Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 68 of 318
Found at i:19631521 original size:41 final size:40
Alignment explanation
Indices: 19631306--19631522 Score: 181
Period size: 41 Copynumber: 5.3 Consensus size: 40
19631296 ATAATAAATA
* *
19631306 TTAGCGGCGCTTTT-ACA-AAAACGCCACTATAGCTCAACCTT
1 TTAGCGGCG-TTTTGA-ATAAAACGCCACTATTGCTC-AGCTT
* * * *
19631347 TT-GTGGCGTTTGGACCTAAAGCGCCACTATAT-CTCAGCTT
1 TTAGCGGCGTTTTGA-ATAAAACGCCACTAT-TGCTCAGCTT
* * * *
19631387 TTTGCGGCGTTTTAAATAAAACGCCACTATTTCTCAGTTT
1 TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTT
* * * * * * *
19631427 TTTGCAGTGTTTTGCATAAAAACGCCACTATTACTTAGTTT
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATTGCTCAGCTT
19631468 TTAGCGGCGTTTTGAATGAAAACGCCACTATTGCTCAGCTT
1 TTAGCGGCGTTTTGAAT-AAAACGCCACTATTGCTCAGCTT
*
19631509 TTAGTGGCGTTTTG
1 TTAGCGGCGTTTTG
19631523 TTTCAAACGC
Statistics
Matches: 143, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
39 4 0.03
40 46 0.32
41 93 0.65
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
TTAGCGGCGTTTTGAATAAAACGCCACTATTGCTCAGCTT
Found at i:19631532 original size:81 final size:79
Alignment explanation
Indices: 19631309--19631533 Score: 199
Period size: 81 Copynumber: 2.8 Consensus size: 79
19631299 ATAAATATTA
* * * * *
19631309 GCGGCGCTTTTACA-AAAACGCCACTATAGCTCAACCTTTTGTGGCGTTTGGACCTA-AAGCGCC
1 GCGGCG-TTTTAAATAAAACGCCACTATTGCTC-AGCTTTTGTGGCGTTTTGA--TACAAACGCC
19631372 ACTATATCTCAGCTTTTT
62 ACTATATCTCAGCTTTTT
* * * *
19631390 GCGGCGTTTTAAATAAAACGCCACTATTTCTCAG-TTTTTTGCAGTGTTTTGCATAAAAACGCCA
1 GCGGCGTTTTAAATAAAACGCCACTATTGCTCAGCTTTTGTG--GCGTTTTG-ATACAAACGCCA
*
19631454 CTAT-TACTTAG-TTTTT
63 CTATAT-CTCAGCTTTTT
* * *
19631470 AGCGGCGTTTTGAATGAAAACGCCACTATTGCTCAGCTTTTAGTGGCGTTTTGTTTCAAACGCC
1 -GCGGCGTTTTAAAT-AAAACGCCACTATTGCTCAGCTTTT-GTGGCGTTTTGATACAAACGCC
19631534 GCTAATGTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
79 6 0.05
80 15 0.13
81 64 0.54
82 27 0.23
83 4 0.03
84 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (79 bp):
GCGGCGTTTTAAATAAAACGCCACTATTGCTCAGCTTTTGTGGCGTTTTGATACAAACGCCACTA
TATCTCAGCTTTTT
Found at i:19638157 original size:21 final size:23
Alignment explanation
Indices: 19638117--19638158 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19638107 TTTAATTATT
*
19638117 ATTTTTTCATTTATCTAAATTTG
1 ATTTTTTCATTTATCAAAATTTG
19638140 ATTTTTT-ATTTAT-AAAATT
1 ATTTTTTCATTTATCAAAATT
19638159 AGCATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTTCATTTATCAAAATTTG
Found at i:19642258 original size:2 final size:2
Alignment explanation
Indices: 19642251--19642280 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19642241 GATCTTTTTC
19642251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19642281 TAACAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19648042 original size:40 final size:40
Alignment explanation
Indices: 19647969--19648176 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
19647959 CAATTGAATG
* * ** *
19647969 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
19648009 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
19648049 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
19648089 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
19648129 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
19648169 ATATCCGG
1 ATATCCGG
19648177 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:19648107 original size:80 final size:80
Alignment explanation
Indices: 19647971--19648176 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
19647961 ATTGAATGAT
* * ** * * * *
19647971 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
19648035 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
19648051 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
19648116 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
19648131 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
19648177 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:19662940 original size:40 final size:41
Alignment explanation
Indices: 19662869--19663016 Score: 133
Period size: 40 Copynumber: 3.7 Consensus size: 41
19662859 ATTGAATGAT
* * ** *
19662869 ATCCGGGCTAAGTCCCGAA-GACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCCATTCGTGCTAGTAATTAA
* * * ** *
19662909 ACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACCAC
1 ATCCGGGCTAAGACCCGAAGGCCATTCGTGCTAGTAATTAA
* **
19662949 ATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCCATTCGTGCTAGTAATTAA
*
19662989 ATCCGGGCTAATACCCGAAGG-CATTCGT
1 ATCCGGGCTAAGACCCGAAGGCCATTCGT
19663017 TGCATGTGGT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 4 0.05
40 79 0.90
41 5 0.06
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (41 bp):
ATCCGGGCTAAGACCCGAAGGCCATTCGTGCTAGTAATTAA
Found at i:19667109 original size:26 final size:26
Alignment explanation
Indices: 19667059--19667110 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19667049 AAACAGTGTG
* *
19667059 GGCTTGAGCCCATTTCAGTAACAGTA
1 GGCTTAAGCCCATTACAGTAACAGTA
19667085 GGCTTAAGCCCATTACAG-AATCAGTA
1 GGCTTAAGCCCATTACAGTAA-CAGTA
19667111 CAGTATGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (26 bp):
GGCTTAAGCCCATTACAGTAACAGTA
Found at i:19674598 original size:31 final size:31
Alignment explanation
Indices: 19674560--19674634 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
19674550 ACGGTTACTG
19674560 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
19674591 GGCCGAAGCCTTTTCATAAATCATATCATTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
19674622 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
19674635 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:19674705 original size:42 final size:42
Alignment explanation
Indices: 19674658--19674749 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
19674648 TGGCCCTTAG
* * *
19674658 GCCCATTTTAATATCACATGTAAT-GTCAAT-AGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACT-AATGA-ATGTATGCAA
19674700 GCCCATTTCAATATCACATGAAATACTAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACTAATGAATGTATGCAA
19674742 GCCCATTT
1 GCCCATTT
19674750 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACTAATGAATGTATGCAA
Found at i:19674965 original size:26 final size:26
Alignment explanation
Indices: 19674894--19675016 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
19674884 CCTCTTTAAT
**
19674894 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
19674919 AATTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
19674944 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
19674970 AACTTGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
19674996 AACTGGGGCATAAACCCTTTT
1 AACTGGGGCATAAGCCCTTTT
19675017 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 31 0.36
26 55 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:19674997 original size:52 final size:51
Alignment explanation
Indices: 19674894--19675016 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
19674884 CCTCTTTAAT
19674894 AACTGGGGCA-AAGCCCTTTTCGGTAAATTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAATTGGGGCAAAGCCCTTTTCAATA
19674944 AACTGGGGCATAAGCCCTTTTCGGTAAACTT-GGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAA-TTGGGGCA-AAGCCCTTTTCAATA
*
19674996 AACTGGGGCATAAACCCTTTT
1 AACTGGGGCATAAGCCCTTTT
19675017 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
50 10 0.14
51 22 0.32
52 37 0.54
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAATTGGGGCAAAGCCCTTTTCAATA
Found at i:19675880 original size:27 final size:27
Alignment explanation
Indices: 19675818--19675895 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
19675808 GGGCATATTC
19675818 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
19675845 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
19675872 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
19675896 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:19675966 original size:27 final size:27
Alignment explanation
Indices: 19675936--19676021 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
19675926 GTAAATCTAC
19675936 AAACCAAGGGTATTTCAGTATTTTTGT
1 AAACCAAGGGTATTTCAGTATTTTTGT
*
19675963 AAACCAATGGTATTTCTA-TAATTTTTAG-
1 AAACCAAGGGTATTTC-AGT-ATTTTT-GT
* * *
19675991 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGTATTTTTGT
19676019 AAA
1 AAA
19676022 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 17 0.35
28 18 0.38
29 13 0.27
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTATTTTTGT
Found at i:19676085 original size:54 final size:54
Alignment explanation
Indices: 19676024--19676182 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 54
19676014 TTTGTAAATT
* *
19676024 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCAATAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGCATTTCAATAATTTCACAAACC
* *** * *
19676078 AGTGGTATTTTGGTAATTTTACAAACTAGGGGCATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGCATTTCAATAATTTCACAAACC
* ** * *
19676132 AGGGGTATTTTGGTAATTCTATCTTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTAGGGGCATTTCAATAATTTCACAA
19676183 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 82 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGCATTTCAATAATTTCACAAACC
Found at i:19676168 original size:27 final size:27
Alignment explanation
Indices: 19675999--19676149 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
19675989 AGAAAGTCAA
** *
19675999 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
19676026 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
*** * *
19676052 AGGGTATTTCAATAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
19676080 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
19676107 GGGCATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
19676134 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
19676150 CTATCTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.03
27 99 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:19676189 original size:27 final size:27
Alignment explanation
Indices: 19676024--19676189 Score: 131
Period size: 27 Copynumber: 6.1 Consensus size: 27
19676014 TTTGTAAATT
* *
19676024 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTCACAAA-CG
*** *
19676052 A-GGGTATTTCAATAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTCACAAACG
* * *
19676078 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTCACAAACG
* * *
19676105 AGGGGCATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTCACAAACG
**
19676132 AGGGGTATTTTGGTAA-TTCTATCTTAC-
1 AGGGGTATTTTGGTAATTTC-A-CAAACG
** *
19676159 AGGGGTATTTCAGTAATTTCACAATCG
1 AGGGGTATTTTGGTAATTTCACAAACG
19676186 AGGG
1 AGGG
19676190 TAAAACGGTA
Statistics
Matches: 110, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
26 5 0.05
27 98 0.89
28 7 0.06
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTCACAAACG
Found at i:19676215 original size:27 final size:27
Alignment explanation
Indices: 19676181--19676378 Score: 231
Period size: 27 Copynumber: 7.4 Consensus size: 27
19676171 GTAATTTCAC
* *
19676181 AATCGAGGGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19676208 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
19676235 AATCGAGGGT-AAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19676261 AATCGAGGGTAAAATGGT-ATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
19676287 AATTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19676314 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
19676341 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19676368 AATCGAGGGTA
1 AATCGAGGGTA
19676379 TTTCAGTAAT
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 47 0.32
27 98 0.67
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:19676228 original size:53 final size:54
Alignment explanation
Indices: 19676181--19676378 Score: 249
Period size: 53 Copynumber: 3.7 Consensus size: 54
19676171 GTAATTTCAC
* * *
19676181 AATCGAGGGTAAAACGGTAATTTTTTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
19676235 AATCGAGGGT-AAACGGTAATTCTGTAAATCGAGGGTAAAATGGT-ATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
19676287 AATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * **
19676341 AATCAAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
19676379 TTTCAGTAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
52 15 0.12
53 60 0.48
54 49 0.40
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:19676343 original size:80 final size:80
Alignment explanation
Indices: 19676181--19676378 Score: 290
Period size: 80 Copynumber: 2.5 Consensus size: 80
19676171 GTAATTTCAC
* * * * * *
19676181 AATCGAGGGTAAAACGGTAATTTTTTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
*
19676246 AACGGTAATTCTGTA
66 AACGGTAATTCTATA
19676261 AATCGAGGGTAAAATGGT-ATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGT-
19676325 AAACGGTAATTCTATA
65 AAACGGTAATTCTATA
* * *
19676341 AATCAAGGGTAAAATGGTAATTCTACAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTA
19676379 TTTCAGTAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 40 0.38
80 49 0.46
81 17 0.16
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (80 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
AACGGTAATTCTATA
Found at i:19679946 original size:29 final size:29
Alignment explanation
Indices: 19679904--19679959 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
19679894 ACTTAACAAG
19679904 CAAATGCCTCTAAAATAATAAAAAAATAA
1 CAAATGCCTCTAAAATAATAAAAAAATAA
* * *
19679933 CAAATGTCTTTAAAATAATAACAAAAT
1 CAAATGCCTCTAAAATAATAAAAAAAT
19679960 TAATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.59, C:0.12, G:0.04, T:0.25
Consensus pattern (29 bp):
CAAATGCCTCTAAAATAATAAAAAAATAA
Found at i:19681397 original size:2 final size:2
Alignment explanation
Indices: 19681390--19681475 Score: 78
Period size: 2 Copynumber: 45.5 Consensus size: 2
19681380 CATTAATAAT
19681390 TA TA TA TA TA TA TA -A TA -A T- TA TA TA TA TA TA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
19681427 T- TA TA TA TA TA TA TA CTA CGA TA CA AA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA
19681469 TA TA TA T
1 TA TA TA T
19681476 CTAATCACAT
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
1 7 0.10
2 60 0.85
3 4 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:19681414 original size:15 final size:16
Alignment explanation
Indices: 19681392--19681468 Score: 72
Period size: 15 Copynumber: 4.9 Consensus size: 16
19681382 TTAATAATTA
19681392 TATATATATATAATAAT
1 TATATATATAT-ATAAT
19681409 TATATATATATATAAT
1 TATATATATATATAAT
*
19681425 AAT-TATATATAT-A-
1 TATATATATATATAAT
* *
19681438 TATACTACGATACA-AAT
1 TATA-TA-TATATATAAT
19681455 TATATATATATATA
1 TATATATATATATA
19681469 TATATATCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.04
14 1 0.02
15 15 0.31
16 15 0.31
17 15 0.31
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (16 bp):
TATATATATATATAAT
Found at i:19681414 original size:17 final size:19
Alignment explanation
Indices: 19681383--19681441 Score: 118
Period size: 19 Copynumber: 3.1 Consensus size: 19
19681373 TTGATGTCAT
19681383 TAATAATTATATATATATA
1 TAATAATTATATATATATA
19681402 TAATAATTATATATATATA
1 TAATAATTATATATATATA
19681421 TAATAATTATATATATATA
1 TAATAATTATATATATATA
19681440 TA
1 TA
19681442 CTACGATACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATAATTATATATATATA
Found at i:19682034 original size:19 final size:18
Alignment explanation
Indices: 19682001--19682039 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
19681991 TATACATTAT
19682001 AATTTTTTTGAATAAAATA
1 AATTTTTTTGAAT-AAATA
19682020 AATTTTTTT-ATATAAATA
1 AATTTTTTTGA-ATAAATA
19682038 AA
1 AA
19682040 AGATTATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTTTTTTGAATAAATA
Found at i:19684039 original size:28 final size:28
Alignment explanation
Indices: 19684000--19684068 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
19683990 TTTAAAACCC
19684000 TAGGGGT-ATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
19684027 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
19684055 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
19684069 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:19685879 original size:19 final size:18
Alignment explanation
Indices: 19685842--19685885 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
19685832 ATACATACAG
19685842 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
19685859 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
19685878 TACTAATT
1 TAATAATT
19685886 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:19695515 original size:46 final size:46
Alignment explanation
Indices: 19695275--19695501 Score: 325
Period size: 46 Copynumber: 4.9 Consensus size: 46
19695265 TGTAACCCGC
* * *
19695275 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
19695321 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
19695371 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
19695414 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
19695460 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
19695502 AACCATCCTA
Statistics
Matches: 162, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 2 0.01
46 118 0.73
47 32 0.20
48 2 0.01
49 1 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:19711838 original size:101 final size:101
Alignment explanation
Indices: 19711668--19711890 Score: 247
Period size: 101 Copynumber: 2.2 Consensus size: 101
19711658 AGTCCACTAA
* * * * * * *
19711668 GACAATAAACACGGGGTAGTTCACTAGGACAGTAAGAACGGGGTTATATTGTGTAAGACCATAGC
1 GACAATAAACACAGGGTAGTCCACTAGGACAGTAAAAACAGGGTTATATTGTGTAAGAACACAAC
* *
19711733 TGAAAGACA-TTACAGA-ATCATATGAAAGTCTGT-CGG
66 TGAAAGA-AGCTACA-ACATCATATAAAAGTCT-TACGG
* * *
19711769 GACAATAAACACATGGTAGTCCACT-GAGATAGTAAAAACAGGGTTATATTGTGTAAGAATACAA
1 GACAATAAACACAGGGTAGTCCACTAG-GACAGTAAAAACAGGGTTATATTGTGTAAGAACACAA
*
19711833 TTGAAAGAAGCTACAACATCATATAAAAGTCTTACGG
65 CTGAAAGAAGCTACAACATCATATAAAAGTCTTACGG
* *
19711870 GACAAGAAACATAGGGTAGTC
1 GACAATAAACACAGGGTAGTC
19711891 TATCGAGACA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
100 4 0.04
101 98 0.96
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (101 bp):
GACAATAAACACAGGGTAGTCCACTAGGACAGTAAAAACAGGGTTATATTGTGTAAGAACACAAC
TGAAAGAAGCTACAACATCATATAAAAGTCTTACGG
Found at i:19712663 original size:71 final size:71
Alignment explanation
Indices: 19712547--19712690 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
19712537 ACAAACATGT
* *
19712547 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGATTATAAGGAAGTAATTCGACCGCTATTCAT
1 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGATTACAAGGAAGTAATTCAACCGCTATTCAT
19712612 CCCAAG
66 CCCAAG
*
19712618 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGATTACAAGGAAGTAATTCAACTGCTATTCAT
1 CACACTTCCAAGCATGGTATTTTGAACAAGGTGGATTACAAGGAAGTAATTCAACCGCTATTCAT
19712683 CCCAAG
66 CCCAAG
19712689 CA
1 CA
19712691 GGACTTAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (71 bp):
CACACTTCCAAGCATGGTATTTTGAACAAGGTGGATTACAAGGAAGTAATTCAACCGCTATTCAT
CCCAAG
Found at i:19715237 original size:57 final size:58
Alignment explanation
Indices: 19715161--19715276 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 58
19715151 CATTTTCAAG
* * * *
19715161 TCATTTTCATTTTTAAGAAAACTACATTCATTTCCAAATGGTT-TCATTTCTCCATTT
1 TCATTATCATTTTGAAGAAAACCACAATCATTTCCAAATGGTTCTCATTTCTCCATTT
* * *
19715218 TCATTATCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTCCATTT
1 TCATTATCATTTTGAAGAAAACCACAATCATTTCCAAATGGTTCTCATTTCTCCATTT
19715276 T
1 T
19715277 TACCATTTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 36 0.71
58 15 0.29
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (58 bp):
TCATTATCATTTTGAAGAAAACCACAATCATTTCCAAATGGTTCTCATTTCTCCATTT
Found at i:19718196 original size:48 final size:48
Alignment explanation
Indices: 19718107--19718244 Score: 195
Period size: 48 Copynumber: 2.9 Consensus size: 48
19718097 TGTCTCATAT
* * * *
19718107 CAATGCCATGTCCTAGACATAGTCTTACACGGAATCACATATCGATGC
1 CAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCATATCGATGC
* *
19718155 CAATGCCATGTCCCAGACATGGTCGTACATGGGATCTCATATCGATGC
1 CAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCATATCGATGC
* * *
19718203 TAATGCGATGTCCTAGACAAGGTCTTACATGGGATCTCATAT
1 CAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCATAT
19718245 AACTCCAATG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
CAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCATATCGATGC
Found at i:19721829 original size:6 final size:6
Alignment explanation
Indices: 19721818--19721850 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
19721808 AAGATAAAAG
19721818 AAAATA AAAATA AAAATA AAAATAA AAAATA AA
1 AAAATA AAAATA AAAATA AAAAT-A AAAATA AA
19721851 GTAGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:19735373 original size:8 final size:8
Alignment explanation
Indices: 19735360--19735391 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
19735350 CTAGATCGGC
19735360 AAAAGCCG
1 AAAAGCCG
19735368 AAAAGCCG
1 AAAAGCCG
*
19735376 AAATGCCG
1 AAAAGCCG
19735384 AAAAGCCG
1 AAAAGCCG
19735392 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:19735670 original size:28 final size:28
Alignment explanation
Indices: 19735638--19735702 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
19735628 ATTTACTAGA
*
19735638 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
19735666 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
19735694 ATACCCCTA
1 ATACCCCTA
19735703 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:19735878 original size:27 final size:27
Alignment explanation
Indices: 19735808--19735897 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 27
19735798 AGGAAGTGTC
19735808 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
19735836 CTGGTGGC-CTTACCACATATATCTGTT
1 CTGGTGGCAC-TGCCACAAATATCTGTT
*
19735863 CTGGTGGCACTGCCACAAAATTTCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
19735892 CTGGTG
1 CTGGTG
19735898 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 21 0.40
28 24 0.46
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:19735916 original size:55 final size:55
Alignment explanation
Indices: 19735808--19735922 Score: 123
Period size: 55 Copynumber: 2.1 Consensus size: 55
19735798 AGGAAGTGTC
*
19735808 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCTTACCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACCTTA-CACATATATCTGTAT
*
19735863 CTGGTGGC-ACTGCCACAAAATT-TCTGTATCTGGTGACTCTGT-CACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCAC-AAATTATCTGT-TCTGGTGAC-CT-TACACATATATCTGTAT
19735919 CTGG
1 CTGG
19735923 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
54 1 0.02
55 25 0.48
56 23 0.44
57 2 0.04
58 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGACCTTACACATATATCTGTAT
Found at i:19742319 original size:40 final size:38
Alignment explanation
Indices: 19742263--19742415 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 38
19742253 GGATATAGCG
* *
19742263 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAAT
1 ACTCGCACAAAAGCCTTCGGGACATAGCCCGGTT-TAGT
* * * *
19742302 AGCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 A-CTCGCACAAAAGCCTTCGGGACATAGCCCGG-TTTAGT
* *
19742342 AACTCGCACAAATGCCTTCGGGA-ATTGACCCGGATTTAGT
1 -ACTCGCACAAAAGCCTTCGGGACATAG-CCCGG-TTTAGT
* *
19742382 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 -AC-TCGCACAAAAGCCTTCGGGACATAGCCCGG
19742416 ATACCATTCG
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 62 0.67
41 26 0.28
42 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
ACTCGCACAAAAGCCTTCGGGACATAGCCCGGTTTAGT
Found at i:19750134 original size:29 final size:28
Alignment explanation
Indices: 19750102--19750204 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
19750092 GTGACGAGAT
* *
19750102 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
19750131 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
19750160 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
19750189 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19750205 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:19758154 original size:29 final size:29
Alignment explanation
Indices: 19758092--19758194 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
19758082 GTGACGAGAT
* * *
19758092 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
19758121 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
19758150 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
19758179 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19758195 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:19760688 original size:27 final size:27
Alignment explanation
Indices: 19760603--19760679 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
19760593 TACATCTCAT
19760603 AGGGGCATAATAGTCATTTTATCACTC
1 AGGGGCATAATAGTCATTTTATCACTC
*
19760630 AGGGGCATAATAGTCATTTTATCACAC
1 AGGGGCATAATAGTCATTTTATCACTC
19760657 AGGGGCATAATAGTCATTTTATC
1 AGGGGCATAATAGTCATTTTATC
19760680 GATTAGGGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (27 bp):
AGGGGCATAATAGTCATTTTATCACTC
Found at i:19762816 original size:49 final size:50
Alignment explanation
Indices: 19762759--19762857 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
19762749 TATACTGACT
* *
19762759 TAATTCGAAAGGGTA-CCCAGGGGACACACAGCCGTGTAGCATGATCGTG
1 TAATTCGAAAGGGTACCCCAAGGGACACACAGCCGTGTAGCATGACCGTG
19762808 TAATTCGAAAGGGTACCCCAAGGGACACACAGCCGTGTAGCATGACCGTG
1 TAATTCGAAAGGGTACCCCAAGGGACACACAGCCGTGTAGCATGACCGTG
19762858 GTCACATACG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 15 0.32
50 32 0.68
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.17
Consensus pattern (50 bp):
TAATTCGAAAGGGTACCCCAAGGGACACACAGCCGTGTAGCATGACCGTG
Found at i:19764435 original size:11 final size:11
Alignment explanation
Indices: 19764415--19764447 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
19764405 AAACATGCAA
19764415 ATCTATCATTT
1 ATCTATCATTT
*
19764426 ATCTACCATTT
1 ATCTATCATTT
19764437 ATCTATCATTT
1 ATCTATCATTT
19764448 TTCATCATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (11 bp):
ATCTATCATTT
Found at i:19765500 original size:41 final size:41
Alignment explanation
Indices: 19765423--19765683 Score: 418
Period size: 41 Copynumber: 6.4 Consensus size: 41
19765413 CGTTTTTTAC
*
19765423 TAAAACGCCGCTAAAAA--AGGGCATTAGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
*
19765462 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGTGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
19765503 TAAAACGCCGTTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* * *
19765544 TAAAACGCCGCTAAAAACCAGAGAATTAGCGGCCCTTTCTG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
19765585 TAAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
*
19765626 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
19765667 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
19765684 TCCCATAACC
Statistics
Matches: 203, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 17 0.08
41 186 0.92
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
Found at i:19766759 original size:15 final size:15
Alignment explanation
Indices: 19766739--19766770 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19766729 TTTAATTTAG
*
19766739 AAGATAAATGTATAT
1 AAGATAAATATATAT
19766754 AAGATAAATATATAT
1 AAGATAAATATATAT
19766769 AA
1 AA
19766771 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:19766809 original size:24 final size:24
Alignment explanation
Indices: 19766742--19766809 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
19766732 AATTTAGAAG
* *
19766742 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
19766767 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
19766791 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
19766810 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:19768384 original size:12 final size:12
Alignment explanation
Indices: 19768369--19768411 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
19768359 ATCTTAATGA
19768369 TGATGATGATGT
1 TGATGATGATGT
19768381 TGAT-ACTGATGT
1 TGATGA-TGATGT
* *
19768393 TGATGTTGATCT
1 TGATGATGATGT
19768405 TGATGAT
1 TGATGAT
19768412 TATACCCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.96
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (12 bp):
TGATGATGATGT
Found at i:19768390 original size:18 final size:18
Alignment explanation
Indices: 19768369--19768411 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19768359 ATCTTAATGA
19768369 TGATGATGATGTTGATAC-
1 TGATGATGATGTTGAT-CT
*
19768387 TGATGTTGATGTTGATCT
1 TGATGATGATGTTGATCT
19768405 TGATGAT
1 TGATGAT
19768412 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (18 bp):
TGATGATGATGTTGATCT
Found at i:19770351 original size:124 final size:125
Alignment explanation
Indices: 19770200--19770442 Score: 380
Period size: 133 Copynumber: 1.9 Consensus size: 125
19770190 TGGTGATTAC
19770200 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAAC-TAGTGTGGACTTA
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTAGTGTGGACTTA
19770264 GATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATATAATAAAATTGTTAT
66 GATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATATAATAAAATTGTTAT
19770324 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAAC--------TTAGTG
* * *
19770389 TGGACTTAGATTGATTTAAGAGTTTATTGTTGTCTTGTTGCTCACGTTTTATAT
58 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATAT
19770443 TGTTGAATTC
Statistics
Matches: 107, Mismatches: 3, Indels: 9
0.90 0.03 0.08
Matches are distributed among these distances:
124 51 0.48
133 56 0.52
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (125 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTAGTGTGGACTTA
GATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATATAATAAAATTGTTAT
Found at i:19772360 original size:21 final size:21
Alignment explanation
Indices: 19772331--19772370 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19772321 TTTTTTATAT
*
19772331 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
19772352 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
19772371 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:19773321 original size:46 final size:46
Alignment explanation
Indices: 19773271--19773443 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
19773261 TGGTTGAGCA
*
19773271 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
19773317 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
19773364 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
19773410 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19773444 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19773427 original size:93 final size:93
Alignment explanation
Indices: 19773268--19773438 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
19773258 GGATGGTTGA
* *
19773268 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
19773333 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
19773361 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
19773426 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19773439 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19773703 original size:19 final size:20
Alignment explanation
Indices: 19773668--19773705 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
19773658 ATAAGGTGGT
19773668 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
19773688 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
19773706 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:19781213 original size:43 final size:43
Alignment explanation
Indices: 19781095--19781504 Score: 337
Period size: 43 Copynumber: 9.5 Consensus size: 43
19781085 CTGGGCAAAT
* *
19781095 TAGCGGCCTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGG-CGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * **
19781139 TAGCGGCATTTTTTTACAAAAGCGCAACTAAAAGTACAGGTCTA
1 TAGCGGC-GTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* *
19781183 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* * * *
19781226 CAGAGGCGTTTTTTTTACAAAAGCGCCGCTAAAAGTACAAGTCTA
1 TAGCGGCG--TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* *
19781271 TAACGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
19781314 TAGCGGCATTTTTTATAAAAGCGCCGCT--AAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* * ** * * * *
19781356 TAGCGGCGCTTTTGTAAAAAAAAGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * * *
19781400 TGGCGGCGTTTTTT-TAATAGAGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * * *
19781442 TAGAGGCG-CTTTTATAAAAAACACCACTAAAAAT-CATGGTCTT
1 TAGCGGCGTTTTTTAT-AAAAGCGCCGCTAAAAGTACA-GGTCTA
*
19781485 TAGCGGCGTTTTTTAGAAAA
1 TAGCGGCGTTTTTTATAAAA
19781505 AACGCCGTGA
Statistics
Matches: 303, Mismatches: 50, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
41 9 0.03
42 52 0.17
43 139 0.46
44 65 0.21
45 32 0.11
46 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:19781258 original size:88 final size:86
Alignment explanation
Indices: 19781095--19781415 Score: 333
Period size: 88 Copynumber: 3.7 Consensus size: 86
19781085 CTGGGCAAAT
* *
19781095 TAGCGGCCTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTTACAAAA
1 TAGCGG-CGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGC-TTTTTTTACAAAA
**
19781160 GCGCAACTAAAAGTACAGGTCTA
64 GCGCCGCTAAAAGTACAGGTCTA
* * * *
19781183 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTACAGAGGCGTTTTTTTTACAAA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGCGGC--TTTTTTTACAAA
*
19781247 AGCGCCGCTAAAAGTACAAGTCTA
63 AGCGCCGCTAAAAGTACAGGTCTA
* * * *
19781271 TAACGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGC
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCTTTTTTTACAAAAGC
* *
19781336 GCCGCT--AAGTTCTTGGTCTA
66 GCCGCTAAAAGTAC-AGGTCTA
* * ** * * * * *
19781356 TAGCGGCGCTTTTGTAAAAAAAAGCCGCTAAAGGTCCTGGTCTTTGGCGGCGTTTTTTTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGC-TTTTTTTA
19781416 ATAGAGCCGC
Statistics
Matches: 194, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
84 5 0.03
85 11 0.06
86 58 0.30
87 38 0.20
88 76 0.39
89 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (86 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCTTTTTTTACAAAAGC
GCCGCTAAAAGTACAGGTCTA
Found at i:19781337 original size:131 final size:131
Alignment explanation
Indices: 19781103--19781355 Score: 436
Period size: 131 Copynumber: 1.9 Consensus size: 131
19781093 ATTAGCGGCC
* *
19781103 TTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTTACAAAAGCGCAACT
1 TTTTTTTACAAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCATTTTTTTACAAAAGCGCAACT
*
19781168 AAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTACAGAGGC
66 AAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGCGCCGCT-AAGTTCTTGGTCTACAGAGGC
19781233 GT
130 GT
* **
19781235 TTTTTTTACAAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCA-TTTTTTATAAAAGCGCCGCT
1 TTTTTTTACAAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCATTTTTTTACAAAAGCGCAACT
19781299 AAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAGTTCTTGGTCTA
66 AAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAGTTCTTGGTCTA
19781356 TAGCGGCGCT
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
130 14 0.12
131 59 0.51
132 42 0.37
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (131 bp):
TTTTTTTACAAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCATTTTTTTACAAAAGCGCAACT
AAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAGTTCTTGGTCTACAGAGGCG
T
Found at i:19781379 original size:131 final size:132
Alignment explanation
Indices: 19781112--19781387 Score: 407
Period size: 131 Copynumber: 2.1 Consensus size: 132
19781102 CTTTTTTTAC
* *
19781112 AAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTTACAAAAGCGCAACTAAAAGTACA
1 AAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCATTTTTTTACAAAAGCGCAACTAAAAGTACA
* * **
19781177 GGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTACAGAGGCGTTTTTTTT
66 GGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTACAGAGGCGTTTTGTAA
*
19781242 AC
131 AA
* **
19781244 AAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCA-TTTTTTATAAAAGCGCCGCTAAAAGTACA
1 AAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCATTTTTTTACAAAAGCGCAACTAAAAGTACA
* *
19781308 GGTCTATAGCGGCATTTTTTATAAAAGCGCCGCT-AAGTTCTTGGTCTATAGCGGCGCTTTTGTA
66 GGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTACAGAGGCG-TTTTGTA
19781372 AAA
130 AAA
19781375 AAAA--GCCGCTAAA
1 AAAAGCGCCGCTAAA
19781388 GGTCCTGGTC
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
129 9 0.07
130 20 0.15
131 69 0.53
132 33 0.25
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (132 bp):
AAAAGCGCCGCTAAAAGTACAAGTCTATAACGGCATTTTTTTACAAAAGCGCAACTAAAAGTACA
GGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTACAGAGGCGTTTTGTAA
AA
Found at i:19782623 original size:54 final size:52
Alignment explanation
Indices: 19782538--19782793 Score: 143
Period size: 54 Copynumber: 4.8 Consensus size: 52
19782528 TTAGGGTTTA
* *
19782538 AGGATACTATGTATA-ACCATGCCAAGTCATGGAAATTGGTAAGGTTTCTAAGGC
1 AGGATACCATGTA-AGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
19782592 AGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAACTTACTATAAGGC
1 AGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
** * * *
19782646 AAAAGG-T-CTCATGTAAGACCATGCCAAGGTATGGCATTGGTGAG-TTCATAAGGTA
1 ---AGGATAC-CATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGG-C
*** *
19782701 AGGATACCATGTAAGACCATGTTGAGACATGGAAATT-GTAAGTTTC-AA--A
1 AGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * * * *
19782750 AGAATACCACGTAAAACCATGACAAGTCATGGCAA-TGGTAAGTT
1 AGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTT
19782794 ACTCATGTAT
Statistics
Matches: 158, Mismatches: 30, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
52 7 0.04
53 34 0.22
54 46 0.29
55 2 0.01
56 30 0.19
57 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
AGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:19790305 original size:55 final size:52
Alignment explanation
Indices: 19790239--19790486 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 52
19790229 ATTAGGGTTT
* *
19790239 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGCAAGGTTTCTAAGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAA-GTTTC-AAGG
* * *
19790293 CAAGGGTACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACCATAAGG
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT-TC--AAGG
* * * *
19790348 AAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTC----
1 --AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCAAGG
*
19790395 AAGGATACCATGTAAGACCATGTAAAGACATGGCAA-TGGTAAGTTTCAA--
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCAAGG
* * *
19790444 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
19790487 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
45 4 0.02
46 31 0.19
47 4 0.02
49 39 0.24
53 4 0.02
54 8 0.05
55 70 0.43
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCAAGG
Found at i:19790409 original size:46 final size:48
Alignment explanation
Indices: 19790356--19790486 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 48
19790346 GGAAAAGGTC
* * * *
19790356 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTC-AAGGATA
1 CCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTTCAAAGGATA
19790402 CCATGTAAGACCATGTA-AAGACATGGCAATGGTAAGTTTCAAAAGGATA
1 CCATGTAAGACCATG-ACAAGACATGGCAATGGTAAGTTTC-AAAGGATA
* *
19790451 CCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CCATGTAAGACCATGACAAGACATGGCAATGGTAAG
19790487 GTACCCGTGT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 31 0.42
47 3 0.04
48 1 0.01
49 39 0.53
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (48 bp):
CCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTTCAAAGGATA
Found at i:19795378 original size:10 final size:10
Alignment explanation
Indices: 19795365--19795397 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
19795355 GATTTCAAAT
19795365 TCCCCCTAAA
1 TCCCCCTAAA
19795375 TCCCCCTAAA
1 TCCCCCTAAA
*
19795385 TCCCACTAAA
1 TCCCCCTAAA
19795395 TCC
1 TCC
19795398 ACCACTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.21
Consensus pattern (10 bp):
TCCCCCTAAA
Found at i:19801237 original size:12 final size:11
Alignment explanation
Indices: 19801170--19801248 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 11
19801160 TATTTTCCAT
19801170 TATTTTTTATCA
1 TATTTTTTAT-A
* *
19801182 TATATTTTATC
1 TATTTTTTATA
***
19801193 TATAAATTATA
1 TATTTTTTATA
* *
19801204 TAATATTGTATA
1 T-ATTTTTTATA
*
19801216 TCTTATTTTATA
1 TATT-TTTTATA
19801228 TATTTCTTTATA
1 TATTT-TTTATA
19801240 TATTTTTTA
1 TATTTTTTA
19801249 AAAATTGTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
11 15 0.29
12 37 0.71
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (11 bp):
TATTTTTTATA
Found at i:19801682 original size:14 final size:14
Alignment explanation
Indices: 19801663--19801692 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19801653 TCTATCTTTC
*
19801663 TTATATATTTTTTA
1 TTATATATTATTTA
19801677 TTATATATTATTTA
1 TTATATATTATTTA
19801691 TT
1 TT
19801693 TTGTACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATATTATTTA
Found at i:19801747 original size:11 final size:10
Alignment explanation
Indices: 19801732--19801790 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
19801722 TGCAAAATAC
19801732 TTATTATATT
1 TTATTATATT
19801742 CTTATTAT-TT
1 -TTATTATATT
19801752 TATATTATATT
1 T-TATTATATT
**
19801763 TCCTTATATT
1 TTATTATATT
19801773 TTATTCATATT
1 TTATT-ATATT
*
19801784 ATATTAT
1 TTATTAT
19801791 TATATATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATATT
Found at i:19803764 original size:2 final size:2
Alignment explanation
Indices: 19803757--19803784 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19803747 ACATACATAC
19803757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19803785 GACCGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19831974 original size:49 final size:50
Alignment explanation
Indices: 19831867--19831977 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 50
19831857 CGGGTTTCTT
* * * * *
19831867 ACACTAGCTTCAGACCAGGGTTGTTCAAATAAGCCAGTTCGATGCTGCTA
1 ACACTAGCTTCAAACCAAGGTTGCTCAAATAAGCCAGTTCAATGATGCTA
* * *
19831917 ACACTAGCTTCAAACCAAGGTTGCTCAAA-GAGCTAGTTCAATTATGCTA
1 ACACTAGCTTCAAACCAAGGTTGCTCAAATAAGCCAGTTCAATGATGCTA
19831966 ACACTAGCTTCA
1 ACACTAGCTTCA
19831978 GAGAATCCGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 27 0.51
50 26 0.49
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (50 bp):
ACACTAGCTTCAAACCAAGGTTGCTCAAATAAGCCAGTTCAATGATGCTA
Found at i:19832898 original size:30 final size:30
Alignment explanation
Indices: 19832841--19832898 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19832831 TTTTCAAGCA
* *
19832841 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
19832871 TAGGGGCAAAATGGTCATTTTATCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
19832899 ATATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:19833285 original size:46 final size:46
Alignment explanation
Indices: 19833227--19833447 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 46
19833217 ACTCCTGTGT
*
19833227 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGA
* * *
19833273 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCA-TTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATGATGA
* * * * * * *
19833318 CGGGGGTTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGACGTA
1 ---GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATG-A
*
19833368 -AGCTAGTGTAAGACATGTCTGGGACATGCAT-AGGCTACGA-GATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCA-GCCAC-ATGATGA
* *
19833413 TAG-TCAATGTAAGACCATGTCTGGGACATGGCATC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC
19833448 GACCTGAGAG
Statistics
Matches: 139, Mismatches: 20, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
45 4 0.03
46 64 0.46
47 47 0.34
48 22 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGA
Found at i:19833469 original size:93 final size:93
Alignment explanation
Indices: 19833234--19833473 Score: 215
Period size: 94 Copynumber: 2.6 Consensus size: 93
19833224 TGTGAGCTAG
* *
19833234 TGTAAGACATGTCTGGGACATGCATC-AGCCACATTATGA--GAGCCAGTGTAAGACCATGTCTG
1 TGTAAGACATGTCTAGGACATGCATCGA-CCTCA--A-GACTGAGCCAGTGTAAGACCATGTCTG
* * * * * *
19833296 GGACATGGCATCGGCATTGAGACGGGGGTTAG
62 GGACATGGCATAGGCATCGAGACGAGAGTCAA
* * *
19833328 TGTAAGACATGTCTAGGACATGCATCGGCCTCAAGACGTAAGCTAGTGTAAGA-CATGTCTGGGA
1 TGTAAGACATGTCTAGGACATGCATCGACCTCAAGAC-TGAGCCAGTGTAAGACCATGTCTGGGA
* *
19833392 CAT-GCATAGGC-TACGAGATGATAGTCAA
65 CATGGCATAGGCAT-CGAGACGAGAGTCAA
* *
19833420 TGTAAGACCATGTCTGGGACATGGCATCGACCTGAGAGA-TGAGCCAGTGTAAGA
1 TGTAAGA-CATGTCTAGGACAT-GCATCGACCTCA-AGACTGAGCCAGTGTAAGA
19833474 TCTTATCTGG
Statistics
Matches: 120, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
91 3 0.03
92 23 0.19
93 40 0.33
94 51 0.43
95 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (93 bp):
TGTAAGACATGTCTAGGACATGCATCGACCTCAAGACTGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATAGGCATCGAGACGAGAGTCAA
Found at i:19836484 original size:47 final size:47
Alignment explanation
Indices: 19836421--19836762 Score: 515
Period size: 47 Copynumber: 7.3 Consensus size: 47
19836411 CCCTTCGGGA
* *
19836421 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
19836468 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGTC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG-C
* *
19836516 C-TATCTCATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
19836562 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19836609 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
19836656 CCTATCACATATATATACTTTCACATTCATCACATTGGCCACTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
19836703 CTTATCACATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
19836750 CTTATCACATATA
1 CTTATCACATATA
19836763 CATCTTGTAC
Statistics
Matches: 270, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 2 0.01
47 266 0.99
48 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19845599 original size:47 final size:47
Alignment explanation
Indices: 19845421--19845639 Score: 182
Period size: 47 Copynumber: 4.7 Consensus size: 47
19845411 TGTGTGAGCT
*** **
19845421 AGTGTAAGACATGTCTGGGACATGGCATCGACAGT-GAGATG-GGGGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC--TCGAGATGATAAGCC
* * *
19845468 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGATGATAAGCC
* * * *
19845514 AATGTAAGACATGTCTAGGACAT-GCATCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGATGATAAGCC
* * *
19845560 AGTGTAAGACCATGCCTGGGACATGGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGATGATAAGCC
* *
19845607 AGTGTAAGACCTTATCTGGGACATGGCATCGAC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGAC
19845640 ATTTTACCCA
Statistics
Matches: 144, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 4 0.03
46 57 0.40
47 75 0.52
48 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGATGATAAGCC
Found at i:19845607 original size:93 final size:93
Alignment explanation
Indices: 19845423--19845640 Score: 217
Period size: 93 Copynumber: 2.3 Consensus size: 93
19845413 TGTGAGCTAG
* * * * * *
19845423 TGTAAGACATGTCTGGGACATGGCATCGACAGTGAGATGGGGGTTAGTGTAAGACATGTCTAGGA
1 TGTAAGACATGTCTAGGACATGGCATCGACAGCGAGATGAGAGTCAGTGTAAGACATGCCTAGGA
* *
19845488 CATGCATCGGCCTCGAGACGTAAGCCAA
66 CATGCATCGGACTCGAGACATAAGCCAA
* * *
19845516 TGTAAGACATGTCTAGGACAT-GCATCGGCTA-CGAGATGATAGTCAGTGTAAGACCATGCCTGG
1 TGTAAGACATGTCTAGGACATGGCATCGAC-AGCGAGATGAGAGTCAGTGTAAGA-CATGCCTAG
* * * *
19845579 GACATGGCATC-GACTTGAGATATGAGCCAG
64 GACAT-GCATCGGACTCGAGACATAAGCCAA
* * *
19845609 TGTAAGACCTTATCTGGGACATGGCATCGACA
1 TGTAAGA-CATGTCTAGGACATGGCATCGACA
19845641 TTTTACCCAC
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
92 24 0.24
93 53 0.52
94 17 0.17
95 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (93 bp):
TGTAAGACATGTCTAGGACATGGCATCGACAGCGAGATGAGAGTCAGTGTAAGACATGCCTAGGA
CATGCATCGGACTCGAGACATAAGCCAA
Found at i:19852588 original size:22 final size:21
Alignment explanation
Indices: 19852528--19852591 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
19852518 TTTAATTTCA
*
19852528 ATTAAAATTAAATG-ATTTAT
1 ATTAATATTAAATGAATTTAT
* *
19852548 A-TATATATTTAATTCAATTTAT
1 ATTA-ATA-TTAAATGAATTTAT
19852570 ATTAATATTAAAATGAATTTAT
1 ATTAATATT-AAATGAATTTAT
19852592 TAAAATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 7 0.21
22 20 0.59
23 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
ATTAATATTAAATGAATTTAT
Found at i:19855164 original size:132 final size:131
Alignment explanation
Indices: 19854996--19855258 Score: 463
Period size: 132 Copynumber: 2.0 Consensus size: 131
19854986 ATTCATAACC
19854996 CAAAACATGGGTAAATGATATCCTTTTATTAACATTACATGGTTGATGAAAAGTAAACGTGGTCA
1 CAAAACATGGGTAAATGATATCCTTTTATTAACATTACATGGTTGATGAAAAGTAAACGTGGTCA
*
19855061 TGGGTCATCCATCTTTGTGATGGATGACTTTATCACTATTTAATAGTGATTGACTTTTCATGAAA
66 TGGGTCATCCATCTTTATGATGGATGACTTTATCACTATTTAATAGTGATTGACTTTTCAT-AAA
19855126 GG
130 GG
* ** *
19855128 CAAAACATGGGTAAATGATATCTTTTTATTGGCATTACTTGGTTGATGAAAAGTAAACGTGGTCA
1 CAAAACATGGGTAAATGATATCCTTTTATTAACATTACATGGTTGATGAAAAGTAAACGTGGTCA
*
19855193 TGGGTCGTCCATCTTTATGATGGATGACTTTATCACTATTTAATAGTGATTGACTTTTCATAAAG
66 TGGGTCATCCATCTTTATGATGGATGACTTTATCACTATTTAATAGTGATTGACTTTTCATAAAG
19855258 G
131 G
19855259 AAGATGTAAT
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
131 5 0.04
132 120 0.96
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.37
Consensus pattern (131 bp):
CAAAACATGGGTAAATGATATCCTTTTATTAACATTACATGGTTGATGAAAAGTAAACGTGGTCA
TGGGTCATCCATCTTTATGATGGATGACTTTATCACTATTTAATAGTGATTGACTTTTCATAAAG
G
Found at i:19858811 original size:47 final size:46
Alignment explanation
Indices: 19858699--19858873 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
19858689 CACTCGTGTG
* *
19858699 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAA
* *
19858745 AGCTAGTGTAAGACCATGTCTAGGATATGGCATCGGCCACATTACGAG
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATTACGAA
** * * * * * *
19858793 TTCTAGTGTAAGACATGTCTGGGACATACATTGGCCTCGA-GACGTA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTACGAA
*
19858839 AGCCAGTGTAAGACATGTCT-GAGACATGCATCGGC
1 AGCTAGTGTAAGACATGTCTAG-GACATGCATCGGC
19858874 TATGAGATGT
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 52 0.49
47 25 0.24
48 28 0.26
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAA
Found at i:19858854 original size:46 final size:44
Alignment explanation
Indices: 19858797--19858919 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 44
19858787 TACGAGTTCT
*
19858797 AGTGTAAGACATGTCTGGGACATACATTGGCCT-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGG-CTACGAGACGT--GCC
* * * * *
19858843 AGTGTAAGACATGTCTGAGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATACATCGGCTACGAGACGTGCC
*
19858887 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGC
19858920 ACATATATGC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
44 11 0.16
45 15 0.22
46 41 0.61
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCTACGAGACGTGCC
Found at i:19861004 original size:48 final size:47
Alignment explanation
Indices: 19860852--19861036 Score: 166
Period size: 48 Copynumber: 3.9 Consensus size: 47
19860842 TAGGGATATG
19860852 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC-ATA
* * * * * * *
19860900 TGAGA-CATCGTGTAATACCATAG-CTA-GTCTATCGGC-TTTG-AT-ATG
1 TGTGATC-CCATGTAAGACCAT-GTCTAGGAC-AT-GGCATTGGCATCATA
*
19860945 TATGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC-ATA
* * * *
19860993 TGTGATCCCATGTAAGACCATATCTGGGATATGACATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC
19861037 CTACTATGTG
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
44 4 0.04
45 24 0.23
46 5 0.05
47 5 0.05
48 64 0.60
49 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATA
Found at i:19861007 original size:93 final size:93
Alignment explanation
Indices: 19860846--19861014 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
19860836 TAACATTAGG
* * *
19860846 GATATGTGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGAGACATCGT
1 GATATGTATGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGAGACACCAT
*
19860911 GTAATACCATAGCTAGTCTATCGGCTTT
66 GTAAGACCATAGCTAGTCTATCGGCTTT
* *
19860939 GATATGTATGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATC-CCA
1 GATATGTATGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGAGA-CACCA
19861003 TGTAAGACCATA
65 TGTAAGACCATA
19861015 TCTGGGATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (93 bp):
GATATGTATGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGAGACACCAT
GTAAGACCATAGCTAGTCTATCGGCTTT
Found at i:19870754 original size:15 final size:15
Alignment explanation
Indices: 19870734--19870762 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19870724 CCTAGCCCCG
19870734 TTTTTTATGTTTTTT
1 TTTTTTATGTTTTTT
19870749 TTTTTTATGTTTTT
1 TTTTTTATGTTTTT
19870763 GAGATTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTTTTATGTTTTTT
Found at i:19876614 original size:17 final size:18
Alignment explanation
Indices: 19876582--19876616 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19876572 ATGTGGACTA
*
19876582 CCCGTGTGGACCCACACG
1 CCCGTCTGGACCCACACG
19876600 CCCGTCTGG-CCCACACG
1 CCCGTCTGGACCCACACG
19876617 ACCCAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.49, G:0.26, T:0.11
Consensus pattern (18 bp):
CCCGTCTGGACCCACACG
Found at i:19878130 original size:56 final size:58
Alignment explanation
Indices: 19878025--19878139 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 58
19878015 ATAGAAATGG
*
19878025 TGAAAATAGAGAAATGGGAAACATTTGGAAATGAAAGTGGTTTTCTCCAAAAT-AAAAT
1 TGAAAATAGAGAAAT-GGAAACATTTGGAAATGAAAGTGATTTTCTCCAAAATGAAAAT
* **
19878083 TGAAAATGGAGAAAT-GAAGACATTTGG-AATGAGTGTGATTTTCTCCAAAATGAAAAT
1 TGAAAATAGAGAAATGGAA-ACATTTGGAAATGAAAGTGATTTTCTCCAAAATGAAAAT
19878140 AAAAAATGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 24 0.47
57 13 0.25
58 14 0.27
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (58 bp):
TGAAAATAGAGAAATGGAAACATTTGGAAATGAAAGTGATTTTCTCCAAAATGAAAAT
Found at i:19886661 original size:40 final size:40
Alignment explanation
Indices: 19886606--19886885 Score: 424
Period size: 40 Copynumber: 7.0 Consensus size: 40
19886596 GATGATAACG
* *
19886606 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
19886646 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
19886686 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
19886726 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
19886766 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
19886806 GGGCTAAGTCTCGAAGGCATTTGTGCGAATTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
19886846 GGGCTAAGTCCCGAAGGCATTTGGGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
19886886 AGTTAAATCC
Statistics
Matches: 227, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 224 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:19889401 original size:18 final size:17
Alignment explanation
Indices: 19889368--19889401 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19889358 TAGATCATGT
*
19889368 TACAAAGACTTCAAAAA
1 TACAAAGACATCAAAAA
19889385 TACAAAGAACATCAAAA
1 TACAAAG-ACATCAAAA
19889402 GCGGGGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.18, G:0.06, T:0.15
Consensus pattern (17 bp):
TACAAAGACATCAAAAA
Found at i:19894027 original size:43 final size:40
Alignment explanation
Indices: 19893916--19894027 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 40
19893906 GATATTCACG
*
19893916 TGTAAGACCATGTCTGGGACATCT-GCATCGTATCTGATTT
1 TGTAAGACCATGTCTGGGACAT-TGGCATCGTATCTGATTA
* ** **
19893956 TGTTAAGACCTTGTCCAGGACAGAGGCATCG-ATACTGAATTACA
1 TG-TAAGACCATGTCTGGGACATTGGCATCGTAT-CTG-ATT--A
19894000 TGTAAGACCATGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
19894028 TGTACGCGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
40 4 0.07
41 25 0.45
42 3 0.05
43 21 0.38
44 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
Found at i:19896479 original size:28 final size:27
Alignment explanation
Indices: 19896393--19896482 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
19896383 GTGACAGAGT
*
19896393 CACCAGATACAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATAATTTGTGGCAA-GC
** *
19896422 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
*
19896449 CACCAGAACAGATAATTTGTGGCATAAC
1 CACCAGAACAGATAATTTGTGGCA-AGC
19896477 CACCAG
1 CACCAG
19896483 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCAAGC
Found at i:19896635 original size:28 final size:28
Alignment explanation
Indices: 19896588--19896652 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
19896578 AAATTAACCC
*
19896588 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
19896616 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
19896644 TAGGGGTAT
1 TAGGGGTAT
19896653 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:19905258 original size:52 final size:52
Alignment explanation
Indices: 19905180--19905284 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
19905170 TCAATGATTA
19905180 TCTATGTATTAATATTATGTGATATCTGTGATTCCTTATTGATCTGAAATGT
1 TCTATGTATTAATATTATGTGATATCTGTGATTCCTTATTGATCTGAAATGT
19905232 TCTATGTATTAATATTATGTGATATCTGTGATTCCTTATTGATCTGAAATGT
1 TCTATGTATTAATATTATGTGATATCTGTGATTCCTTATTGATCTGAAATGT
19905284 T
1 T
19905285 TTGTCTGTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (52 bp):
TCTATGTATTAATATTATGTGATATCTGTGATTCCTTATTGATCTGAAATGT
Found at i:19907158 original size:46 final size:45
Alignment explanation
Indices: 19907036--19907205 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
19907026 ATTGTGAGCT
* * *
19907036 AGTGTAAGACATGTCTGGGACATAGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGACATGTCTGGGACATAGCATCGGCCTCGAGAC-A-TGCC
* * *
19907083 AGTGTAAGACATATCTGGGATAT-GTATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATAGCATCGGCCTCGAGACAT--GCC
* * *
19907129 AGTGTAAGACATGTCTGGGACA-CGCATCGG-CTACGAGACGTGTC
1 AGTGTAAGACATGTCTGGGACATAGCATCGGCCT-CGAGACATGCC
*
19907173 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATAGCATCGGC
19907206 ATAGATGTGC
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 12 0.12
45 16 0.15
46 55 0.53
47 21 0.20
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATAGCATCGGCCTCGAGACATGCC
Found at i:19909117 original size:42 final size:44
Alignment explanation
Indices: 19909042--19909126 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 44
19909032 GTTAGTATTG
* * **
19909042 ATCTGAATTATCGTGTAAGGCCATGTCCGGGACATCGGCATCGT
1 ATCTGAATTATCGTATAAGACCATGTCCGGGACAGAGGCATCGT
* *
19909086 ATCTG-ATT-TCGTATAAGACCCTGTCTGGGACAGAGGCATCG
1 ATCTGAATTATCGTATAAGACCATGTCCGGGACAGAGGCATCG
19909127 ATACTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.77
43 3 0.09
44 5 0.14
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (44 bp):
ATCTGAATTATCGTATAAGACCATGTCCGGGACAGAGGCATCGT
Found at i:19911097 original size:11 final size:11
Alignment explanation
Indices: 19911081--19911111 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
19911071 TTCTAGAATA
19911081 ATGAAATAAGC
1 ATGAAATAAGC
19911092 ATGAAATAAGC
1 ATGAAATAAGC
19911103 ATGAAATAA
1 ATGAAATAA
19911112 CATATGCGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.58, C:0.06, G:0.16, T:0.19
Consensus pattern (11 bp):
ATGAAATAAGC
Found at i:19911519 original size:13 final size:13
Alignment explanation
Indices: 19911491--19911528 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
19911481 AGACCAATTT
19911491 AAAAAATAAAATA
1 AAAAAATAAAATA
19911504 AAAACAATAAAA-A
1 AAAA-AATAAAATA
19911517 AAAGAAATAAAA
1 AAA-AAATAAAA
19911529 CATAAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:19911529 original size:21 final size:20
Alignment explanation
Indices: 19911490--19911534 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
19911480 TAGACCAATT
*
19911490 TAAAAAATAAAATAAAAACAA
1 TAAAAAAAAAAATAAAAAC-A
19911511 TAAAAAAAAGAAAT-AAAACA
1 TAAAAAAAA-AAATAAAAACA
19911531 TAAA
1 TAAA
19911535 GCTAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (20 bp):
TAAAAAAAAAAATAAAAACA
Found at i:19917282 original size:51 final size:51
Alignment explanation
Indices: 19917218--19917353 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 51
19917208 TGGAAACATG
19917218 ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGAT-ATGATATGGA
1 ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATAAT-ATATGGA
* * * * * * ** *
19917269 ATCTTATAAGATATTATTTTATAAG-ATTACATATCTTATCTAATATATGTA
1 ATCTTAAAAGATATGATATTAT-AGTCTTAGAGATCTTAGATAATATATGGA
* *
19917320 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAGTCTTAGAGAT
19917354 TTGGTGGTAG
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
50 1 0.02
51 61 0.92
52 4 0.06
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATAATATATGGA
Found at i:19917995 original size:5 final size:5
Alignment explanation
Indices: 19917980--19918022 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
19917970 TAGTTTTAAG
19917980 TTTTA -TTTA TTTTA TTTTA TTGTT- TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTT
19918023 CCAGATTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.17
5 27 0.77
6 2 0.06
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:19918681 original size:6 final size:6
Alignment explanation
Indices: 19918670--19918709 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
19918660 GAATAAAAAC
* * *
19918670 AATAAA AATAAA AGTACA AATAAA AACAAA AATAAA AATA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA
19918710 TATGAAACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:19923647 original size:18 final size:18
Alignment explanation
Indices: 19923617--19923662 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
19923607 CTGCTTGATA
*
19923617 AGACCAGCTTGATGAAAG
1 AGACCAGCCTGATGAAAG
* *
19923635 AGCCCAGCCTGATGAAGG
1 AGACCAGCCTGATGAAAG
19923653 AGACCAGCCT
1 AGACCAGCCT
19923663 AACTGAGGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.13
Consensus pattern (18 bp):
AGACCAGCCTGATGAAAG
Found at i:19936068 original size:26 final size:26
Alignment explanation
Indices: 19936039--19936146 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19936029 TGATACAAAT
19936039 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19936065 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19936091 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19936117 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19936143 TGAT
1 TGAT
19936147 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19939862 original size:64 final size:64
Alignment explanation
Indices: 19939757--19939964 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
19939747 CATCATGTGT
* *
19939757 ACAAGAAAGCTACGAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
19939822 TAG
62 TAG
* * * * * * *
19939825 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
19939890 AG
63 AG
* * * *
19939892 ACAAGAGAGCTACGAGATAAACTG--GCTAGATCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
19939954 TACAAGAGAGC
1 -ACAAGAGAGC
19939965 CGAACTATAT
Statistics
Matches: 115, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 25 0.22
65 2 0.02
66 21 0.18
67 31 0.27
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:19940299 original size:28 final size:27
Alignment explanation
Indices: 19940259--19940413 Score: 136
Period size: 28 Copynumber: 5.6 Consensus size: 27
19940249 CCAAACGAAC
*
19940259 GGCACTTAGTGTGCGAAGTATTGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
* *
19940287 GGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAG-TAT-CGAGAT
* ** *
19940315 GACAC--AGTGTATGAAGTATTGATGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
* ** *
19940341 GACACTTAGTGTGCGAAACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTAT-CGAGAT
19940369 GGCACTTAGTGTGCGAAGTATCGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
19940397 GGCACTTAGTGTGCGAA
1 GGCACTTAGTGTGCGAA
19940414 ACATCCGGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 9 0.09
28 71 0.71
29 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
GGCACTTAGTGTGCGAAGTATCGAGAT
Found at i:19940331 original size:54 final size:55
Alignment explanation
Indices: 19940265--19940420 Score: 217
Period size: 54 Copynumber: 2.8 Consensus size: 55
19940255 GAACGGCACT
*
19940265 TAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAATGACAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAATGACAC
* * * *
19940320 -AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAATGGCAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACAC
* *
19940374 TTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCG
1 -TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
19940421 GTATAGCACT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 46 0.52
55 2 0.02
56 40 0.45
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (55 bp):
TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACAC
Found at i:19940406 original size:56 final size:56
Alignment explanation
Indices: 19940259--19940438 Score: 240
Period size: 56 Copynumber: 3.2 Consensus size: 56
19940249 CCAAACGAAC
19940259 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAAT
* ** * *
19940315 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* **
19940369 GGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGGTAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* *
19940425 AGCACTTAGCGTGC
1 GGCACTTAGTGTGC
19940439 AAGACATCGA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 46 0.43
55 2 0.02
56 58 0.55
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (56 bp):
GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
Found at i:19940429 original size:28 final size:28
Alignment explanation
Indices: 19940343--19940446 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
19940333 TTGATGATGA
*
19940343 CACTTAGTGTGCGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAACATCCGGAATGG
** *
19940371 CACTTAGTGTGCGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCG-GAATGG
* *
19940399 CACTTAGTGTGCGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGGAATGG
*
19940427 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
19940447 GATTGTGCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.06
28 58 0.91
29 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGGAATGG
Found at i:19947186 original size:26 final size:26
Alignment explanation
Indices: 19947157--19947264 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19947147 TGATACAAAT
19947157 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19947183 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19947209 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19947235 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19947261 TGAT
1 TGAT
19947265 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19949970 original size:10 final size:10
Alignment explanation
Indices: 19949947--19949987 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
19949937 TTTACATCAA
19949947 TTTTATAA-T
1 TTTTATAATT
*
19949956 TTTTATGATT
1 TTTTATAATT
19949966 TTTTATAATT
1 TTTTATAATT
*
19949976 TTTTTTAATT
1 TTTTATAATT
19949986 TT
1 TT
19949988 ATGAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:19952288 original size:27 final size:27
Alignment explanation
Indices: 19952250--19952303 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
19952240 TAAGAGAGAC
19952250 ATGGAAGCTGTTTTACAAACCAGATGT
1 ATGGAAGCTGTTTTACAAACCAGATGT
19952277 ATGGAAGCTGTTTTACAAACCAGATGT
1 ATGGAAGCTGTTTTACAAACCAGATGT
19952304 CTTCTCTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (27 bp):
ATGGAAGCTGTTTTACAAACCAGATGT
Found at i:19957721 original size:2 final size:2
Alignment explanation
Indices: 19957714--19957746 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19957704 ACAAAACAAC
19957714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19957747 AAAGGATGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19957896 original size:25 final size:25
Alignment explanation
Indices: 19957867--19957916 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
19957857 ATAATGTATG
* *
19957867 AGCTTAAAATATATAATATGTAAAA
1 AGCTTAAAACAAATAATATGTAAAA
19957892 AGCTTAAAACAAATAATATGTAAAA
1 AGCTTAAAACAAATAATATGTAAAA
19957917 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (25 bp):
AGCTTAAAACAAATAATATGTAAAA
Found at i:19961288 original size:35 final size:35
Alignment explanation
Indices: 19961242--19961321 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
19961232 TACTCTCTGT
* * *
19961242 TTGGCGTGTTTCGGTTGGATTAGCT-TGTATGAGCA
1 TTGGCATGTTTCAGTTGGATTAACTCT-TATGAGCA
19961277 TTGGCATGTTTCAGTTGGATTAACTCTTATGAGCA
1 TTGGCATGTTTCAGTTGGATTAACTCTTATGAGCA
*
19961312 TTGACATGTT
1 TTGGCATGTT
19961322 ATGTTTGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (35 bp):
TTGGCATGTTTCAGTTGGATTAACTCTTATGAGCA
Found at i:19962108 original size:25 final size:25
Alignment explanation
Indices: 19962079--19962131 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
19962069 TTTTTGAGAG
*
19962079 TAAGAACAACTGACTCTAAGTTGAT
1 TAAGAACAACAGACTCTAAGTTGAT
*
19962104 TAAGAACAACAGACTCTAGGTTGAT
1 TAAGAACAACAGACTCTAAGTTGAT
19962129 TAA
1 TAA
19962132 TTGAAATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (25 bp):
TAAGAACAACAGACTCTAAGTTGAT
Found at i:19962679 original size:13 final size:13
Alignment explanation
Indices: 19962661--19962685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19962651 CTGGCCATTT
19962661 CCACACGGGCTAG
1 CCACACGGGCTAG
19962674 CCACACGGGCTA
1 CCACACGGGCTA
19962686 TCCATATGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.28, T:0.08
Consensus pattern (13 bp):
CCACACGGGCTAG
Found at i:19963877 original size:25 final size:25
Alignment explanation
Indices: 19963847--19963942 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 25
19963837 CCCTCTCTCA
*
19963847 AGCCATATAACAGGAAGCTCATATG
1 AGCCATATAACAGGAAGCTCATAAG
* * * **
19963872 AGCCATGTAACGGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATAAG
** *
19963897 AGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATAAG
* *
19963922 AGCCATA-ATCAAGAAGCTCAT
1 AGCCATATAACAGGAAGCTCAT
19963943 GCAAGCCAAA
Statistics
Matches: 55, Mismatches: 16, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
24 11 0.20
25 44 0.80
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATAAG
Found at i:19964088 original size:26 final size:26
Alignment explanation
Indices: 19964025--19964096 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
19964015 AGCGAGCCAT
* *
19964025 ATCGGGAAGCTCATAAAGAGCCTTTA
1 ATCGGGAAGCTCATAAAGAGCATATA
*
19964051 ATCAGGAAGCTCATAAAGAGACATATA
1 ATCGGGAAGCTCATAAAGAG-CATATA
*
19964078 AT-GGGACGCTCAT-AAGAGC
1 ATCGGGAAGCTCATAAAGAGC
19964097 TACGGTGTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 5 0.12
26 28 0.70
27 6 0.15
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (26 bp):
ATCGGGAAGCTCATAAAGAGCATATA
Found at i:19965055 original size:13 final size:13
Alignment explanation
Indices: 19965037--19965065 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19965027 TCTTTATTTT
19965037 TTTATTTTTCATC
1 TTTATTTTTCATC
19965050 TTTATTTTTCATC
1 TTTATTTTTCATC
19965063 TTT
1 TTT
19965066 CTAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTTCATC
Found at i:19967406 original size:49 final size:49
Alignment explanation
Indices: 19967346--19967649 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
19967336 TACATATGTG
* * * *
19967346 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
19967395 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
19967444 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
19967493 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
19967536 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
19967582 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
19967631 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
19967650 TAATGTAAAA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 32 0.14
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 190 0.81
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:19967549 original size:89 final size:89
Alignment explanation
Indices: 19967351--19967628 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
19967341 ATGTGTGTGA
* * * *
19967351 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
*
19967416 ATGTGATGAATGTGAAAGTGGATGTATATG
66 ATGTGGTGAATGTGAAA---G-TG--TATG
19967446 TGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
1 T-A--AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
19967511 CCGATGTGGTGAATGTGAAAGTGTATG
63 CCGATGTGGTGAATGTGAAAGTGTATG
*
19967538 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
19967603 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
19967627 TA
1 TA
19967629 TATGTGATAA
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 5 0.03
94 2 0.01
95 2 0.01
96 1 0.01
98 75 0.43
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:19967624 original size:138 final size:138
Alignment explanation
Indices: 19967400--19967649 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
19967390 GTATATGTGA
* *
19967400 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
19967465 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
19967530 AGTGTATG
131 AGTGTATG
* *
19967538 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
19967603 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
19967650 TAATGTAAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (138 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
AGTGTATG
Found at i:19967655 original size:89 final size:90
Alignment explanation
Indices: 19967373--19967659 Score: 368
Period size: 89 Copynumber: 3.1 Consensus size: 90
19967363 GCCAATGCGA
* * *
19967373 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
*
19967438 TGTATATGTGATGAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
19967464 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
19967529 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
19967560 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
19967625 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
19967650 T-AATGTAAAA
1 TGAATGTAAAA
19967660 TATATGTGTG
Statistics
Matches: 172, Mismatches: 10, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 6 0.03
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:19967801 original size:37 final size:37
Alignment explanation
Indices: 19967751--19967835 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
19967741 GGAATATGTT
*
19967751 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
19967788 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
19967825 CCGGGTAAGAC
1 CCGGGTAAGAC
19967836 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:19969709 original size:40 final size:40
Alignment explanation
Indices: 19969652--19969896 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
19969642 GAGAATTGAG
* *
19969652 AGTGATATATCCAGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
19969692 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
*
19969732 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
19969772 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
19969812 AGTGATGTATCCGGGCAAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
* * * *
19969852 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
19969892 AGTGA
1 AGTGA
19969897 CGTGTATTCG
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 195 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCATGCT
Found at i:19970102 original size:29 final size:29
Alignment explanation
Indices: 19970069--19970232 Score: 292
Period size: 29 Copynumber: 5.7 Consensus size: 29
19970059 CGAATGAATA
*
19970069 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATT
19970098 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATT
*
19970127 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATT
19970156 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATT
*
19970185 GAGGCACTACGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATT
*
19970214 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
19970233 TTTTTCAACA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 129 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATT
Done.