATTGAG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
Found at i:62666663 original size:53 final size:53
Alignment explanation
Indices: 62666485--62666690 Score: 187
Period size: 53 Copynumber: 3.8 Consensus size: 53
62666475 ATTAGGGTTT
* * * * ** *
62666485 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTTGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TACATAAGGC
* * * * * * *
62666539 AAGGAAATCATGTATGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTAC-ATAAGGC
* * * * *
62666594 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTACATAAGGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTACATAAGGC
* * *
62666647 AAGGATACTATGTAAGACCATGTCAAGACATGGAAATGGTAAGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGT
62666691 TTAAAAAGGA
Statistics
Matches: 119, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 43 0.36
54 37 0.31
55 39 0.33
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTACATAAGGC
Found at i:62677566 original size:53 final size:53
Alignment explanation
Indices: 62677389--62677595 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
62677379 ATTAGGGTTT
* * * * *
62677389 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
62677443 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
62677498 AAGGATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTCATATGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
62677551 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
62677596 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 37 0.31
55 39 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:62679004 original size:28 final size:29
Alignment explanation
Indices: 62678973--62679037 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
62678963 GATTTTGAGT
*
62678973 AAAAATGCACATT-AGGGATTAAATTGTG
1 AAAAATGCAAATTAAGGGATTAAATTGTG
* * *
62679001 AAAAGTGTAAATTAAGGGGTTAAATTGTG
1 AAAAATGCAAATTAAGGGATTAAATTGTG
62679030 AAATAATG
1 AAA-AATG
62679038 AAAAATATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 10 0.33
29 17 0.57
30 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (29 bp):
AAAAATGCAAATTAAGGGATTAAATTGTG
Found at i:62679698 original size:47 final size:47
Alignment explanation
Indices: 62679570--62679699 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
62679560 GTGTGAGTAA
* * *
62679570 TACCTTGATTTGGCTATGGGCCATGGTATAGGTAATTTGAGAGGAGC
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTGAGAGAAGC
* * *
62679617 TACCTTGATTTGGCTACT-GGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTA-TGGGCCATGGTATAGGTACTCTGAGAGAAGC
62679664 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
62679700 TATCAACTGT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 1 0.01
47 73 0.97
48 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTGAGAGAAGC
Found at i:62698130 original size:48 final size:48
Alignment explanation
Indices: 62697888--62698130 Score: 229
Period size: 48 Copynumber: 5.1 Consensus size: 48
62697878 ATGTGAGTAT
* * * *
62697888 TGAGATCCCGTATAAGACCATATCTGGGATATGGAATTGGCATCGAGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATTGGCATTGATA
* *
62697936 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATTGGCATTGATA
* * * * * * *** * *
62697984 TGAGGTCCCGTATAAGACCATGTTTGGGACATCGCATCAACACTGTTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATTGGCATTGATA
* * * * *
62698032 TGAGA-CTTCGTGTAAGACCATATCTAGGATATGGCATCGACA-TCAGTA
1 TGAGATC-CCGTGTAAGACCATATCTGGGATATGGCATTGGCATTGA-TA
* * *
62698080 TGAGATCCCATGTGAGACCATATCTGGGATATGGGATTGGCATTGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATTGGCATTGATA
62698128 TGA
1 TGA
62698131 TGTCTCGTAA
Statistics
Matches: 155, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
47 2 0.01
48 150 0.97
49 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATTGGCATTGATA
Found at i:62698130 original size:96 final size:96
Alignment explanation
Indices: 62697883--62698130 Score: 257
Period size: 96 Copynumber: 2.6 Consensus size: 96
62697873 ACGACATGTG
* *
62697883 AGTATTGAGATCCCGTATAAGACCATATCTGGGATATGGAATTGGCATCGAGATGAGATCCCATG
1 AGTA-TGAGATCCCGTATAAGACCATATCTGGGATATGGAATTGGCATTGATATGAGATCCCATG
* * *
62697948 TAAGACCATATCTGGGATATGGCATTGGCATC
65 TAAGACCATATCTAGGATATGGCATCGACATC
* * * * * * *** * * * *
62697980 -GATATGAGGTCCCGTATAAGACCATGTTTGGGACATCGCATCAACACTGTTATGAGA-CTTCGT
1 AG-TATGAGATCCCGTATAAGACCATATCTGGGATATGGAATTGGCATTGATATGAGATC-CCAT
62698043 GTAAGACCATATCTAGGATATGGCATCGACATC
64 GTAAGACCATATCTAGGATATGGCATCGACATC
* * * *
62698076 AGTATGAGATCCCATGTGAGACCATATCTGGGATATGGGATTGGCATTGATATGA
1 AGTATGAGATCCCGTATAAGACCATATCTGGGATATGGAATTGGCATTGATATGA
62698131 TGTCTCGTAA
Statistics
Matches: 116, Mismatches: 32, Indels: 7
0.75 0.21 0.05
Matches are distributed among these distances:
95 1 0.01
96 112 0.97
97 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (96 bp):
AGTATGAGATCCCGTATAAGACCATATCTGGGATATGGAATTGGCATTGATATGAGATCCCATGT
AAGACCATATCTAGGATATGGCATCGACATC
Found at i:62703976 original size:6 final size:6
Alignment explanation
Indices: 62703946--62704033 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
62703936 AAGAAACATT
* * *
62703946 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
62703995 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATTAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
62704034 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:62704000 original size:25 final size:25
Alignment explanation
Indices: 62703967--62704033 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
62703957 AATCAAAATG
*
62703967 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
62703992 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
62704017 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
62704034 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:62704298 original size:27 final size:26
Alignment explanation
Indices: 62704252--62704303 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
62704242 ACAAGGCTGC
62704252 CAGATATTGTGACGAAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
62704278 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
62704304 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.15
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:62704582 original size:27 final size:27
Alignment explanation
Indices: 62704552--62704710 Score: 212
Period size: 27 Copynumber: 5.9 Consensus size: 27
62704542 GATAAAATGG
* * * *
62704552 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
62704579 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
62704606 TATTTATACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
62704633 TGATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
62704660 TAATTCTACCCTACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
62704686 GTAATTCTACCCTACAGGGGTATTT
1 -TAATTCTACCCTACAGGGGTATTT
62704711 TAGTAAATCG
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:62704697 original size:81 final size:81
Alignment explanation
Indices: 62704558--62704710 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
62704548 ATGGTAATTT
* *
62704558 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTATTTATACCCTACAGG
1 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTATACCCTACAGG
62704623 GGTATTTCGGTGATTC
66 GGTATTTCGGTGATTC
* * * * *
62704639 TACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTATACCCTACAGG
62704704 GGTATTT
66 GGTATTT
62704711 TAGTAAATCG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (81 bp):
TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTATACCCTACAGG
GGTATTTCGGTGATTC
Found at i:62704751 original size:27 final size:27
Alignment explanation
Indices: 62704714--62704861 Score: 206
Period size: 27 Copynumber: 5.5 Consensus size: 27
62704704 GGTATTTTAG
*
62704714 TAAATCGAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
* * *
62704741 TAAATTGAGGGTAGAATAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
62704768 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
** * *
62704795 TAAATTTAGGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
62704822 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTA
*
62704849 TAAATTGAGGGTA
1 TAAATCGAGGGTA
62704862 CTTTGGTAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAGTAATTCTA
Found at i:62704871 original size:54 final size:54
Alignment explanation
Indices: 62704707--62704888 Score: 238
Period size: 54 Copynumber: 3.4 Consensus size: 54
62704697 CTACAGGGGT
* *
62704707 ATTTTAGTAAATCGAGGGTAAAACAGTAATTCTGTAAATTGAGGGTAGAATAGTA
1 ATTTTA-TAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAATAGTA
* * *
62704762 ATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATTTAGGGTAAAACAGTA
1 ATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAATAGTA
* * *** *
62704816 ATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTACTTTGGTA
1 ATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAATAGTA
* *
62704870 ATTTTACAAGTCGAGGGTA
1 ATTTTATAAATCGAGGGTA
62704889 TTTTAGTAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 105 0.95
55 5 0.05
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (54 bp):
ATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAATAGTA
Found at i:62708243 original size:30 final size:29
Alignment explanation
Indices: 62708200--62708263 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
62708190 CAAGTAGCAG
* *
62708200 AAGCTAGTTAAATCGCACCCTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
62708229 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
62708259 AAGCT
1 AAGCT
62708264 TCCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:62715337 original size:29 final size:30
Alignment explanation
Indices: 62715304--62715367 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
62715294 CAAGTAGCTG
*
62715304 AAGCTA-CTTAAATCGCACACTTAGTACCA
1 AAGCTAGCTTAAATCACACACTTAGTACCA
* *
62715333 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAGCTTAAATCACACACTTAGTACCA
62715363 AAGCT
1 AAGCT
62715368 TCCGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (30 bp):
AAGCTAGCTTAAATCACACACTTAGTACCA
Found at i:62715346 original size:30 final size:30
Alignment explanation
Indices: 62715311--62715367 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
62715301 CTGAAGCTAC
*
62715311 TTAAATCGCACACTTAGTACCAAAGCTAGT
1 TTAAATCACACACTTAGTACCAAAGCTAGT
*
62715341 TTAAATCACACACTTAGTGCCAAAGCT
1 TTAAATCACACACTTAGTACCAAAGCT
62715368 TCCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (30 bp):
TTAAATCACACACTTAGTACCAAAGCTAGT
Found at i:62716573 original size:48 final size:48
Alignment explanation
Indices: 62716489--62716767 Score: 155
Period size: 48 Copynumber: 5.9 Consensus size: 48
62716479 TATTACACGA
* * * * * *
62716489 TATGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCAT-TG
1 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCATCGGCATCAG
* * * *
62716536 TTATGAGACTTCC-TGTAAGACCATATTTTGGATATGGCATCGACATCAG
1 -TATGAGA-TCCCATGTAAGACCATATCTGGGATATGGCATCGGCATCAG
* * * *
62716585 TGTGGGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAA
1 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCATCGGCATCAG
** * * * * * * * * *
62716633 TATGAGGCCCCGTATAAGATCATGTCTAGGACATGGCATCGACACCAT
1 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCATCGGCATCAG
* * * * * *
62716681 TATGAGA-CTTCGTGTAAGACCAT-GCTAGGCTATTAGCATC-G-AT--G
1 TATGAGATC-CCATGTAAGACCATATCTGGGATA-TGGCATCGGCATCAG
* *
62716725 --TGAGATCCCATGTAAGACCACATCTGGGATATGGCATTGGCAT
1 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCATCGGCAT
62716768 ATTTTCATGT
Statistics
Matches: 172, Mismatches: 50, Indels: 22
0.70 0.20 0.09
Matches are distributed among these distances:
42 21 0.12
43 8 0.05
44 2 0.01
46 1 0.01
47 10 0.06
48 126 0.73
49 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
TATGAGATCCCATGTAAGACCATATCTGGGATATGGCATCGGCATCAG
Found at i:62716766 original size:144 final size:140
Alignment explanation
Indices: 62716488--62716767 Score: 359
Period size: 144 Copynumber: 2.0 Consensus size: 140
62716478 CTATTACACG
* * * ***
62716488 ATATGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTCCTGTA
1 ATATGAGGCCCCGTATAAGACCATGTCTAGGACATGGCATCGACACCATTATGAGACTTCCTGTA
** * * * *
62716553 AGACCATATTTTGGATATGGCATCGACATCAGTGTGGGATCCCATGTAAGACCATATCTGGGATA
66 AGACCATAGCTAGGATATAGCATCG--A--AGTGTGAGATCCCATGTAAGACCACATCTGGGATA
62716618 TGGCATTGGCATCA
127 TGGCATTGGCATCA
* *
62716632 ATATGAGGCCCCGTATAAGATCATGTCTAGGACATGGCATCGACACCATTATGAGACTTCGTGTA
1 ATATGAGGCCCCGTATAAGACCATGTCTAGGACATGGCATCGACACCATTATGAGACTTCCTGTA
*
62716697 AGACCAT-GCTAGGCTATTAGCATCG-A-TGTGAGATCCCATGTAAGACCACATCTGGGATATGG
66 AGACCATAGCTAGGATA-TAGCATCGAAGTGTGAGATCCCATGTAAGACCACATCTGGGATATGG
62716759 CATTGGCAT
130 CATTGGCAT
62716768 ATTTTCATGT
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 43 0.36
139 1 0.01
143 5 0.04
144 71 0.59
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (140 bp):
ATATGAGGCCCCGTATAAGACCATGTCTAGGACATGGCATCGACACCATTATGAGACTTCCTGTA
AGACCATAGCTAGGATATAGCATCGAAGTGTGAGATCCCATGTAAGACCACATCTGGGATATGGC
ATTGGCATCA
Found at i:62718480 original size:18 final size:19
Alignment explanation
Indices: 62718440--62718482 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
62718430 CGGGTTGAGG
*
62718440 ACACGGGCGTGTCTGAGCC
1 ACACGGGCGTGTATGAGCC
*
62718459 ACACGGGTGTGTATGA-CC
1 ACACGGGCGTGTATGAGCC
62718477 ACACGG
1 ACACGG
62718483 CCTACCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.21, C:0.28, G:0.35, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTATGAGCC
Found at i:62727050 original size:15 final size:14
Alignment explanation
Indices: 62727030--62727083 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
62727020 GTATCTTGGA
62727030 TTTCTTTACTCTAGG
1 TTTCTTTA-TCTAGG
*
62727045 TTTCTTTATTCTGGG
1 TTTCTTTA-TCTAGG
* *
62727060 TTTCTCTATCTTGG
1 TTTCTTTATCTAGG
62727074 ATTTCTTTAT
1 -TTTCTTTAT
62727084 TCGGTTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 5 0.15
15 28 0.85
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (14 bp):
TTTCTTTATCTAGG
Found at i:62729388 original size:48 final size:49
Alignment explanation
Indices: 62729223--62729445 Score: 297
Period size: 48 Copynumber: 4.5 Consensus size: 49
62729213 TGAGGTCGCA
* * * * *
62729223 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
62729274 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
62729324 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
62729372 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
62729421 TGTGTAGTACTATGT-CAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
62729446 TGCGTACCAG
Statistics
Matches: 156, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
48 49 0.31
49 35 0.22
50 39 0.25
51 33 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:62729397 original size:98 final size:100
Alignment explanation
Indices: 62729216--62729453 Score: 313
Period size: 98 Copynumber: 2.4 Consensus size: 100
62729206 TCTATTGTGA
* *
62729216 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
62729281 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
62729316 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
*
62729378 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
62729414 GGTCGCATGTGTAGTACTATGT-CAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
62729454 AGATAGCTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
96 14 0.12
97 20 0.17
98 45 0.38
99 1 0.01
100 5 0.04
101 35 0.29
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:62743229 original size:16 final size:16
Alignment explanation
Indices: 62743210--62743240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62743200 CTTCTTCACT
62743210 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
62743226 TACTTACTTACTTAA
1 TACTCACTTACTTAA
62743241 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:62743246 original size:20 final size:20
Alignment explanation
Indices: 62743207--62743246 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62743197 AAACTTCTTC
* *
62743207 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
62743227 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
62743247 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:62743624 original size:55 final size:54
Alignment explanation
Indices: 62743422--62743676 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
62743412 ACACAGGTAC
* * * * * *
62743422 CTTACCATTACCATGACTTGTCATGGTCTTATATGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * *
62743471 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
62743524 CTCACCAACGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * * *
62743579 CTTATCAATGCCATGTCTTGACATGGTCTTAAATGGTATCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
62743632 CCTTACCAATTGCAATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
62743677 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 42 0.25
54 8 0.05
55 72 0.43
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:62747209 original size:46 final size:46
Alignment explanation
Indices: 62747142--62747270 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
62747132 TGTAACCCGC
* * *
62747142 CCATAAGTAAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
62747188 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62747234 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62747271 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62749680 original size:15 final size:15
Alignment explanation
Indices: 62749658--62749735 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62749648 AAGAAACCGA
62749658 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62749673 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
62749687 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62749702 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62749718 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62749733 ATA
1 ATA
62749736 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62749690 original size:30 final size:29
Alignment explanation
Indices: 62749648--62749735 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
62749638 CAAAGATAAC
62749648 AAGAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCAGAATAAAGAAATCCAAGATA
*
62749676 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAA-CCAGAATAAAGAAATCCAAG-ATA
* * *
62749706 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCAGAATAAAGAAATCCAAGATA
62749736 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.10
29 4 0.08
30 38 0.76
31 3 0.06
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCAGAATAAAGAAATCCAAGATA
Found at i:62752796 original size:46 final size:46
Alignment explanation
Indices: 62752670--62752798 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
62752660 TGTAACCCGC
* * * ***
62752670 CCATAAGTGAACTCAGACTCAACTTAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62752716 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
62752762 CCATAGGTGAACTCGGACTCAACTCAACGTGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62752799 TGCCCAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62754726 original size:46 final size:46
Alignment explanation
Indices: 62754669--62754841 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
62754659 ATTTGCGTGT
*
62754669 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGTCACATTATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGCA
* * * * *
62754715 GAGCCAATGTAAGACCATGCCTAGGACATGGCATTGG--CATTGAGGCA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT-ATGCA
* * * * *
62754762 TGGGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACGA-GATGTA
1 -GAGCCAGTGTAAGACATGTCTGGGACATGCATCG-GCAC-ATTATGCA
62754810 -AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
62754842 AGCTACGAGA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
45 4 0.04
46 49 0.49
47 25 0.25
48 20 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGCA
Found at i:62754789 original size:47 final size:45
Alignment explanation
Indices: 62754669--62754938 Score: 128
Period size: 47 Copynumber: 5.8 Consensus size: 45
62754659 ATTTGCGTGT
*
62754669 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGTCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG--ACATTAGGA
* * * * *
62754715 GAGCCAATGTAAGACCATGCCTAGGACATGGCATTGG-CATTGAGGCA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGACATT-AGG-A
* **
62754762 TGGGCTAGTGTAAGACATGTCTGGGACAT-GCATC-GACCACGA-GA
1 -GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGA-CATTAGGA
* * *
62754806 TGTAAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCTACGA-GAGGA
1 -G--AGCTAGTGTAAGACATGTCTGGGACATGGCATC-G-GAC-ATTAGGA
* * *
62754855 TAG-TCAGTGTAAGACCATGCCTGGGACATGGCATC-GA-ATTAAGATA
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGACATT-AG-GA
* * * *
62754901 TGAGCCAGTGTAAGACCGTATCTAGGACATGGCATCGG
1 -GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGG
62754939 CATCTTACCC
Statistics
Matches: 172, Mismatches: 29, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 9 0.05
46 61 0.35
47 68 0.40
48 26 0.15
49 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGACATTAGGA
Found at i:62754850 original size:46 final size:46
Alignment explanation
Indices: 62754768--62754891 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
62754758 GGCATGGGCT
*
62754768 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGAGGAT-AGCC
* *
62754814 AGTGTAAGACATGTCTGGGACATGCATC-AGCTACGAGAGGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CCACGAGAGGATAGCC
*
62754860 AGTGTAAGACCATGCCTGGGACATGGCATCGA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGA
62754892 ATTAAGATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
45 1 0.01
46 48 0.70
47 14 0.20
48 5 0.07
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGAGGATAGCC
Found at i:62754929 original size:140 final size:141
Alignment explanation
Indices: 62754674--62754937 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 141
62754664 CGTGTGAGCT
* * *
62754674 AGTGTAAGACATGTCTGGGACATGCATCGGTCACATTATGAGAGCCAATGTAAGACCATGCCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGCTCACATGAGGAGAGCCAATGTAAGACCATGCCTAG
* * * * * * * *
62754739 GACATGGCATTGGCATTGAGGCATGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCACG
66 GACATGGCATTCGAATTAAGACATGAGCCAGTGTAAGACATATCTAGGACATGGCATCGACCACG
62754803 AGATGTAAGCC
131 AGATGTAAGCC
* * *
62754814 AGTGTAAGACATGTCTGGGACATGCATCAGCT-ACGA-GAGGATAGTCAGTGTAAGACCATGCCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCTCAC-ATGAGGAGAGCCAATGTAAGACCATGCCT
* * *
62754877 GGGACATGGCA-TCGAATTAAGATATGAGCCAGTGTAAGACCGTATCTAGGACATGGCATCG
64 AGGACATGGCATTCGAATTAAGACATGAGCCAGTGTAAGA-CATATCTAGGACATGGCATCG
62754938 GCATCTTACC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
139 21 0.20
140 73 0.71
141 9 0.09
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCTCACATGAGGAGAGCCAATGTAAGACCATGCCTAG
GACATGGCATTCGAATTAAGACATGAGCCAGTGTAAGACATATCTAGGACATGGCATCGACCACG
AGATGTAAGCC
Found at i:62757217 original size:12 final size:12
Alignment explanation
Indices: 62757200--62757226 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62757190 TACCGAGTTC
62757200 TTTACTCATGAG
1 TTTACTCATGAG
62757212 TTTACTCATGAG
1 TTTACTCATGAG
62757224 TTT
1 TTT
62757227 TACGTACATA
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:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (12 bp):
TTTACTCATGAG
Found at i:62766536 original size:35 final size:35
Alignment explanation
Indices: 62766437--62766587 Score: 185
Period size: 35 Copynumber: 4.3 Consensus size: 35
62766427 ACCTATAAGA
* *
62766437 CCGATTATACAAGGTTCAATACATCATCACATATGG
1 CCGATTATACAA-ATTCAATATATCATCACATATGG
* * *
62766473 CTGATTATACGAAATCCAATATATCATCACATATAG
1 CCGATTATAC-AAATTCAATATATCATCACATATGG
* *
62766509 CCGAATATACAAATTCAATATACCATCACATATGG
1 CCGATTATACAAATTCAATATATCATCACATATGG
* * * *
62766544 TCAAATATACAAATTCAATATAGCATCACATATGG
1 CCGATTATACAAATTCAATATATCATCACATATGG
62766579 CCGATTATA
1 CCGATTATA
62766588 TAAGGTTCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
35 60 0.61
36 36 0.37
37 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (35 bp):
CCGATTATACAAATTCAATATATCATCACATATGG
Found at i:62774388 original size:35 final size:35
Alignment explanation
Indices: 62774227--62774375 Score: 190
Period size: 35 Copynumber: 4.2 Consensus size: 35
62774217 CTATAAGACT
* *
62774227 GATTATACAACGTTCAATATATCATCACATATGGCT
1 GATTATACAA-ATTCAATATATCATCACATATGGCC
* *
62774263 AATTATACAAAATTCAATATATCATCACATATAGCC
1 GATTATAC-AAATTCAATATATCATCACATATGGCC
* * *
62774299 GAATATACAAATTCAATATACCATCACATATGGCT
1 GATTATACAAATTCAATATATCATCACATATGGCC
* * *
62774334 GAATATACAAACTCAATATATCATCAGATATGGCC
1 GATTATACAAATTCAATATATCATCACATATGGCC
62774369 GATTATA
1 GATTATA
62774376 TAAGGTTCAT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
35 61 0.62
36 35 0.36
37 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (35 bp):
GATTATACAAATTCAATATATCATCACATATGGCC
Found at i:62777797 original size:47 final size:47
Alignment explanation
Indices: 62777690--62777857 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 47
62777680 TGTGTGAGCT
* * *
62777690 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCCACATTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGGCTAC--GA-GACGAGTC
* **
62777736 AGTGAAAGACCATGTCTGGGACATGGCATCA-GCTTTGAGACGAGTTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGGCTACGAGACGAG-TC
* *
62777783 TAGTGTAAGA-CATGTCTGGGACAT-GCAT-AGGCTACGAGATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGGCTACGAGACGAGTC
* *
62777828 AGTGTAGGACCCTGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
62777858 GACACAAATA
Statistics
Matches: 99, Mismatches: 13, Indels: 19
0.76 0.10 0.15
Matches are distributed among these distances:
44 8 0.08
45 18 0.18
46 29 0.29
47 29 0.29
48 15 0.15
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGGCTACGAGACGAGTC
Found at i:62784846 original size:46 final size:45
Alignment explanation
Indices: 62784793--62784968 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
62784783 TATTTGGGCA
62784793 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
62784839 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
62784886 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * *
62784932 CCCGAGCTCATTGATTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62784969 GAGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62784951 original size:93 final size:93
Alignment explanation
Indices: 62784789--62784961 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
62784779 AGGATATTTG
* * *
62784789 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
62784854 TTGAGTCCGAGTTCGAGAAATGTAACTA
66 TTGAGTCCGAGTTCGAGAAATGTAACTA
* * * *
62784882 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCATTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
62784947 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
62784962 CTTATGGGAG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAAATGTAACTA
Found at i:62812124 original size:42 final size:44
Alignment explanation
Indices: 62812044--62812125 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
62812034 AATTGAGATG
* * *
62812044 GCACTAAGTGTGTGGAATTATTATAGCTTTGGCTAATCTTTAAA
1 GCACTAAGTGTGCGGAATTATTAAAGCATTGGCTAATCTTTAAA
62812088 GCACTAAGTGTGCGG-ATGT-TTAAAGCATTGG-TAATCTT
1 GCACTAAGTGTGCGGAAT-TATTAAAGCATTGGCTAATCTT
62812126 CGGAATGCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 7 0.21
43 12 0.35
44 15 0.44
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (44 bp):
GCACTAAGTGTGCGGAATTATTAAAGCATTGGCTAATCTTTAAA
Done.