Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 203 of 240
Found at i:61820598 original size:39 final size:39
Alignment explanation
Indices: 61820459--61820598 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
61820449 AGCGGCGCTT
*
61820459 TTAGCGGCGTTTGGACAAAAAACGCCA-CTAATAATCGAGCA
1 TTAGCGGCGTTT-TACAAAAAACG-CAGCTAA-AATCGAGCA
* * *
61820500 TTAGCCGCATTTTACAAAAAACGCAGCAAAATATCGAGCA
1 TTAGCGGCGTTTTACAAAAAACGCAGCTAAA-ATCGAGCA
* ** * * * *
61820540 TTAGCGGCGCTACATAAAAAACGCTGCTAAAACCAAGCA
1 TTAGCGGCGTTTTACAAAAAACGCAGCTAAAATCGAGCA
*
61820579 TTAGCAGCGTTTTACAAAAA
1 TTAGCGGCGTTTTACAAAAA
61820599 GCGCCGCAAT
Statistics
Matches: 78, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 24 0.31
40 44 0.56
41 10 0.13
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (39 bp):
TTAGCGGCGTTTTACAAAAAACGCAGCTAAAATCGAGCA
Found at i:61820888 original size:114 final size:113
Alignment explanation
Indices: 61820585--61820930 Score: 541
Period size: 112 Copynumber: 3.1 Consensus size: 113
61820575 AGCATTAGCA
* *
61820585 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACAAAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * *
61820650 ATTAGTGGCGGTTTTTCCCAAGCGCGGCTAAAACTCCGTTC-TCAACG
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
* *
61820697 GCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
*
61820762 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
*
61820810 GCGTTTTACAAAAAGCGTCGCAAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * * *
61820875 CACTAGTGGCGGTTTTTGCCCAAACGCCGCTAATAATCCGTTCTTCAGTG
65 CATTAGTGGCGG-TTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
61820925 GCGTTT
1 GCGTTT
61820931 GGCGTTAAGC
Statistics
Matches: 214, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
112 98 0.46
113 24 0.11
114 53 0.25
115 39 0.18
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (113 bp):
GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
Found at i:61821095 original size:41 final size:41
Alignment explanation
Indices: 61821041--61821137 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 41
61821031 GATGCTCCGC
* * * * *
61821041 TCTAAAGCAGCGTTTATGGAGAATCACCGCTAA-TGTTCTGG
1 TCTATAGCGGCGTTTATGGAGAAACACCGCTAACTCTT-GGG
** * *
61821082 TCTATAGCGGCGTTCCTGGAGAAACGCCGGTAACTCTTGGG
1 TCTATAGCGGCGTTTATGGAGAAACACCGCTAACTCTTGGG
61821123 TCTATAGCGGCGTTT
1 TCTATAGCGGCGTTT
61821138 GTGTAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
41 42 0.93
42 3 0.07
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
TCTATAGCGGCGTTTATGGAGAAACACCGCTAACTCTTGGG
Found at i:61823609 original size:14 final size:15
Alignment explanation
Indices: 61823590--61823625 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
61823580 AATTTCATTT
61823590 TCCCTA-TTCTAAAA
1 TCCCTAGTTCTAAAA
61823604 TCCCTATGTTCTAAAA
1 TCCCTA-GTTCTAAAA
61823620 TCCCTA
1 TCCCTA
61823626 ACTCATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
16 14 0.70
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.36
Consensus pattern (15 bp):
TCCCTAGTTCTAAAA
Found at i:61824824 original size:28 final size:28
Alignment explanation
Indices: 61824768--61824821 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
61824758 TAATAGATAA
61824768 TTTTATTTGTATTAACAATTTTTAAAAT
1 TTTTATTTGTATTAACAATTTTTAAAAT
61824796 TTTTA-TTGTATTAACAATTTTTAAAA
1 TTTTATTTGTATTAACAATTTTTAAAA
61824822 ATTACATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TTTTATTTGTATTAACAATTTTTAAAAT
Found at i:61824836 original size:27 final size:27
Alignment explanation
Indices: 61824777--61824836 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
61824767 ATTTTATTTG
* ** *
61824777 TATTAACAATTTTTAAAATTTTTATTG
1 TATTAACAATTTTTAAAAATTACATTA
61824804 TATTAACAATTTTTAAAAATTACATTA
1 TATTAACAATTTTTAAAAATTACATTA
*
61824831 TTTTAA
1 TATTAA
61824837 TAAAAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTAACAATTTTTAAAAATTACATTA
Found at i:61825231 original size:14 final size:14
Alignment explanation
Indices: 61825209--61825248 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
61825199 TATGACACCA
*
61825209 AATATATTTTAAAC
1 AATAAATTTTAAAC
61825223 AATAAATTTTAAAC
1 AATAAATTTTAAAC
* *
61825237 ATTAAAGTTTAA
1 AATAAATTTTAA
61825249 TTTTAAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:61831275 original size:66 final size:65
Alignment explanation
Indices: 61831168--61831333 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 65
61831158 GAGCAAATTA
* * ** *
61831168 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAG-AACTCC
1 CACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATG-AGCAACTCC
61831231 AG
64 AG
* *
61831233 CTACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAGCAACTGCA
1 C-ACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAGCAACTCCA
61831298 G
65 G
* *
61831299 CAGCAGCTTAAAGAAGATGCGGCAGCGAGAGAAGC
1 CA-CAACTTAAAGCAGATGCGGCAGCGAGAGAAGC
61831334 AGCGGCTGCA
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
65 4 0.05
66 80 0.91
67 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAGCAACTCCAG
Found at i:61831346 original size:21 final size:21
Alignment explanation
Indices: 61831320--61831378 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
61831310 AGAAGATGCG
* *
61831320 GCAGCGAGAGAAGCAGCGGCT
1 GCAGCGAGGGAAGCAGAGGCT
*
61831341 GCAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
*
61831362 ACAGCGAGGGAAGCAGA
1 GCAGCGAGGGAAGCAGA
61831379 ACAGCATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.44, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:61831728 original size:43 final size:43
Alignment explanation
Indices: 61831667--61831886 Score: 354
Period size: 43 Copynumber: 5.1 Consensus size: 43
61831657 CAAAATTAGC
*
61831667 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
61831710 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
61831753 GGCGTTTTTCGTCTAAGCGCCGCTAAATACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
**
61831796 GGC-TTTTTTGGCTAAGCGCCATTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
61831838 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGGTCTATA-T
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
61831880 CGGCGTT
1 -GGCGTT
61831887 GCAAAGAAAA
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 38 0.23
43 125 0.77
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (43 bp):
GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:61831826 original size:85 final size:86
Alignment explanation
Indices: 61831667--61831886 Score: 347
Period size: 85 Copynumber: 2.6 Consensus size: 86
61831657 CAAAATTAGC
* * *
61831667 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCG
1 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCA
61831732 CTAAAGACCATGGTCTATAGT
66 CTAAAGACCATGGTCTATAGT
* *
61831753 GGCGTTTT-TCGTCTAAGCGCCGCTAAATACCATGGTCTATAGTGGC-TTTTTTGGCTAAGCGCC
1 GGCGTTTTGT-GGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCC
*
61831816 ATTAAAGACCATGGTCTATAGT
65 ACTAAAGACCATGGTCTATAGT
61831838 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGGTCTATA-TCGGCGTT
1 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT-GGCGTT
61831887 GCAAAGAAAA
Statistics
Matches: 123, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
84 1 0.01
85 78 0.63
86 44 0.36
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (86 bp):
GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCA
CTAAAGACCATGGTCTATAGT
Found at i:61832047 original size:20 final size:21
Alignment explanation
Indices: 61832021--61832064 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
61832011 ATTTGCGGCG
61832021 CTAAAAAA-CGCCGCTATAAAC
1 CTAAAAAAGCGCCGCTA-AAAC
61832042 CTAAAAAAGCGCCGCTAAAAC
1 CTAAAAAAGCGCCGCTAAAAC
61832063 CT
1 CT
61832065 TGTTTTGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.14
Consensus pattern (21 bp):
CTAAAAAAGCGCCGCTAAAAC
Found at i:61832234 original size:15 final size:16
Alignment explanation
Indices: 61832209--61832238 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61832199 CATTTTAACC
61832209 CAAATTAAAAATAATA
1 CAAATTAAAAATAATA
61832225 CAAA-TAAAAATAAT
1 CAAATTAAAAATAAT
61832239 GTCATATCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
CAAATTAAAAATAATA
Found at i:61833196 original size:24 final size:24
Alignment explanation
Indices: 61833169--61833219 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
61833159 AACAGATGGA
61833169 AAACCAGAA-ACAAAGCAAGAATCT
1 AAACCAGAAGACAAA-CAAGAATCT
*
61833193 AAACCAGAAGCCAAACAAGAATCT
1 AAACCAGAAGACAAACAAGAATCT
61833217 AAA
1 AAA
61833220 GAAGTTGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.59, C:0.22, G:0.12, T:0.08
Consensus pattern (24 bp):
AAACCAGAAGACAAACAAGAATCT
Found at i:61838208 original size:23 final size:23
Alignment explanation
Indices: 61838154--61838208 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
61838144 ACGAATATAC
61838154 TAAAATATTAAAATAAATATTTTT
1 TAAAA-ATTAAAATAAATATTTTT
*
61838178 TAATAAATTAAAA-ATATATTTTTT
1 TAA-AAATTAAAATAAATA-TTTTT
61838202 TAAAAAT
1 TAAAAAT
61838209 ATCTTTATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
24 18 0.64
25 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAAATTAAAATAAATATTTTT
Found at i:61839211 original size:31 final size:31
Alignment explanation
Indices: 61839176--61839307 Score: 121
Period size: 31 Copynumber: 4.4 Consensus size: 31
61839166 TTTTGGGCCC
*
61839176 AATTTAGTACCTAAACTTGACACTTTTTCCT
1 AATTTAGTACCTAAACTTGACATTTTTTCCT
* ** *
61839207 AATTTAATACCTAAACTT----TTTTGAGCCC
1 AATTTAGTACCTAAACTTGACATTTT-TTCCT
*
61839235 AATTT-GATACCTGAACTTGACATTTTTTCCT
1 AATTTAG-TACCTAAACTTGACATTTTTTCCT
* * *
61839266 AATTTGGTACCTAAACTTGGCATTTTTTTCT
1 AATTTAGTACCTAAACTTGACATTTTTTCCT
*
61839297 AATTTGGTACC
1 AATTTAGTACC
61839308 AAAGCTTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
27 3 0.04
28 17 0.21
31 56 0.69
32 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (31 bp):
AATTTAGTACCTAAACTTGACATTTTTTCCT
Found at i:61839225 original size:60 final size:60
Alignment explanation
Indices: 61839131--61839283 Score: 211
Period size: 59 Copynumber: 2.6 Consensus size: 60
61839121 GTAATACGAT
* * * *
61839131 CTTGACACTTTTTTCTAATTTGATATCTATACTTTTTTTGGGCCCAATTT-AGTACCTAAA
1 CTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGAGCCCAATTTGA-TACCTAAA
* *
61839191 CTTGACACTTTTTCCTAATTTAATACCTAAAC-TTTTTTGAGCCCAATTTGATACCTGAA
1 CTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGAGCCCAATTTGATACCTAAA
* *
61839250 CTTGACATTTTTTCCTAATTTGGTACCTAAACTT
1 CTTGACACTTTTTCCTAATTTGATACCTAAACTT
61839284 GGCATTTTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
59 52 0.63
60 30 0.37
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.44
Consensus pattern (60 bp):
CTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGAGCCCAATTTGATACCTAAA
Found at i:61843816 original size:28 final size:27
Alignment explanation
Indices: 61843762--61843819 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
61843752 AAAAGATATT
61843762 AAAAAATTATAATTTTATACCTTTTTTA
1 AAAAAATTATAATTTTATA-CTTTTTTA
*
61843790 AAAAAATTGATAATTTTTTA-TTCTTTTA
1 AAAAAATT-ATAATTTTATACTT-TTTTA
61843818 AA
1 AA
61843820 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 15 0.56
29 10 0.37
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (27 bp):
AAAAAATTATAATTTTATACTTTTTTA
Found at i:61844379 original size:78 final size:78
Alignment explanation
Indices: 61844250--61844405 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
61844240 AGCGATAAGT
* * * **
61844250 GTCAATTTCAATTATGGAATAAAGTTTAGGTGCTCATTTCGACCAAAAAAATGTTTAGGTTGATA
1 GTCAATTTCAATTATGGAATAAAGTTTAGGTACCCATTTCGACCAAAAAAATATTTAGGTACATA
61844315 ACTCAAACAAATG
66 ACTCAAACAAATG
* * *
61844328 GTCAA-TTCTAATTATGGAATAAAGTTTAGGTACCCGTTTTGACCAAAAAAATATTTAGGTACCT
1 GTCAATTTC-AATTATGGAATAAAGTTTAGGTACCCATTTCGACCAAAAAAATATTTAGGTACAT
61844392 AACTCAAACAAATG
65 AACTCAAACAAATG
61844406 ACATAGTTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 3 0.04
78 66 0.96
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (78 bp):
GTCAATTTCAATTATGGAATAAAGTTTAGGTACCCATTTCGACCAAAAAAATATTTAGGTACATA
ACTCAAACAAATG
Found at i:61846095 original size:23 final size:23
Alignment explanation
Indices: 61846028--61846098 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
61846018 AAATCCATTA
* *
61846028 ATCGAGAAGCTCCGGATAACCATGT
1 ATCGAGAAGCTCCGGAGAGCCA--T
* * ** *
61846053 ATCGGGAAGTTCAAGCGAGCCAT
1 ATCGAGAAGCTCCGGAGAGCCAT
61846076 ATCGAGAAGCTCCGGAGAGCCAT
1 ATCGAGAAGCTCCGGAGAGCCAT
61846099 TAATCAGAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
23 19 0.56
25 15 0.44
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (23 bp):
ATCGAGAAGCTCCGGAGAGCCAT
Found at i:61846154 original size:26 final size:25
Alignment explanation
Indices: 61846022--61846154 Score: 78
Period size: 25 Copynumber: 5.3 Consensus size: 25
61846012 CTGCGAAAAT
* * * *
61846022 CCATTAATCGAGAAGCTCCGGATAA
1 CCATTAATCGGGAAGCTCCGAAGAG
*
61846047 CCATGT-ATCGGGAAG-TTC-AAGCGAG
1 CCAT-TAATCGGGAAGCTCCGAA--GAG
* *
61846072 CCA-T-ATCGAGAAGCTCCGGAGAG
1 CCATTAATCGGGAAGCTCCGAAGAG
* * * *
61846095 CCATTAATCAGAAAGCTCACAAAAAG
1 CCATTAATCGGGAAGCTC-CGAAGAG
*
61846121 CCTTTAATCGGGAAGCTCCGAAGAG
1 CCATTAATCGGGAAGCTCCGAAGAG
61846146 CCATATAAT
1 CCAT-TAAT
61846155 GAGACACTCA
Statistics
Matches: 79, Mismatches: 20, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
23 16 0.20
24 5 0.06
25 34 0.43
26 24 0.30
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
CCATTAATCGGGAAGCTCCGAAGAG
Found at i:61847799 original size:30 final size:31
Alignment explanation
Indices: 61847742--61847808 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
61847732 TGCCTTAATG
* * ** *
61847742 TAAATATTCAAAATTTATAGGGTC-AAAATA
1 TAAATATGCAAAATTTAAAGGAACAAAAACA
*
61847772 TAAATATGGAAAATTTAAAGGAACAAAAACA
1 TAAATATGCAAAATTTAAAGGAACAAAAACA
61847803 TAAATA
1 TAAATA
61847809 ACTTAAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (31 bp):
TAAATATGCAAAATTTAAAGGAACAAAAACA
Found at i:61852369 original size:24 final size:24
Alignment explanation
Indices: 61852337--61852474 Score: 75
Period size: 25 Copynumber: 5.6 Consensus size: 24
61852327 TTCAGGTTGT
61852337 ATAA-CAAGAAGCTCATAAGAGCC
1 ATAATCAAGAAGCTCATAAGAGCC
**
61852360 ATAATCAAGAAGCTCATGTGAGCC
1 ATAATCAAGAAGCTCATAAGAGCC
** * * **
61852384 AATAA-CGGGTACCTCCGAAGAGCC
1 -ATAATCAAGAAGCTCATAAGAGCC
** *
61852408 ATTAATCGGGAAGCTC-TGGAGAGCC
1 A-TAATCAAGAAGCTCAT-AAGAGCC
*
61852433 ATTAATCAAGAAGCTCACAAAGAGCC
1 A-TAATCAAGAAGCTCA-TAAGAGCC
* *
61852459 TTTAATCGAGAAGCTC
1 -ATAATCAAGAAGCTC
61852475 CAGAAAAGCC
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
23 5 0.06
24 31 0.36
25 32 0.37
26 19 0.22
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (24 bp):
ATAATCAAGAAGCTCATAAGAGCC
Found at i:61852484 original size:26 final size:26
Alignment explanation
Indices: 61852429--61852486 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
61852419 AGCTCTGGAG
*
61852429 AGCCATTAATCAAGAAGCTCACAAAG
1 AGCCATTAATCAAGAAGCTCACAAAA
* *
61852455 AGCCTTTAATCGAGAAGCTC-CAGAAA
1 AGCCATTAATCAAGAAGCTCACA-AAA
61852481 AGCCAT
1 AGCCAT
61852487 ACATTGGGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (26 bp):
AGCCATTAATCAAGAAGCTCACAAAA
Found at i:61853943 original size:30 final size:30
Alignment explanation
Indices: 61853874--61853943 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
61853864 TGAGTTGTTA
** *
61853874 CACACACGACCGTGTCACCTGGCCGTGTGT
1 CACACACGGTCGTATCACCTGGCCGTGTGT
** *
61853904 CACGTACGGTCGTATCACTTGGCCGTGTGT
1 CACACACGGTCGTATCACCTGGCCGTGTGT
61853934 CACACACGGT
1 CACACACGGT
61853944 TGAGATACAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.23
Consensus pattern (30 bp):
CACACACGGTCGTATCACCTGGCCGTGTGT
Found at i:61854928 original size:25 final size:25
Alignment explanation
Indices: 61854875--61854929 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
61854865 AAGCTCTTTT
* **
61854875 GAGCTGAATAACGAGAAGCTCATGC
1 GAGCTGAATAACGAGAAGCCCATAA
*
61854900 GAGCTGATTAACGAGAAGCCCATAA
1 GAGCTGAATAACGAGAAGCCCATAA
61854925 GAGCT
1 GAGCT
61854930 ATGGTAAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGCTGAATAACGAGAAGCCCATAA
Found at i:61860886 original size:23 final size:25
Alignment explanation
Indices: 61860838--61860885 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
61860828 AGTTGTAAAG
61860838 AGAAAATTATCTAAAGAGATTATTTT
1 AGAAAATTATCT-AAGAGATTATTTT
61860864 AGAAAATT-TCT-AGAGA-TATTTT
1 AGAAAATTATCTAAGAGATTATTTT
61860886 TCTTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 3 0.14
26 8 0.36
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (25 bp):
AGAAAATTATCTAAGAGATTATTTT
Found at i:61861269 original size:28 final size:31
Alignment explanation
Indices: 61861215--61861273 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
61861205 TACCTTATTT
*
61861215 CATATCAATTCATATTCCATACACATTTCAAG
1 CATATCAATTCAAATT-CATACACATTTCAAG
61861247 CATATCAA-TCAAATT-ATAC-CATTTCAA
1 CATATCAATTCAAATTCATACACATTTCAA
61861274 CTAGGCATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
29 4 0.15
31 6 0.23
32 8 0.31
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.34
Consensus pattern (31 bp):
CATATCAATTCAAATTCATACACATTTCAAG
Found at i:61868213 original size:5 final size:5
Alignment explanation
Indices: 61868203--61868249 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
61868193 GTCTACCTGC
*
61868203 AAAAT AAAAT AAAAT AGAAAG AAGAA- AAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT A-AAAT AA-AAT AAAAT -AAAAT AAAAT AAAAT
61868250 GTGTAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
4 2 0.05
5 24 0.65
6 11 0.30
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:61878459 original size:61 final size:61
Alignment explanation
Indices: 61878364--61878484 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
61878354 TTTGGGAAGT
* * * *
61878364 GAAACTAATTGACATACCAACTATCGTTTTGTTTCATTGTTGGGGGAATTAAGTTAAAAGG
1 GAAACTAATTGACACACCAACTAACGTTTTGTTTCACTGTTGGGGGAATTAAATTAAAAGG
** *
61878425 GAAACTAATTGACACACCAGGTAACGTTTTGTTTCACTGTTTGGGGAATTAAATTAAAAG
1 GAAACTAATTGACACACCAACTAACGTTTTGTTTCACTGTTGGGGGAATTAAATTAAAAG
61878485 AGCAACTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (61 bp):
GAAACTAATTGACACACCAACTAACGTTTTGTTTCACTGTTGGGGGAATTAAATTAAAAGG
Found at i:61881924 original size:31 final size:29
Alignment explanation
Indices: 61881881--61881970 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 29
61881871 AATATATTTA
*
61881881 TTTTTTAAATTTTTTTAATTTTAAAATACT
1 TTTTTTATATTTTTTTAATTTTAAAATA-T
61881911 TTTTTTAT-TATTTTTTAATTTTAAAATAT
1 TTTTTTATAT-TTTTTTAATTTTAAAATAT
**
61881940 TTTTAAAATATTTTTTTTAATTTTTAAAATA
1 TTTT-TTATA-TTTTTTTAA-TTTTAAAATA
61881971 AATTTTTGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
29 6 0.12
30 27 0.52
31 8 0.15
32 11 0.21
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTTTATATTTTTTTAATTTTAAAATAT
Found at i:61881942 original size:17 final size:17
Alignment explanation
Indices: 61881870--61881945 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 17
61881860 CAGATATAAT
* * *
61881870 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
61881887 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
61881904 AAATA-CTTT--TTTTA
1 AAATATTTTTAATTTTA
**
61881918 TTAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
61881934 AAATATTTTTAA
1 AAATATTTTTAA
61881946 AATATTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
14 10 0.23
16 10 0.23
17 24 0.55
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:61881943 original size:11 final size:11
Alignment explanation
Indices: 61881929--61881954 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61881919 TATTTTTTAA
61881929 TTTTAAAATAT
1 TTTTAAAATAT
61881940 TTTTAAAATAT
1 TTTTAAAATAT
61881951 TTTT
1 TTTT
61881955 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:61881976 original size:21 final size:21
Alignment explanation
Indices: 61881938--61881977 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61881928 ATTTTAAAAT
**
61881938 ATTTTTAAAATATTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
61881959 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
61881978 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:61881984 original size:22 final size:22
Alignment explanation
Indices: 61881937--61881995 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
61881927 AATTTTAAAA
**
61881937 TATTTTTAAAAT--ATTTTTTT
1 TATTTTTAAAATAAATTTTTGG
61881957 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTTGG
61881980 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
61881996 GGGCCGGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 8 0.24
23 13 0.39
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTGG
Found at i:61896957 original size:44 final size:44
Alignment explanation
Indices: 61896816--61897177 Score: 163
Period size: 44 Copynumber: 8.2 Consensus size: 44
61896806 ATTATACAGG
** ** **
61896816 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA-TAAAGGA
** ** *
61896862 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCT--AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATT-AAAATAAAG-GA
* **
61896906 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGA
* ** *** *
61896950 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCAT-CAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAATAAAGGA
* * * ** **
61896991 TCTTATCACCCTGAGGTTACGGTGGAGTAGACCGAAGAATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA-TAAAGGA
* * ***
61897037 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA--A
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATT-AAAATA-AAGGA
* * * *
61897081 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGAT--AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATT-AAAATAAAG-GA
* * *
61897125 TCCTATCTGCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGA
61897169 TCTTATCTC
1 TCTTATCTC
61897178 TTTGAAGTTA
Statistics
Matches: 234, Mismatches: 62, Indels: 42
0.69 0.18 0.12
Matches are distributed among these distances:
41 25 0.11
42 4 0.02
43 11 0.05
44 126 0.54
45 7 0.03
46 61 0.26
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGA
Found at i:61898367 original size:12 final size:12
Alignment explanation
Indices: 61898344--61898394 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
61898334 AAAAGGTTGC
61898344 TGTTTTTGTTCTT
1 TGTTTTT-TTCTT
61898357 TGTTTTTTTCTT
1 TGTTTTTTTCTT
*
61898369 TGTCGATTTTT-TT
1 TGT--TTTTTTCTT
*
61898382 TCTTTTTTTCTT
1 TGTTTTTTTCTT
61898394 T
1 T
61898395 TCGAAATCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.16
12 11 0.34
13 11 0.34
14 5 0.16
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.78
Consensus pattern (12 bp):
TGTTTTTTTCTT
Found at i:61899080 original size:3 final size:3
Alignment explanation
Indices: 61899072--61899103 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61899062 GATTTAGTCC
61899072 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61899104 CCTATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:61899667 original size:16 final size:16
Alignment explanation
Indices: 61899648--61899678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61899638 TACACCCATA
*
61899648 TATATGTACATATTTT
1 TATATATACATATTTT
61899664 TATATATACATATTT
1 TATATATACATATTT
61899679 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:61921846 original size:44 final size:43
Alignment explanation
Indices: 61921701--61922196 Score: 226
Period size: 44 Copynumber: 11.3 Consensus size: 43
61921691 GTTTATTATA
** **
61921701 CAGG-TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA--T
* ** * *
61921747 CA-GATCTTATCTCTCTGAGATTACAACGGAGTAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT
* * **
61921788 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT
* * ** ***
61921833 AAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCAT
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAAT
* * * **
61921876 CAGG-TCTCATCACCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA--T
* * * **
61921922 CA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT
* * * *
61921964 CAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATT-GAAG
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT
* * * **
61922007 CTAGTAATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATT
1 C-AG-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAA-T
* * * ***
61922053 AAGGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTAT
1 CA-GGATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAAT
* * *
61922096 CAGG-TCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAGAT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGTAGATT-AAAAT
* * * *
61922139 -AGTAATCCTATCTGCCTGAGATTACAGTGGAGTGGATTAAAAT
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT
*
61922182 AAAGGATCTTATCTC
1 -CAGGATCTTATCTC
61922197 TTTGAAGTTA
Statistics
Matches: 332, Mismatches: 90, Indels: 58
0.69 0.19 0.12
Matches are distributed among these distances:
41 50 0.15
42 12 0.04
43 17 0.05
44 153 0.46
45 40 0.12
46 60 0.18
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
CAGGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT
Found at i:61922023 original size:175 final size:174
Alignment explanation
Indices: 61921701--61922260 Score: 445
Period size: 175 Copynumber: 3.2 Consensus size: 174
61921691 GTTTATTATA
* * *
61921701 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCTCTGAG
1 CAGGTCTCATCACCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
* * * *
61921766 ATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAACGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAA
* *
61921831 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
131 AT-AAGAATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* ** *
61921876 CAGGTCTCATCACCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTCATCACCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
* ** * * *
61921941 GTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGA
66 ATTACAACGGAGCAGATTGAAGCCAGTA-ATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-A
** ** ** ***
61922005 AGCT-AGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATT
129 AAATAAG-AATCCTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCA-T
* * * * * ** * * * *
61922053 AAGGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---G--TATCAGGTCTTATCTCCTT
1 CA-GG-TCTCATCACCCTGAGA-TTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCT
* * ** * * **
61922112 GAGATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGTGGATT
63 GAGATTACAACGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT
* * * * * **
61922177 AAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGGAGATCGTGT
128 AAAAT-AAGAATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* * *
61922225 CAGGTCTTATCCCCCTGATG-TTGCAGTGGAACAGAC
1 CAGGTCTCATCACCCTGA-GATTACAGTGGAACAGAC
61922261 TGAAAACATA
Statistics
Matches: 304, Mismatches: 68, Indels: 31
0.75 0.17 0.08
Matches are distributed among these distances:
170 23 0.08
171 2 0.01
172 2 0.01
173 4 0.01
174 99 0.33
175 138 0.45
176 6 0.02
177 2 0.01
178 2 0.01
179 26 0.09
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (174 bp):
CAGGTCTCATCACCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAACGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAA
ATAAGAATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
Found at i:61922120 original size:130 final size:129
Alignment explanation
Indices: 61921924--61922235 Score: 423
Period size: 130 Copynumber: 2.4 Consensus size: 129
61921914 AAGAATTTCA
* * * * * *
61921924 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTA-TCAG-G-TCTTATCTCTCTGAGATTA
*
61921989 CAGCGGAGTAGATTGAAGCTAGTAATCCTATCT-CTCTGA-AGTTACAGTGGAGCGGATTAAAAT
63 CAGCGGAGTAGATTGAAGATAGTAATCCTATCTGC-CTGAGA-TTACAGTGGAGCGGATTAAAA-
*
61922052 TAAGG
125 TAAAG
*
61922057 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTC-CTTGAGATTACA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTATCAGGTCTTATCTCTC-TGAGATTACA
*
61922121 GCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGTGGATTAAAATAAAG
65 GCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* * *
61922186 GATCTTATCTCTTTGAAGTTACAGTAGAGGAGATCGTGTCAGGTCTTATC
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTATCAGGTCTTATC
61922236 CCCCTGATGT
Statistics
Matches: 163, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
129 52 0.32
130 73 0.45
131 3 0.02
132 3 0.02
133 32 0.20
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (129 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTATCAGGTCTTATCTCTCTGAGATTACAG
CGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
Found at i:61923927 original size:20 final size:20
Alignment explanation
Indices: 61923882--61923920 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61923872 ATATAATTTA
61923882 TTTATATATATGTACATACC
1 TTTATATATATGTACATACC
* *
61923902 TATATATATTTGTATCATA
1 TTTATATATATGTA-CATA
61923921 TTTTATAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTATATATATGTACATACC
Found at i:61927698 original size:31 final size:31
Alignment explanation
Indices: 61927657--61927729 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
61927647 CACCGTAAAA
* * *
61927657 ATTTGAAGCAAATAACCCATTTCGGTATTTC
1 ATTTGTAGCAAACAACCCATTTCGGTAATTC
* *
61927688 TTTTGTAGCAAACGACCCATTTCGGTAATTC
1 ATTTGTAGCAAACAACCCATTTCGGTAATTC
61927719 ATTTGTA-CAAA
1 ATTTGTAGCAAA
61927730 ACGTACCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (31 bp):
ATTTGTAGCAAACAACCCATTTCGGTAATTC
Found at i:61927732 original size:31 final size:32
Alignment explanation
Indices: 61927671--61927740 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
61927661 GAAGCAAATA
* *
61927671 ACCCATTTCGGTATTTCTTTTGTAGCAAACG-
1 ACCCATTTCGGTAATTCATTTGTAGCAAACGT
61927702 ACCCATTTCGGTAATTCATTTGTA-CAAAACGT
1 ACCCATTTCGGTAATTCATTTGTAGC-AAACGT
61927734 A-CCATTT
1 ACCCATTT
61927741 TGATAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (32 bp):
ACCCATTTCGGTAATTCATTTGTAGCAAACGT
Found at i:61933050 original size:15 final size:16
Alignment explanation
Indices: 61933022--61933051 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61933012 TTATAATTGC
61933022 CGATTGAGTATTAGTT
1 CGATTGAGTATTAGTT
61933038 CGATTGA-TATTAGT
1 CGATTGAGTATTAGT
61933052 ATTATTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (16 bp):
CGATTGAGTATTAGTT
Found at i:61935098 original size:13 final size:14
Alignment explanation
Indices: 61935067--61935101 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
61935057 AAATAACTAA
61935067 AATTTTATATTGAT
1 AATTTTATATTGAT
*
61935081 AATTTTATATT-TT
1 AATTTTATATTGAT
61935094 AATTTTAT
1 AATTTTAT
61935102 TATGCACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
AATTTTATATTGAT
Found at i:61936740 original size:32 final size:31
Alignment explanation
Indices: 61936686--61936746 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 31
61936676 ATTTTTTGAC
61936686 ATAATTTGATCTTTATACTTTTATAATGTCA
1 ATAATTTGATCTTTATACTTTTATAATGTCA
61936717 ATAATTTGATCTTTATACTTTTTATAATGT
1 ATAATTTGATCTTTATAC-TTTTATAATGT
61936747 TATTAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (31 bp):
ATAATTTGATCTTTATACTTTTATAATGTCA
Found at i:61947029 original size:74 final size:74
Alignment explanation
Indices: 61946894--61947038 Score: 206
Period size: 74 Copynumber: 1.9 Consensus size: 74
61946884 GAATAAAATA
* *
61946894 AAGGAAAAATGCAAAAAAAAAAAAAGAGTAGGAAATAAAATGAAGGAAGAAATTGCTAAGTATAG
1 AAGGAAAAATGCAAAAAAAAAAAAAGAG-AGGAAATAAAATAAAGGAAGAAATTGCAAAGTATAG
61946959 GAAATGAAAC
65 GAAATGAAAC
*
61946969 AAGG-AAAATGCAAAAAAAAAAAAAGA-AGGAAATAAAATAAAGGAA-AAATTTCAAAAAAGTAT
1 AAGGAAAAATGCAAAAAAAAAAAAAGAGAGGAAATAAAATAAAGGAAGAAATTGC---AAAGTAT
61947031 AGGAAATG
63 AGGAAATG
61947039 GAATAGGGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
71 6 0.09
72 18 0.28
74 36 0.56
75 4 0.06
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.13
Consensus pattern (74 bp):
AAGGAAAAATGCAAAAAAAAAAAAAGAGAGGAAATAAAATAAAGGAAGAAATTGCAAAGTATAGG
AAATGAAAC
Found at i:61949124 original size:16 final size:16
Alignment explanation
Indices: 61949103--61949136 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61949093 AAAGTCTAAA
* *
61949103 TTTGATTTATCAATAT
1 TTTGATATAACAATAT
61949119 TTTGATATAACAATAT
1 TTTGATATAACAATAT
61949135 TT
1 TT
61949137 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTGATATAACAATAT
Found at i:61950840 original size:31 final size:28
Alignment explanation
Indices: 61950804--61950860 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
61950794 ACTCTCTCAA
*
61950804 CAAAAATTACAAATTAATTTAAAATAATTTT
1 CAAAAATT-CAAAAT-ATTTAAAA-AATTTT
61950835 CAAAAATTCAAAATATTTAAAAAATT
1 CAAAAATTCAAAATATTTAAAAAATT
61950861 ACCAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 8 0.32
30 5 0.20
31 8 0.32
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (28 bp):
CAAAAATTCAAAATATTTAAAAAATTTT
Found at i:61950905 original size:12 final size:12
Alignment explanation
Indices: 61950890--61950942 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
61950880 TAAAATTTAT
61950890 AAAATTTATAAA
1 AAAATTTATAAA
*
61950902 AAAA-TTCTAAA
1 AAAATTTATAAA
*
61950913 AAAATATAT-AA
1 AAAATTTATAAA
61950924 AAAA--T-TAAA
1 AAAATTTATAAA
61950933 AAAATTTATA
1 AAAATTTATA
61950943 GATCAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
8 1 0.03
9 7 0.21
11 17 0.52
12 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:61950925 original size:22 final size:20
Alignment explanation
Indices: 61950890--61950942 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
61950880 TAAAATTTAT
61950890 AAAATTTATAAAAAAATTCTAAA
1 AAAATTTAT-AAAAAA-T-TAAA
*
61950913 AAAATATATAAAAAATTAAA
1 AAAATTTATAAAAAATTAAA
61950933 AAAATTTATA
1 AAAATTTATA
61950943 GATCAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 13 0.46
21 1 0.04
22 6 0.21
23 8 0.29
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATTTATAAAAAATTAAA
Found at i:61951037 original size:13 final size:13
Alignment explanation
Indices: 61951019--61951056 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
61951009 TTTAGCAATG
61951019 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
61951032 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
61951045 TTTTTGAAAAGT
1 CTTTTGAAAAGT
61951057 TTAATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:61956612 original size:41 final size:41
Alignment explanation
Indices: 61956510--61956626 Score: 143
Period size: 41 Copynumber: 3.0 Consensus size: 41
61956500 CCTGATCGGA
* *
61956510 TAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCG-GC
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAC
** ** *
61956550 TAAACCG-A--AGTAAATTGACACCCAGTACCTCATCGAAT
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAC
61956588 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGA
1 TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGA
61956627 CTCGAAGTCG
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
37 24 0.39
38 5 0.08
39 2 0.03
40 5 0.08
41 26 0.42
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (41 bp):
TAATTCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAC
Found at i:61957504 original size:4 final size:4
Alignment explanation
Indices: 61957495--61957552 Score: 63
Period size: 4 Copynumber: 15.2 Consensus size: 4
61957485 AAGGCCGTGG
61957495 CTTT CTTT C-TT CTTT CTCTT -TTT CTTT CCTTT -TTT C-TT -TTT CTTT
1 CTTT CTTT CTTT CTTT CT-TT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT
61957540 CTTT CTTT CTTT C
1 CTTT CTTT CTTT C
61957553 CAATTTCGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
3 12 0.26
4 29 0.62
5 6 0.13
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:61957534 original size:18 final size:17
Alignment explanation
Indices: 61957496--61957551 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 17
61957486 AGGCCGTGGC
61957496 TTTCTTTCTTCTTTCTCTT
1 TTTCTTTCTT-TTT-TCTT
61957515 TTTCTTTCCTTTTTTCTT
1 TTTCTTT-CTTTTTTCTT
61957533 TTTCTTTCTTTCTTTCTT
1 TTTCTTTCTTT-TTTCTT
61957551 T
1 T
61957552 CCAATTTCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.11
18 18 0.51
19 10 0.29
20 3 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTCTTTCTTTTTTCTT
Found at i:61965699 original size:41 final size:41
Alignment explanation
Indices: 61965586--61965702 Score: 109
Period size: 41 Copynumber: 3.0 Consensus size: 41
61965576 CCTGATCAGA
* * * * *
61965586 TAATTCGAAGTAATAAATTGACACACAGTCTCTCATCG-GT
1 TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAT
* ** *
61965626 TAAACC-AA--AGTAAATT-AGCACCCAAAGCCTCATCGAAT
1 TAATCCGAAGTAGTAAATTGA-CACCCAGTGTCTCATCGAAT
61965664 TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGA
1 TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGA
61965703 CTCGAAGTCA
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
36 1 0.02
37 19 0.33
38 6 0.10
39 4 0.07
40 4 0.07
41 23 0.40
42 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (41 bp):
TAATCCGAAGTAGTAAATTGACACCCAGTGTCTCATCGAAT
Found at i:61966604 original size:6 final size:6
Alignment explanation
Indices: 61966580--61966667 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
61966570 AGGCCGTGAC
* * * *
61966580 TTTCTT TCTTCTT TCTCTT TTTC-T TTCCTT TTTCTT TTTC-T TTCCTG
1 TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* *
61966627 TTTCGTT TTGCTTT GTTTCTT TTTCTT TTTCTA TTTCTT TT
1 TTTC-TT TTTC-TT -TTTCTT TTTCTT TTTCTT TTTCTT TT
61966668 ATTTATTTGT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
5 8 0.12
6 39 0.61
7 14 0.22
8 3 0.05
ACGTcount: A:0.01, C:0.20, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:61966610 original size:17 final size:17
Alignment explanation
Indices: 61966580--61966625 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
61966570 AGGCCGTGAC
61966580 TTTCTTTCTTCTTTCTCTT
1 TTTCTTTC--CTTTCTCTT
*
61966599 TTTCTTTCCTTTTTCTT
1 TTTCTTTCCTTTCTCTT
61966616 TTTCTTTCCT
1 TTTCTTTCCT
61966626 GTTTCGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 18 0.69
19 8 0.31
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTCCTTTCTCTT
Found at i:61966614 original size:23 final size:23
Alignment explanation
Indices: 61966579--61966622 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
61966569 AAGGCCGTGA
61966579 CTTTCTTTCTTCTTTCTCTTTTT
1 CTTTCTTTCTTCTTTCTCTTTTT
*
61966602 CTTTCCTTT-TTCTTTTTCTTT
1 CTTT-CTTTCTTCTTTCTCTTT
61966623 CCTGTTTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (23 bp):
CTTTCTTTCTTCTTTCTCTTTTT
Found at i:61966630 original size:17 final size:17
Alignment explanation
Indices: 61966595--61966654 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
61966585 TTCTTCTTTC
*
61966595 TCTTTTTCTTTCCTTTT
1 TCTTTTTCTTTCCTGTT
61966612 TCTTTTTCTTTCCTGTT
1 TCTTTTTCTTTCCTGTT
*
61966629 TCGTTTTGC-TT--TGTT
1 TC-TTTTTCTTTCCTGTT
61966644 TCTTTTTCTTT
1 TCTTTTTCTTT
61966655 TTCTATTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.13
15 8 0.21
17 20 0.53
18 5 0.13
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (17 bp):
TCTTTTTCTTTCCTGTT
Found at i:61966950 original size:15 final size:15
Alignment explanation
Indices: 61966930--61966959 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61966920 CAATTAGCTT
61966930 CGTAAATATTTTTAA
1 CGTAAATATTTTTAA
61966945 CGTAAATATTTTTAA
1 CGTAAATATTTTTAA
61966960 AAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
CGTAAATATTTTTAA
Found at i:61970508 original size:9 final size:9
Alignment explanation
Indices: 61970496--61970610 Score: 74
Period size: 9 Copynumber: 12.3 Consensus size: 9
61970486 ATAATAAATA
61970496 TTTTT-ATT
1 TTTTTAATT
61970504 TTTTTAATT
1 TTTTTAATT
61970513 TTTTTAATT
1 TTTTTAATT
*
61970522 TTAAATT-ATT
1 TT--TTTAATT
61970532 TTTTTAATT
1 TTTTTAATT
61970541 TTTTTAA-T
1 TTTTTAATT
**
61970549 TTTAAAATAT
1 TTTTTAAT-T
*
61970559 TTTTAAAATACT
1 TTTT-TAAT--T
*
61970571 TTTTTTATT
1 TTTTTAATT
61970580 TTTTTAATT
1 TTTTTAATT
***
61970589 TTAAAATATT
1 TTTTTA-ATT
61970599 TTTTTAATT
1 TTTTTAATT
61970608 TTT
1 TTT
61970611 AAAATAAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
8 13 0.16
9 42 0.51
10 15 0.18
11 8 0.10
12 5 0.06
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAATT
Found at i:61970539 original size:28 final size:28
Alignment explanation
Indices: 61970499--61970562 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
61970489 ATAAATATTT
61970499 TTATTTTTTTAATTTTTTTAATTTTAAA
1 TTATTTTTTTAATTTTTTTAATTTTAAA
61970527 TTATTTTTTTAATTTTTTTAATTTTAAA
1 TTATTTTTTTAATTTTTTTAATTTTAAA
*
61970555 ATATTTTT
1 TTATTTTT
61970563 AAAATACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (28 bp):
TTATTTTTTTAATTTTTTTAATTTTAAA
Found at i:61970563 original size:39 final size:39
Alignment explanation
Indices: 61970496--61970601 Score: 146
Period size: 39 Copynumber: 2.8 Consensus size: 39
61970486 ATAATAAATA
** * *
61970496 TTTTTATTTTTTTAATTTT--TTTAATTTTAAATTA-TT
1 TTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
61970532 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTT-ATTTTTTTAATTTTAAAATATTTTTAAAATACTT
61970572 TTTTTATTTTTTTAATTTTAAAATATTTTT
1 TTTTTATTTTTTTAATTTTAAAATATTTTT
61970602 TTAATTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
36 5 0.08
37 14 0.23
39 36 0.58
40 7 0.11
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (39 bp):
TTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:61970573 original size:28 final size:28
Alignment explanation
Indices: 61970514--61970573 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
61970504 TTTTTAATTT
* ** **
61970514 TTTTAATTTTAAATTATTTTTTTAATTT
1 TTTTAATTTTAAAATATTTTTAAAATAC
61970542 TTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAATTTTAAAATATTTTTAAAATAC
61970570 TTTT
1 TTTT
61970574 TTTATTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTAATTTTAAAATATTTTTAAAATAC
Found at i:61970601 original size:20 final size:20
Alignment explanation
Indices: 61970538--61970616 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 20
61970528 TATTTTTTTA
61970538 ATTTTTTTAA-TTTTAAAAT
1 ATTTTTTTAATTTTTAAAAT
** **
61970557 ATTTTTAAAATACTTTT--TTT
1 ATTTTTTTAAT--TTTTAAAAT
61970577 ATTTTTTTAA-TTTTAAAAT
1 ATTTTTTTAATTTTTAAAAT
61970596 ATTTTTTTAATTTTTAAAAT
1 ATTTTTTTAATTTTTAAAAT
61970616 A
1 A
61970617 AATTTTTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.09
19 19 0.41
20 19 0.41
22 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTTTAATTTTTAAAAT
Found at i:61970622 original size:19 final size:19
Alignment explanation
Indices: 61970581--61970622 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
61970571 TTTTTTATTT
**
61970581 TTTTAATTTTAAAATATTT
1 TTTTAATTTTAAAATATAA
61970600 TTTTAATTTTTAAAATA-AA
1 TTTTAA-TTTTAAAATATAA
61970619 TTTT
1 TTTT
61970623 TGATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTTAAAATATAA
Found at i:61970622 original size:20 final size:20
Alignment explanation
Indices: 61970580--61970637 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
61970570 TTTTTTTATT
**
61970580 TTTTTAA-TTTTAAAATATT
1 TTTTTAATTTTTAAAATAAA
61970599 TTTTTAATTTTTAAAATAAA
1 TTTTTAATTTTTAAAATAAA
61970619 TTTTTGATATTTATTAAAA
1 TTTTT-A-ATTT-TTAAAA
61970638 AATAGGCCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.21
20 15 0.45
21 1 0.03
22 4 0.12
23 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATAAA
Found at i:61982826 original size:21 final size:20
Alignment explanation
Indices: 61982786--61982826 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61982776 TAACTTTTTC
*
61982786 AAATATAATATTATTTTAAT
1 AAATATAATATTAATTTAAT
*
61982806 AAATTTAATATTTAATTTAAT
1 AAATATAATA-TTAATTTAAT
61982827 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATATAATATTAATTTAAT
Found at i:61982892 original size:30 final size:30
Alignment explanation
Indices: 61982857--61982953 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
61982847 ATTTTATTAC
*
61982857 TTTAATATTAATGTGAGTTATTAAATTTGA
1 TTTAATATTAATATGAGTTATTAAATTTGA
* * ** *
61982887 TTTAATATTTATCTTGA-TAGTATTTTA-TTAA
1 TTTAATATTAAT-ATGAGT--TATTAAATTTGA
61982918 TTTAATATTAATATGAGTTATTAAATTTGA
1 TTTAATATTAATATGAGTTATTAAATTTGA
61982948 TTTAAT
1 TTTAAT
61982954 TTTTATCTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
29 5 0.10
30 24 0.46
31 18 0.35
32 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (30 bp):
TTTAATATTAATATGAGTTATTAAATTTGA
Found at i:61982892 original size:61 final size:61
Alignment explanation
Indices: 61982814--61982990 Score: 309
Period size: 61 Copynumber: 2.9 Consensus size: 61
61982804 ATAAATTTAA
* * * *
61982814 TATTTAATTTAATTTAATTTTTATCTTGATAGTATTTTATTACTTTAATATTAATGTGAGT
1 TATTAAATTTGATTTAATTTTTATCTTGATAGTATTTTATTAATTTAATATTAATATGAGT
*
61982875 TATTAAATTTGATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAATATGAGT
1 TATTAAATTTGATTTAATTTTTATCTTGATAGTATTTTATTAATTTAATATTAATATGAGT
61982936 TATTAAATTTGATTTAATTTTTATCTTGATAGTATTTTATTAATTTAATATTAAT
1 TATTAAATTTGATTTAATTTTTATCTTGATAGTATTTTATTAATTTAATATTAAT
61982991 CTAAGTAATT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 110 1.00
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (61 bp):
TATTAAATTTGATTTAATTTTTATCTTGATAGTATTTTATTAATTTAATATTAATATGAGT
Found at i:61982924 original size:31 final size:31
Alignment explanation
Indices: 61982822--61982992 Score: 138
Period size: 31 Copynumber: 5.6 Consensus size: 31
61982812 AATATTTAAT
* *
61982822 TTAATTTAATTTTTATCTTGATAGTATTTTA
1 TTAATTTAATATTAATCTTGATAGTATTTTA
* * **
61982853 TTACTTTAATATTAAT-GTG--AGTTATTAAA
1 TTAATTTAATATTAATCTTGATAG-TATTTTA
* *
61982882 TTTGATTTAATATTTATCTTGATAGTATTTTA
1 -TTAATTTAATATTAATCTTGATAGTATTTTA
* **
61982914 TTAATTTAATATTAAT-ATG--AGTTATTAAA
1 TTAATTTAATATTAATCTTGATAG-TATTTTA
* * *
61982943 TTTGATTTAATTTTTATCTTGATAGTATTTTA
1 -TTAATTTAATATTAATCTTGATAGTATTTTA
61982975 TTAATTTAATATTAATCT
1 TTAATTTAATATTAATCT
61982993 AAGTAATTTC
Statistics
Matches: 104, Mismatches: 26, Indels: 20
0.69 0.17 0.13
Matches are distributed among these distances:
28 4 0.04
29 10 0.10
30 30 0.29
31 46 0.44
32 10 0.10
33 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (31 bp):
TTAATTTAATATTAATCTTGATAGTATTTTA
Found at i:61986501 original size:19 final size:19
Alignment explanation
Indices: 61986474--61986510 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61986464 TTGAACTTAG
* *
61986474 TAAATCTTAATTGATTAAT
1 TAAAACTTAATTAATTAAT
61986493 TAAAACTTAATTAATTAA
1 TAAAACTTAATTAATTAA
61986511 ACATTAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
TAAAACTTAATTAATTAAT
Found at i:61987339 original size:39 final size:40
Alignment explanation
Indices: 61987291--61987375 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
61987281 TAAAATTGTA
* *
61987291 AAATTATATTTAAAAATTTTAATTTTTATTAAAAA-ATAT
1 AAATAATATTTAAAAATTTTAAATTTTATTAAAAACATAT
*** *
61987330 AAATAATATTTTTTAATTTTAAATTTTATTAAAAACTTAT
1 AAATAATATTTAAAAATTTTAAATTTTATTAAAAACATAT
61987370 AAATAA
1 AAATAA
61987376 CATATTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 30 0.77
40 9 0.23
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (40 bp):
AAATAATATTTAAAAATTTTAAATTTTATTAAAAACATAT
Found at i:61987371 original size:40 final size:41
Alignment explanation
Indices: 61987305--61987398 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 41
61987295 TATATTTAAA
*
61987305 AATTTTAATTTTTATTAAAAAATATAAAT-A-ATATTTTTT
1 AATTTTAAATTTTATTAAAAAATATAAATAACATATTTTTT
*
61987344 AATTTTAAATTTTATTAAAAACTTATAAATAACATATTTTTT
1 AATTTTAAATTTTATTAAAAA-ATATAAATAACATATTTTTT
61987386 AATTTT-AATTTTA
1 AATTTTAAATTTTA
61987399 ATTTTTTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 20 0.40
40 7 0.14
41 8 0.16
42 15 0.30
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (41 bp):
AATTTTAAATTTTATTAAAAAATATAAATAACATATTTTTT
Found at i:61987451 original size:8 final size:9
Alignment explanation
Indices: 61987428--61987453 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61987418 AGTTTTAAAT
61987428 TATTTTTAC
1 TATTTTTAC
61987437 TATTTTTAC
1 TATTTTTAC
61987446 TATTTTTA
1 TATTTTTA
61987454 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (9 bp):
TATTTTTAC
Found at i:61987461 original size:37 final size:37
Alignment explanation
Indices: 61987393--61987481 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
61987383 TTTAATTTTA
* * *
61987393 ATTTTAAT-TTTTTATTATTTTTAAAAGTTTTAAATT
1 ATTTTTATATTTTTACTATTTTTAAAAGTTTTAAAAT
61987429 ATTTTTACTATTTTTACTATTTTTAAAA-TTTTAAAAT
1 ATTTTTA-TATTTTTACTATTTTTAAAAGTTTTAAAAT
61987466 ATTTTTATATTGTTTA
1 ATTTTTATATT-TTTA
61987482 TAATATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
36 10 0.21
37 20 0.43
38 17 0.36
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (37 bp):
ATTTTTATATTTTTACTATTTTTAAAAGTTTTAAAAT
Found at i:61987573 original size:19 final size:20
Alignment explanation
Indices: 61987549--61987593 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
61987539 ATTTTTATAA
61987549 TTTTTTAT-AA-TTTATATG
1 TTTTTTATAAATTTTATATG
*
61987567 TTGTTTTCTAAATTTTATATG
1 TT-TTTTATAAATTTTATATG
61987588 TTTTTT
1 TTTTTT
61987594 GAATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 2 0.09
19 5 0.22
20 6 0.26
21 10 0.43
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTTTATAAATTTTATATG
Found at i:61987601 original size:19 final size:21
Alignment explanation
Indices: 61987559--61987605 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
61987549 TTTTTTATAA
*
61987559 TTTATATGTTGTTTTCTAAAT
1 TTTATATGTTGTTTTCGAAAT
*
61987580 TTTATATGTT-TTTT-GAATT
1 TTTATATGTTGTTTTCGAAAT
61987599 TTTATAT
1 TTTATAT
61987606 ATTTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
21 10 0.42
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTATATGTTGTTTTCGAAAT
Found at i:61987624 original size:20 final size:21
Alignment explanation
Indices: 61987582--61987629 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
61987572 TTCTAAATTT
*
61987582 TATATGTT-TTTTGAATTTTTA
1 TATAT-TTATTTTGAATTTATA
61987603 TATATTTATTTTG-ATTTATA
1 TATATTTATTTTGAATTTATA
61987623 TATATTT
1 TATATTT
61987630 TAATGTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (21 bp):
TATATTTATTTTGAATTTATA
Found at i:61987631 original size:21 final size:22
Alignment explanation
Indices: 61987582--61987631 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
61987572 TTCTAAATTT
* *
61987582 TATATGTT-TTTTGAATTTTTA
1 TATATTTTATTTTGAATTTATA
61987603 TATA-TTTATTTTG-ATTTATA
1 TATATTTTATTTTGAATTTATA
61987623 TATATTTTA
1 TATATTTTA
61987632 ATGTGTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (22 bp):
TATATTTTATTTTGAATTTATA
Found at i:61994467 original size:19 final size:19
Alignment explanation
Indices: 61994445--61994493 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
61994435 ATTAGAATTT
61994445 TTTTATAAAAA-ATAATAAA
1 TTTTATAAAAACATAA-AAA
61994464 TTTTAATAAAAACATAAAAA
1 TTTT-ATAAAAACATAAAAA
**
61994484 AATTATAAAA
1 TTTTATAAAA
61994494 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTTATAAAAACATAAAAA
Found at i:61994501 original size:29 final size:30
Alignment explanation
Indices: 61994451--61994518 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
61994441 ATTTTTTTAT
*
61994451 AAAAAATAATAAATTTTAATAAAAA-CATA
1 AAAAAATTATAAATTTTAATAAAAATCATA
61994480 AAAAAATTATAAAATTTT-ATAAAAATCATA
1 AAAAAATTAT-AAATTTTAATAAAAATCATA
61994510 AAAAAATTA
1 AAAAAATTA
61994519 ATGACCTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (30 bp):
AAAAAATTATAAATTTTAATAAAAATCATA
Found at i:61994707 original size:20 final size:22
Alignment explanation
Indices: 61994679--61994723 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
61994669 GAAATTTATA
* *
61994679 TTTCTTTAC-ATTTTATATAAT
1 TTTCTTTACTACTTTATAAAAT
61994700 TTTC-TTACTACTTTATAAAAT
1 TTTCTTTACTACTTTATAAAAT
61994721 TTT
1 TTT
61994724 ATAGTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTCTTTACTACTTTATAAAAT
Found at i:61994752 original size:60 final size:60
Alignment explanation
Indices: 61994672--61994801 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 60
61994662 TTTTTATGAA
* * * * *
61994672 ATTTATATTTCTTTACATTTTATATAATTTTCTTACTA-CTTTATAAAATTTTATAGTTTTT
1 ATTTATATTTCTATACA-TTT-TAGAATTTTCTTACGATCTTTATAAAATTTTACAATTTTT
* * *
61994733 -TTTATATTTCTATATATTTTAGAATTTTTTTACGATTTTTATAAAATTTTACAATTTTT
1 ATTTATATTTCTATACATTTTAGAATTTTCTTACGATCTTTATAAAATTTTACAATTTTT
*
61994792 ATATATATTT
1 ATTTATATTT
61994802 TACGATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 13 0.22
59 23 0.40
60 22 0.38
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (60 bp):
ATTTATATTTCTATACATTTTAGAATTTTCTTACGATCTTTATAAAATTTTACAATTTTT
Found at i:61994782 original size:20 final size:20
Alignment explanation
Indices: 61994759--61994814 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
61994749 TTTTAGAATT
61994759 TTTTTACGATTTTTATAAAA
1 TTTTTACGATTTTTATAAAA
* *
61994779 -TTTTACAATTTTTAT-ATA
1 TTTTTACGATTTTTATAAAA
61994797 TATTTTACGATTTTTATA
1 T-TTTTACGATTTTTATA
61994815 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 14 0.47
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTACGATTTTTATAAAA
Found at i:61994803 original size:30 final size:29
Alignment explanation
Indices: 61994711--61994803 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 29
61994701 TTCTTACTAC
* * *
61994711 TTTATAAAATTTTATAGTTTTTTTTATAT
1 TTTATAAAATTTTACAATTTTTTATATAT
* * *
61994740 TTCTAT-ATATTTTAGAATTTTTT-TACGATT
1 TT-TATAAAATTTTACAATTTTTTATA-TA-T
61994770 TTTATAAAATTTTACAATTTTTATATATAT
1 TTTATAAAATTTTACAATTTTT-TATATAT
61994800 TTTA
1 TTTA
61994804 CGATTTTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 2 0.04
29 20 0.39
30 25 0.49
31 2 0.04
32 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTATAAAATTTTACAATTTTTTATATAT
Found at i:61994815 original size:20 final size:20
Alignment explanation
Indices: 61994760--61994815 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
61994750 TTTAGAATTT
61994760 TTTTACGATTTTTATA-AAA
1 TTTTACGATTTTTATATAAA
* *
61994779 TTTTACAATTTTTATATATA
1 TTTTACGATTTTTATATAAA
61994799 TTTTACGATTTTTATAT
1 TTTTACGATTTTTATAT
61994816 TTTTTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTACGATTTTTATATAAA
Found at i:62023340 original size:25 final size:22
Alignment explanation
Indices: 62023282--62023341 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
62023272 GCAACCACTT
62023282 TTTTATATTAAAATATTTTTTTA
1 TTTT-TATTAAAATATTTTTTTA
* * *
62023305 CTTTAAATAAAATATTATCATTTTA
1 TTTTTATTAAAATATT-T--TTTTA
62023330 TTTTTATTAAAA
1 TTTTTATTAAAA
62023342 ATACATACAG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 10 0.36
23 4 0.14
25 14 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTATTAAAATATTTTTTTA
Found at i:62023434 original size:27 final size:27
Alignment explanation
Indices: 62023403--62023456 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
62023393 CCCAAGACCA
*
62023403 GTCACGCCTGTCAGATAGGCACCACTG
1 GTCACGCCTGACAGATAGGCACCACTG
* *
62023430 GTCACGCCTGACAGGTAGGCGCCACTG
1 GTCACGCCTGACAGATAGGCACCACTG
62023457 CCTCTCCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (27 bp):
GTCACGCCTGACAGATAGGCACCACTG
Found at i:62023698 original size:59 final size:59
Alignment explanation
Indices: 62023597--62023710 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
62023587 TTTTTATAAT
* *
62023597 TATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGGTATAAATTGTTGTGTTTGTAA
1 TATTTTAAAATTAATTTATTAGTAATTTAGGATAATGGTATAAATTGTTGTGTTTGTAA
*
62023656 TATTTTAAAATTAATTTATTAGTAATTTAGGATAATGTTATAAATTGTTGTGTTT
1 TATTTTAAAATTAATTTATTAGTAATTTAGGATAATGGTATAAATTGTTGTGTTT
62023711 AGTTTAGTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (59 bp):
TATTTTAAAATTAATTTATTAGTAATTTAGGATAATGGTATAAATTGTTGTGTTTGTAA
Found at i:62023889 original size:27 final size:27
Alignment explanation
Indices: 62023851--62023907 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
62023841 ATTTTGTTCA
** *
62023851 ACCAGTCGCGCCTGTCAGATAGGCTCC
1 ACCAGTCGCGCCTACCAGATAGGCGCC
62023878 ACCAGTCGCGCCTACCAGATAGGCGCC
1 ACCAGTCGCGCCTACCAGATAGGCGCC
62023905 ACC
1 ACC
62023908 TACCCCATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.40, G:0.25, T:0.14
Consensus pattern (27 bp):
ACCAGTCGCGCCTACCAGATAGGCGCC
Found at i:62026320 original size:21 final size:21
Alignment explanation
Indices: 62026295--62026353 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
62026285 CAAACCCAAG
62026295 AAGTGACTCAAAATGATTCGA
1 AAGTGACTCAAAATGATTCGA
62026316 AAGTGACTCAAAATGATTCGA
1 AAGTGACTCAAAATGATTCGA
*
62026337 AAATGACTCAAAATGAT
1 AAGTGACTCAAAATGAT
62026354 GTTTCAGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.24
Consensus pattern (21 bp):
AAGTGACTCAAAATGATTCGA
Found at i:62026351 original size:10 final size:10
Alignment explanation
Indices: 62026298--62026352 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
62026288 ACCCAAGAAG
62026298 TGACTCAAAA
1 TGACTCAAAA
* *
62026308 TGATTCGAAAG
1 TGACTC-AAAA
62026319 TGACTCAAAA
1 TGACTCAAAA
*
62026329 TGATTCGAAAA
1 TGACTC-AAAA
62026340 TGACTCAAAA
1 TGACTCAAAA
62026350 TGA
1 TGA
62026353 TGTTTCAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 20 0.54
11 17 0.46
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (10 bp):
TGACTCAAAA
Found at i:62028382 original size:19 final size:18
Alignment explanation
Indices: 62028344--62028382 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
62028334 TATTGATATC
*
62028344 TTTATATTTAATTCATTT
1 TTTATATTTAATTCAGTT
*
62028362 TTTATTATTTAATTTAGTT
1 TTTA-TATTTAATTCAGTT
62028381 TT
1 TT
62028383 GATTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTATATTTAATTCAGTT
Found at i:62029205 original size:13 final size:13
Alignment explanation
Indices: 62029187--62029211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62029177 GAAGTGTGGC
62029187 AACATCAATTGGT
1 AACATCAATTGGT
62029200 AACATCAATTGG
1 AACATCAATTGG
62029212 CATATTCGTG
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AACATCAATTGGT
Found at i:62032699 original size:20 final size:20
Alignment explanation
Indices: 62032674--62032714 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
62032664 GTACACAATT
62032674 TCAATGGGTTCGCCAAGATG
1 TCAATGGGTTCGCCAAGATG
62032694 TCAATGGGTTCGCCAAGATG
1 TCAATGGGTTCGCCAAGATG
62032714 T
1 T
62032715 GGATGAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (20 bp):
TCAATGGGTTCGCCAAGATG
Found at i:62034487 original size:66 final size:66
Alignment explanation
Indices: 62034406--62034533 Score: 186
Period size: 66 Copynumber: 1.9 Consensus size: 66
62034396 GCAAATTGCT
* * * *
62034406 CAACTTAAAGCGGAGGCAGTATCGAGAGAAGTAGAGGCTCAA-AGAAAATATGAAGAACTCCAAG
1 CAACTTAAAGCGGAGGCAGCAGCGAGAGAAGCAGAGGC-AAATAGAAAATATGAAGAACTCCAAG
62034470 TA
65 TA
* *
62034472 CAACTTAAAGCGGAGGCAGCAGCGAGGGAAGCAGAGGCAAATAGAAAATATGACGAACTCCA
1 CAACTTAAAGCGGAGGCAGCAGCGAGAGAAGCAGAGGCAAATAGAAAATATGAAGAACTCCA
62034534 GCTACAGCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 2 0.04
66 53 0.96
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.12
Consensus pattern (66 bp):
CAACTTAAAGCGGAGGCAGCAGCGAGAGAAGCAGAGGCAAATAGAAAATATGAAGAACTCCAAGT
A
Found at i:62035014 original size:42 final size:42
Alignment explanation
Indices: 62034917--62035152 Score: 267
Period size: 42 Copynumber: 5.6 Consensus size: 42
62034907 GTTTTAGGGA
* * * *
62034917 AAAGCGTCGCTAAAGGTCATGTTTTTTGGCGGCATTTGTGAGG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GG
* * * * *
62034960 AAAGCGCCGCTAAAGGTCATATTCTTTAGTGGTGTTTTTGGA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG
*
62035002 AAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG
* * * *
62035044 AAAGCGCCACTAAAAGTCATGTTC-TTAACAGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG
* * *
62035085 AAAGCGCCGCTGAAGGTCATGTTCTTTAGTGGCATTTGTGGGG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGG
* * *
62035128 AAAGCACCGTTAAAGGCCATGTTCT
1 AAAGCGCCGCTAAAGGTCATGTTCT
62035153 ATAACGACAT
Statistics
Matches: 162, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
41 36 0.22
42 70 0.43
43 56 0.35
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG
Found at i:62035123 original size:83 final size:84
Alignment explanation
Indices: 62034914--62035132 Score: 269
Period size: 83 Copynumber: 2.6 Consensus size: 84
62034904 CACGTTTTAG
* * * * *
62034914 GGAAAAGCGTCGCTAAAGGTCATGTTTTTTGGCGGCATTTGTGAGGAAAGCGCCGCTAAAGGTCA
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTG-GGAAAGCGCCACTAAAAGTCA
*** * *
62034979 TATTCTTTAGTGGTGTTTTT
65 TATTCTTTAACAGCGTTTGT
* *
62034999 GGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAGCGCCACTAAAAGTCAT
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGGAAAGCGCCACTAAAAGTCAT
*
62035064 GTTC-TTAACAGCGTTTGT
66 ATTCTTTAACAGCGTTTGT
* * *
62035082 GGGAAAGCGCCGCTGAAGGTCATGTTCTTTAGTGGCATTTGTGGGGAAAGC
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGT-GGGAAAGC
62035133 ACCGTTAAAG
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
83 46 0.40
84 31 0.27
85 38 0.33
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (84 bp):
GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGGAAAGCGCCACTAAAAGTCAT
ATTCTTTAACAGCGTTTGT
Found at i:62035164 original size:43 final size:42
Alignment explanation
Indices: 62035002--62035170 Score: 119
Period size: 43 Copynumber: 4.0 Consensus size: 42
62034992 TGTTTTTGGA
* * * * * *
62035002 AAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGT-GGG
1 AAAGCACCGCTAAAGGCCATGTTC-TTAACGACATTTGTGGGG
* * * * *
62035044 AAAGCGCCACTAAAAGTCATGTTCTTAAC-AGCGTTTGT-GGG
1 AAAGCACCGCTAAAGGCCATGTTCTTAACGA-CATTTGTGGGG
* * * ** *
62035085 AAAGCGCCGCTGAAGGTCATGTTCTTTAGTGGCATTTGTGGGG
1 AAAGCACCGCTAAAGGCCATGTTC-TTAACGACATTTGTGGGG
*
62035128 AAAGCACCGTTAAAGGCCATGTTCTATAACGACATTTGTGGGG
1 AAAGCACCGCTAAAGGCCATGTTCT-TAACGACATTTGTGGGG
62035171 TAGTGCCGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
41 35 0.33
42 33 0.31
43 37 0.35
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (42 bp):
AAAGCACCGCTAAAGGCCATGTTCTTAACGACATTTGTGGGG
Found at i:62037430 original size:21 final size:21
Alignment explanation
Indices: 62037380--62037431 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
62037370 CAATTCTGAA
*
62037380 AATTTTAAAATATCTTAAAAT
1 AATTTTAAAATAACTTAAAAT
* * *
62037401 AAATATAAAATAAGTTAAAAT
1 AATTTTAAAATAACTTAAAAT
*
62037422 ATTTTTAAAA
1 AATTTTAAAA
62037432 ATAATTTGAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTTTAAAATAACTTAAAAT
Found at i:62037716 original size:10 final size:11
Alignment explanation
Indices: 62037689--62037727 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
62037679 TGAGGTCAAC
*
62037689 ATATTTTAAAA
1 ATATATTAAAA
62037700 ATATATTAAAA
1 ATATATTAAAA
62037711 AT-TATTAAAA
1 ATATATTAAAA
62037721 ATATATT
1 ATATATT
62037728 GAAGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:62037811 original size:32 final size:31
Alignment explanation
Indices: 62037746--62037816 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 31
62037736 AATTTGTTGA
* *
62037746 ATTTTTAACATAATTTTAATATTTTATATTT
1 ATTTTTAACATAATTTTAATATTTTAGAATT
* * *
62037777 ATTTTTAATATACTTTTTAATTTTTTAGAATT
1 ATTTTTAACATA-ATTTTAATATTTTAGAATT
*
62037809 ATTGTTAA
1 ATTTTTAA
62037817 GAATTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 11 0.33
32 22 0.67
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (31 bp):
ATTTTTAACATAATTTTAATATTTTAGAATT
Found at i:62040626 original size:18 final size:18
Alignment explanation
Indices: 62040603--62040640 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
62040593 GCACACGGGC
*
62040603 GTGTGGCTTGGCCTTGTG
1 GTGTGGCTTGGCCGTGTG
62040621 GTGTGGCTTGGCCGTGTG
1 GTGTGGCTTGGCCGTGTG
62040639 GT
1 GT
62040641 ACAAGTCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.47, T:0.37
Consensus pattern (18 bp):
GTGTGGCTTGGCCGTGTG
Found at i:62042556 original size:26 final size:26
Alignment explanation
Indices: 62042535--62042585 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
62042525 CTTGATGTAT
62042535 GACT-TTTCGTGAGCTTCCTGATTAAA
1 GACTCTTT-GTGAGCTTCCTGATTAAA
*
62042561 GGCTCTTTGTGAGCTTCCTGATTAA
1 GACTCTTTGTGAGCTTCCTGATTAA
62042586 TGGCTCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GACTCTTTGTGAGCTTCCTGATTAAA
Found at i:62042590 original size:26 final size:26
Alignment explanation
Indices: 62042543--62042592 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
62042533 ATGACTTTTC
62042543 GTGAGCTTCCTGATTAAAGGCTCTTT
1 GTGAGCTTCCTGATTAAAGGCTCTTT
*
62042569 GTGAGCTTCCTGATTAATGGCTCT
1 GTGAGCTTCCTGATTAAAGGCTCT
62042593 CCAGAGCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (26 bp):
GTGAGCTTCCTGATTAAAGGCTCTTT
Found at i:62042605 original size:25 final size:26
Alignment explanation
Indices: 62042545--62042614 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
62042535 GACTTTTCGT
* ***
62042545 GAGCTTCCTGATTAAAGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTCCA
62042571 GAGCTTCCTGATTAATGGCTC-TCCA
1 GAGCTTCCTGATTAATGGCTCTTCCA
62042596 GAGCTTCCTGA-T-ATGGCTC
1 GAGCTTCCTGATTAATGGCTC
62042615 GCTTGAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 7 0.17
24 1 0.03
25 12 0.30
26 20 0.50
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTCCA
Found at i:62042673 original size:25 final size:25
Alignment explanation
Indices: 62042546--62042688 Score: 75
Period size: 25 Copynumber: 5.8 Consensus size: 25
62042536 ACTTTTCGTG
* * *
62042546 AGCTTCCTGATTAAAGGCTCTTTGTG
1 AGCTTCCCGATTAATGGCTCTTTG-A
* **
62042572 AGCTTCCTGATTAATGGCTC-TCCA
1 AGCTTCCCGATTAATGGCTCTTTGA
* *
62042596 GAGCTTCCTGA-T-ATGGCTCGCTTGA
1 -AGCTTCCCGATTAATGGCTC-TTTGA
* * *
62042621 A-CTTCCC-AATATATAGCTATTT-A
1 AGCTTCCCGATTA-ATGGCTCTTTGA
62042644 GAGCTTCCCGATTAATGGCTCTTTGA
1 -AGCTTCCCGATTAATGGCTCTTTGA
* *
62042670 AGCTACCCG-TTATTGGCTC
1 AGCTTCCCGATTAATGGCTC
62042689 GCATGAGCTT
Statistics
Matches: 92, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
22 1 0.01
23 14 0.15
24 14 0.15
25 40 0.43
26 23 0.25
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTTCCCGATTAATGGCTCTTTGA
Found at i:62046153 original size:23 final size:23
Alignment explanation
Indices: 62046127--62046202 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
62046117 ATAAGTGCAA
62046127 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
62046150 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
62046173 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
62046196 CACTGAT
1 CACTGAT
62046203 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:62048403 original size:12 final size:12
Alignment explanation
Indices: 62048386--62048411 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62048376 CATGGTTAAA
62048386 CAAGTCAGTGAC
1 CAAGTCAGTGAC
62048398 CAAGTCAGTGAC
1 CAAGTCAGTGAC
62048410 CA
1 CA
62048412 TAACGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (12 bp):
CAAGTCAGTGAC
Found at i:62058878 original size:16 final size:16
Alignment explanation
Indices: 62058839--62058901 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 16
62058829 TCACATTAGA
*
62058839 AATATAATTAGTTAGTT
1 AATATAATTA-TTTGTT
*
62058856 AA-GTAATTATTTGTT
1 AATATAATTATTTGTT
**
62058871 AATATAATT-TTTGCC
1 AATATAATTATTTGTT
*
62058886 AAAATAATTATTTGTT
1 AATATAATTATTTGTT
62058902 GACATAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
15 19 0.53
16 15 0.42
17 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (16 bp):
AATATAATTATTTGTT
Found at i:62059667 original size:23 final size:23
Alignment explanation
Indices: 62059614--62059667 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
62059604 TAATTAAATT
*
62059614 ATTTTTGTAATTAATAAAAAAATAA
1 ATTTTT-T-ATTAATAAAAAAACAA
*
62059639 ATTTTTTATTAA-AAAAAAACCA
1 ATTTTTTATTAATAAAAAAACAA
*
62059661 ATCTTTT
1 ATTTTTT
62059668 CCACCCTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 14 0.54
23 5 0.19
24 1 0.04
25 6 0.23
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTTTTATTAATAAAAAAACAA
Found at i:62062661 original size:15 final size:15
Alignment explanation
Indices: 62062641--62062672 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62062631 CATTAAAACG
*
62062641 TATTATCTTTTTATT
1 TATTATCTTTCTATT
62062656 TATTATCTTTCTATT
1 TATTATCTTTCTATT
62062671 TA
1 TA
62062673 AAAATTAGAA
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:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTATCTTTCTATT
Found at i:62064716 original size:21 final size:22
Alignment explanation
Indices: 62064690--62064735 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
62064680 TTGTATTCAC
*
62064690 AAAAAATAATATTATTTATATTTA
1 AAAAAAT-A-ATTATATATATTTA
62064714 AAAAAATAAATTATATATATTT
1 AAAAAAT-AATTATATATATTT
62064736 TACTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAAATAATTATATATATTTA
Found at i:62064726 original size:23 final size:25
Alignment explanation
Indices: 62064673--62064735 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
62064663 TATTAAATTT
* *
62064673 ATATTATTTGTATTCACAAAAAATA
1 ATATTATTTATATTTACAAAAAATA
62064698 ATATTATTTATATTTA-AAAAAATA
1 ATATTATTTATATTTACAAAAAATA
*
62064722 A-ATTATATATATTT
1 ATATTATTTATATTT
62064736 TACTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 12 0.34
24 9 0.26
25 14 0.40
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (25 bp):
ATATTATTTATATTTACAAAAAATA
Found at i:62068667 original size:3 final size:3
Alignment explanation
Indices: 62068659--62068686 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
62068649 AGAGCTTCTA
62068659 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
62068687 TGTCTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:62074245 original size:10 final size:10
Alignment explanation
Indices: 62074211--62074249 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
62074201 ATTGTCCATT
62074211 TTTAATATAA
1 TTTAATATAA
*
62074221 TCT-ATATATA
1 TTTAATATA-A
62074231 TTTAATATAA
1 TTTAATATAA
62074241 TTTAATATA
1 TTTAATATA
62074250 GACATCCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATATAA
Done.