Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 185 of 320
Found at i:61296963 original size:16 final size:15
Alignment explanation
Indices: 61296928--61296970 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
61296918 AATGAATCAG
61296928 CAAAAG-CGAAAATGC
1 CAAAAGCCG-AAATGC
*
61296943 CAAAAGCTGAAATGC
1 CAAAAGCCGAAATGC
61296958 CGAAAAGCCGAAA
1 C-AAAAGCCGAAA
61296971 GTTGGGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (15 bp):
CAAAAGCCGAAATGC
Found at i:61297251 original size:29 final size:29
Alignment explanation
Indices: 61297186--61297294 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
61297176 GCATGAGTAT
* * *
61297186 AATATGATTTGGGCCTAATGGGCAATATA-
1 AATATGAATTGGGCCTAGTGGGCCATA-AG
**
61297215 AAGGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATAAG
**
61297244 AATATGAATTGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATAAG
*
61297273 AATAAG-ATTGGGCCTAGTGGGC
1 AATATGAATTGGGCCTAGTGGGC
61297295 TATATGCATG
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 16 0.24
29 51 0.76
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATAAG
Found at i:61304788 original size:19 final size:19
Alignment explanation
Indices: 61304756--61304802 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
61304746 ACTTGGGTTG
* *
61304756 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
61304775 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
61304794 TG-ATGGGCT
1 AGAATGGGCT
61304803 GTTGGCCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:61306056 original size:17 final size:18
Alignment explanation
Indices: 61306023--61306057 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61306013 TTTTAAGAAG
61306023 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
61306041 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
61306058 TTCAATGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:61309026 original size:48 final size:48
Alignment explanation
Indices: 61308962--61309196 Score: 256
Period size: 48 Copynumber: 4.9 Consensus size: 48
61308952 GGTTATGTGT
* * *
61308962 GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGA
* * * ***
61309010 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCAATAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGA
* ** * * *
61309057 CGAGCCAGTGTAAGACCATGTTTGAAACATGGTATCGGTATTGTTATGT
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGA
* * * *
61309106 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGACACTGATGTATGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-T-TATGA
*
61309156 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
61309197 TTACCCTTTT
Statistics
Matches: 151, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 106 0.70
49 1 0.01
50 43 0.28
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGA
Found at i:61309126 original size:96 final size:96
Alignment explanation
Indices: 61308962--61309135 Score: 294
Period size: 96 Copynumber: 1.8 Consensus size: 96
61308952 GGTTATGTGT
* *
61308962 GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAATGTAAGACCATGTTTGAAACATGGCATCGGCATTGTTATGAGAGCCAGTGTAAGACCA
61309027 TGTCTGGGACATGGCATTGGCCTCAATATAC
66 TGTCTGGGACATGGCATTGGCCTCAATATAC
* * * *
61309058 GAGCCAGTGTAAGACCATGTTTGAAACATGGTATCGGTATTGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAATGTAAGACCATGTTTGAAACATGGCATCGGCATTGTTATGAGAGCCAGTGTAAGACCA
61309123 TGTCTGGGACATG
66 TGTCTGGGACATG
61309136 ACATCGACAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (96 bp):
GAGCCAATGTAAGACCATGTTTGAAACATGGCATCGGCATTGTTATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATTGGCCTCAATATAC
Found at i:61313288 original size:93 final size:93
Alignment explanation
Indices: 61313160--61313331 Score: 258
Period size: 93 Copynumber: 1.8 Consensus size: 93
61313150 GCCCATAAGT
* *
61313160 GAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGAA-TCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTC-GAACTCAACTCA
61313224 ACGAGCTCGGATGCCTAGTTACATTTCTC
65 ACGAGCTCGGATGCCTAGTTACATTTCTC
* * *
61313253 GAACTTGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTTA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
61313317 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
61313332 CAAATATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 5 0.07
93 66 0.93
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCTC
Found at i:61313327 original size:46 final size:45
Alignment explanation
Indices: 61313152--61313326 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
61313142 TGTAACCCGC
* * *
61313152 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTC-GGCATTCGCAT
*
61313198 CCATAAGTGAACTCGGAA-TCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTC-GAACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * * *
61313244 ACATTTCTCGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGAACTCAACTCAACGAGCTCGG-CATTCGCAT
* *
61313291 CCATAAGTGAACTCGAACTCAACTTAACGAGTTCGG
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG
61313327 ATGCCCAAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.60
47 29 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:61315788 original size:25 final size:26
Alignment explanation
Indices: 61315760--61315819 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
61315750 CAACTTGCAT
61315760 GAGCTTATCGA-TATTCAGCTCGGAG
1 GAGCTTATCGATTATTCAGCTCGGAG
* *
61315785 GAGCTTA-CCATTATTCAGGTCGGAG
1 GAGCTTATCGATTATTCAGCTCGGAG
61315810 GAGCTTATCG
1 GAGCTTATCG
61315820 TTTACATCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.07
25 27 0.90
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (26 bp):
GAGCTTATCGATTATTCAGCTCGGAG
Found at i:61317911 original size:40 final size:40
Alignment explanation
Indices: 61317865--61318028 Score: 206
Period size: 40 Copynumber: 4.1 Consensus size: 40
61317855 CGGGATTTAA
61317865 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
* *
61317905 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
* * *
61317945 CCGGATATAATC-GCT-AGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGTCTTAGC
* * * * *
61317985 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
61318025 CCGG
1 CCGG
61318029 TTATCATCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
Found at i:61320230 original size:26 final size:27
Alignment explanation
Indices: 61320180--61320232 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
61320170 GATCAGTCAC
*
61320180 ATAAATGGTACTAAATGGTATGTTTTG
1 ATAAATGGTACTAAATGGTAAGTTTTG
* *
61320207 ATAAAT-GTCCTACATGGTAAGTTTTG
1 ATAAATGGTACTAAATGGTAAGTTTTG
61320233 GTACAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
ATAAATGGTACTAAATGGTAAGTTTTG
Found at i:61328625 original size:40 final size:40
Alignment explanation
Indices: 61328570--61328836 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
61328560 GAGCATTGGA
* *
61328570 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
61328610 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
61328650 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
61328690 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
61328730 ATATATCCGGGCT-AGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
61328769 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
61328809 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
61328837 ATGTGTTGCG
Statistics
Matches: 222, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 39 0.18
40 183 0.82
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:61336609 original size:40 final size:40
Alignment explanation
Indices: 61336554--61336860 Score: 535
Period size: 40 Copynumber: 7.7 Consensus size: 40
61336544 GAGCATTGGA
*
61336554 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61336594 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61336634 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61336674 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
61336714 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
61336754 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
61336794 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
61336834 ATATGT-CGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
61336861 ATGTGGTTGC
Statistics
Matches: 259, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 21 0.08
40 238 0.92
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:61349347 original size:24 final size:24
Alignment explanation
Indices: 61349274--61349351 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
61349264 GGACTCACCA
* *
61349274 CAGCTCGTATGAGCTTACCAATATGT
1 CAGCTCGTAAGAGCTTACC-AT-TTT
*
61349300 CAGCTCGTAAGAGCTTACTATTTT
1 CAGCTCGTAAGAGCTTACCATTTT
* *
61349324 CAGCTCGTCAGAGCTTACCGTTTT
1 CAGCTCGTAAGAGCTTACCATTTT
61349348 -AGCT
1 CAGCT
61349352 TAATAGAGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 4 0.09
24 23 0.50
25 2 0.04
26 17 0.37
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACCATTTT
Found at i:61354520 original size:30 final size:30
Alignment explanation
Indices: 61354486--61354545 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61354476 ATTTAATACG
*
61354486 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
61354516 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
61354546 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:61359807 original size:21 final size:21
Alignment explanation
Indices: 61359783--61359824 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61359773 TCATCAGATT
*
61359783 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
61359804 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
61359825 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:61372862 original size:29 final size:29
Alignment explanation
Indices: 61372795--61372919 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
61372785 AAGTCTACAT
* *
61372795 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
61372823 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
61372852 ACATTCGTATGGCCCATTAGGCGCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
61372881 ACATTCATACGACCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
61372910 GCATTCATAT
1 ACATTCATAT
61372920 ACATGCTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 21 0.25
29 62 0.75
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:61379599 original size:18 final size:18
Alignment explanation
Indices: 61379576--61379611 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61379566 GTTTAAATGG
*
61379576 TTAGTTTGAGAAAGAGGA
1 TTAGTTTGAGAAAAAGGA
61379594 TTAGTTTGAGAAAAAGGA
1 TTAGTTTGAGAAAAAGGA
61379612 CTAAATCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.28
Consensus pattern (18 bp):
TTAGTTTGAGAAAAAGGA
Found at i:61380816 original size:25 final size:25
Alignment explanation
Indices: 61380786--61380850 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
61380776 GTTTACCATT
*
61380786 TCAGCTCAATAGAGCTTACT-ATCCA
1 TCAGCTCAAAAGAGCTTACTGAT-CA
* * *
61380811 TCAGCTTAGGAGGAGCTTACTGATCA
1 TCAGCTCA-AAAGAGCTTACTGATCA
61380837 T-AGCTCAAAAGAGC
1 TCAGCTCAAAAGAGC
61380851 GAAAATGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
24 5 0.16
25 12 0.39
26 12 0.39
27 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
TCAGCTCAAAAGAGCTTACTGATCA
Found at i:61381006 original size:19 final size:19
Alignment explanation
Indices: 61380982--61381036 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
61380972 TATGTGTTCA
61380982 GATGAATTACTGTTATATG
1 GATGAATTACTGTTATATG
* *
61381001 GATGAAGTACTGTTTAAATG
1 GATGAATTACTG-TTATATG
* *
61381021 GATGAGTTACTATTAT
1 GATGAATTACTGTTAT
61381037 CTAATGGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (19 bp):
GATGAATTACTGTTATATG
Found at i:61381023 original size:20 final size:19
Alignment explanation
Indices: 61380982--61381025 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
61380972 TATGTGTTCA
* *
61380982 GATGAATTACTGTTATATG
1 GATGAAGTACTGTTAAATG
61381001 GATGAAGTACTGTTTAAATG
1 GATGAAGTACTG-TTAAATG
61381021 GATGA
1 GATGA
61381026 GTTACTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (19 bp):
GATGAAGTACTGTTAAATG
Found at i:61388361 original size:27 final size:27
Alignment explanation
Indices: 61388150--61388361 Score: 257
Period size: 27 Copynumber: 7.9 Consensus size: 27
61388140 ATTACCAAAG
* *
61388150 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
61388177 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
61388204 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
61388231 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
61388258 TACCCTTGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
61388285 TACCCTTGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
61388312 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
61388339 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
61388362 AAAATACCCT
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 165 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:61388369 original size:27 final size:27
Alignment explanation
Indices: 61388339--61388642 Score: 192
Period size: 27 Copynumber: 11.2 Consensus size: 27
61388329 ATTACTGTTT
**
61388339 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
61388366 TACCCTAG-TCTGTAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
61388392 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
61388419 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
61388446 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAAAA
* * *
61388473 TACCACT-GGTTTGTGAAATTA-TCGAAA
1 TACC-CTCGATTTGTAAAATTACT-AAAA
* *
61388500 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
** *
61388527 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTGTAAAATTACTA-AAA
* *
61388554 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTGT-AAAATTACTA-AAA
* * * **
61388583 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * * * *
61388610 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
*
61388637 CACCCT
1 TACCCT
61388643 TGTAGGATGA
Statistics
Matches: 222, Mismatches: 39, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
26 29 0.13
27 165 0.74
28 10 0.05
29 18 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:61388371 original size:81 final size:81
Alignment explanation
Indices: 61388150--61388359 Score: 285
Period size: 81 Copynumber: 2.6 Consensus size: 81
61388140 ATTACCAAAG
* * * * *
61388150 TACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTATCGTTTTACCCCCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATT
*
61388215 TACATAATTACCGTTT
66 TACAGAATTACCGTTT
* * * *
61388231 TACCCTCGACTTACAGAATTACTGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATT
* **
61388296 TATAGAATTATTGTTT
66 TACAGAATTACCGTTT
* *
61388312 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
61388360 CTAAAATACC
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:61388450 original size:54 final size:52
Alignment explanation
Indices: 61388353--61388642 Score: 213
Period size: 54 Copynumber: 5.3 Consensus size: 52
61388343 CTCGATTTAC
* * *
61388353 AAAATTACTAAAATACCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTAC-AAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
** * *
61388406 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACA-AAATACCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * * ***
61388460 AAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGT
1 AAAATTA-CAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* ** * * *
61388514 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTA-CAAAATA-CCCTGGTTTGTAAAATTACCA-AAATACCCTTG-GTTTGT
* * ** *
61388569 AAAAATTATAGAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGGTTTGT
1 -AAAATTACA-AAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * *
61388624 AGATTTACCAAAACACCCT
1 AAAATTA-CAAAATACCCT
61388643 TGTAGGATGA
Statistics
Matches: 190, Mismatches: 35, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 19 0.10
54 115 0.61
55 18 0.09
56 36 0.19
57 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (52 bp):
AAAATTACAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
Found at i:61388484 original size:81 final size:81
Alignment explanation
Indices: 61388339--61388533 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
61388329 ATTACTGTTT
* ** * *
61388339 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTACTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
61388403 TGTAAAATTA-CAGAAA
66 TGTAAAATTATC-GAAA
*
61388419 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
*
61388483 TTGTGAAATTATCGAAA
65 TTGTAAAATTATCGAAA
61388500 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
61388534 GATTTACAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
80 25 0.24
81 78 0.74
82 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTATCGAAA
Found at i:61388555 original size:81 final size:81
Alignment explanation
Indices: 61388339--61388586 Score: 285
Period size: 81 Copynumber: 3.0 Consensus size: 81
61388329 ATTACTGTTT
* ** * *
61388339 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAG-TCTGTAAAATTACTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGAT-TGTAAAATTACCAAAATACCCTTGGT
61388402 TTGTAAAATTACAGAAA
65 TTGTAAAATTACAGAAA
*
61388419 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACC-CTTGGT
*
61388483 TTGTGAAATTATC-GAAA
65 TTGTAAAATTA-CAGAAA
61388500 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCCTTG
* * *
61388562 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
61388583 TACC
1 TACC
61388587 ATTGGTTTAC
Statistics
Matches: 146, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
79 2 0.01
80 34 0.23
81 89 0.61
82 7 0.05
83 14 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:61388698 original size:27 final size:27
Alignment explanation
Indices: 61388666--61388734 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
61388656 GACTAAAATA
*
61388666 CCCCTATTA-GGTAAAAAGACCGTAAGG
1 CCCCTA-TAGGGTAAAAAGACCGTAAAG
*
61388693 CCCCTATAGGGTAAAGAGACCGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
*
61388720 CCCCTGTAGGGTAAA
1 CCCCTATAGGGTAAA
61388735 GTGACCGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:61388735 original size:27 final size:27
Alignment explanation
Indices: 61388675--61388761 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
61388665 ACCCCTATTA
* * *
61388675 GGTAAAAAGACCGTAAGGCCCCTATAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
61388702 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
* * *
61388729 GGTAAAGTGACCGGAATA-CCCCTGTAT
1 GGTAAAGAGACCGTAA-AGCCCCTGTAG
61388756 GGTAAA
1 GGTAAA
61388762 ATGACGAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Found at i:61389956 original size:25 final size:24
Alignment explanation
Indices: 61389923--61389970 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
61389913 TTATAACATG
* * *
61389923 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
61389947 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
61389971 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:61390021 original size:9 final size:9
Alignment explanation
Indices: 61390009--61390065 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61389999 TTTGATAAAC
61390009 ATGATATGT
1 ATGATATGT
*
61390018 ATGATATGCAC
1 ATGATATG--T
*
61390029 ATGACATGT
1 ATGATATGT
*
61390038 ATGATATGCAC
1 ATGATATG--T
61390049 ATGATATGT
1 ATGATATGT
61390058 ATGATATG
1 ATGATATG
61390066 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:61390032 original size:20 final size:20
Alignment explanation
Indices: 61390007--61390077 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
61389997 ATTTTGATAA
61390007 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61390027 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61390047 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61390067 ACATGAGATGT
1 ACATGATATGT
61390078 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61390054 original size:11 final size:11
Alignment explanation
Indices: 61390018--61390072 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61390008 CATGATATGT
61390018 ATGATATGCAC
1 ATGATATGCAC
* *
61390029 ATGACATG--T
1 ATGATATGCAC
61390038 ATGATATGCAC
1 ATGATATGCAC
*
61390049 ATGATATG--T
1 ATGATATGCAC
61390058 ATGATATGCAC
1 ATGATATGCAC
61390069 ATGA
1 ATGA
61390073 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61390179 original size:24 final size:24
Alignment explanation
Indices: 61390122--61390271 Score: 196
Period size: 24 Copynumber: 6.3 Consensus size: 24
61390112 GGAAGAAGTG
*
61390122 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61390146 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61390169 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61390193 CAAAAGGGCTTACGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61390217 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
61390240 TAAAAGGGATTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61390264 TAAAAGGG
1 CAAAAGGG
61390272 GCTAGGCCTC
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 41 0.37
24 70 0.63
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61390191 original size:47 final size:47
Alignment explanation
Indices: 61390122--61390271 Score: 203
Period size: 47 Copynumber: 3.2 Consensus size: 47
61390112 GGAAGAAGTG
61390122 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
61390169 CAAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTACGCCCCAATTAT
1 CAAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* * * *
61390217 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGATTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATT-AAAGGGCTTATGCCCCAGTTAT
*
61390264 TAAAAGGG
1 CAAAAGGG
61390272 GCTAGGCCTC
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 63 0.71
48 26 0.29
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:61390238 original size:71 final size:71
Alignment explanation
Indices: 61390122--61390271 Score: 228
Period size: 71 Copynumber: 2.1 Consensus size: 71
61390112 GGAAGAAGTG
* * * * *
61390122 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCT
1 CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
61390187 AGTTAT
66 AGTTAT
* *
61390193 CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGATTTTGCCCC
1 CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
61390258 AGTTAT
66 AGTTAT
*
61390264 TAAAAGGG
1 CAAAAGGG
61390272 GCTAGGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
AGTTAT
Found at i:61392160 original size:24 final size:24
Alignment explanation
Indices: 61392115--61392185 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
61392105 CTATCATATG
* *
61392115 AGTCGATATTGGCACTAAGTGTGCGG
1 AGTCGA-A-TGGCACTATGTGTGCGA
* *
61392141 ATTTGAATGGCACTATGTGTGCGA
1 AGTCGAATGGCACTATGTGTGCGA
61392165 AGTCGAATGGCACTATGTGTG
1 AGTCGAATGGCACTATGTGTG
61392186 TCGGCTTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 34 0.87
25 1 0.03
26 4 0.10
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (24 bp):
AGTCGAATGGCACTATGTGTGCGA
Found at i:61392196 original size:24 final size:22
Alignment explanation
Indices: 61392124--61392196 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 22
61392114 GAGTCGATAT
*
61392124 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGG--TTGAA
*
61392148 TGGCACTATGTGTGCGAAGTCGAA
1 TGGCACTATGTGTGCG--GTTGAA
61392172 TGGCACTATGTGTGTCGGCTTGAA
1 TGGCACTATGTGTG-CGG-TTGAA
61392196 T
1 T
61392197 ATCAATACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.02
24 38 0.90
25 2 0.05
26 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (22 bp):
TGGCACTATGTGTGCGGTTGAA
Found at i:61394871 original size:19 final size:20
Alignment explanation
Indices: 61394847--61394885 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
61394837 TCCCATTATT
61394847 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
61394866 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
61394886 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:61394903 original size:25 final size:23
Alignment explanation
Indices: 61394847--61394921 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 23
61394837 TCCCATTATT
*
61394847 TATTTATTTTT-TGTTTT-AA--
1 TATTTATTTTTATATTTTAAATG
*
61394866 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
61394889 TATTTGATTTATTATATTTTAAA-G
1 TATTT-ATTT-TTATATTTTAAATG
*
61394913 TTTTTATTT
1 TATTTATTT
61394922 AATAAAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.23
20 6 0.12
21 2 0.04
23 9 0.19
24 9 0.19
25 11 0.23
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:61395233 original size:24 final size:24
Alignment explanation
Indices: 61395205--61395250 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61395195 TATACGTGGA
61395205 ATTTAATTTTTATACTTTTTAAGG
1 ATTTAATTTTTATACTTTTTAAGG
* *
61395229 ATTTAATTTTTCTATTTTTTAA
1 ATTTAATTTTTATACTTTTTAA
61395251 ATTTAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTAATTTTTATACTTTTTAAGG
Found at i:61400762 original size:26 final size:26
Alignment explanation
Indices: 61400733--61400784 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
61400723 GTTAAAAAGA
61400733 AATAGATCCATTTCTATGGTCATAGT
1 AATAGATCCATTTCTATGGTCATAGT
61400759 AATAGATCCATTTCTATGGTCATAGT
1 AATAGATCCATTTCTATGGTCATAGT
61400785 CTCCTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (26 bp):
AATAGATCCATTTCTATGGTCATAGT
Found at i:61406762 original size:23 final size:23
Alignment explanation
Indices: 61406735--61406800 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
61406725 AGACAACATT
* * * *
61406735 GAATACACTACATAGGCATTGTA
1 GAATACACCACAAAAGCATTATA
61406758 GAATACACCACAAAAGCATTATA
1 GAATACACCACAAAAGCATTATA
*
61406781 GAATA-AGCCACATAAGCATT
1 GAATACA-CCACAAAAGCATT
61406801 GCAAAATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (23 bp):
GAATACACCACAAAAGCATTATA
Found at i:61406815 original size:46 final size:46
Alignment explanation
Indices: 61406744--61406900 Score: 192
Period size: 46 Copynumber: 3.4 Consensus size: 46
61406734 TGAATACACT
* * * *
61406744 ACATAGGCATTGTAGAATACACCACAAAAGCATTATAGAATAAGCC
1 ACATAGGCATTGCAAAATACGCCACAAAAGCATTACAGAATAAGCC
* * *
61406790 ACATAAGCATTGCAAAATATGCCACAAAAGAATTACATG-ATAAGCC
1 ACATAGGCATTGCAAAATACGCCACAAAAGCATTACA-GAATAAGCC
* * *
61406836 ACATAGGCATTTCAAAATACGCCAC-AAAGCATTACAAAATATGCC
1 ACATAGGCATTGCAAAATACGCCACAAAAGCATTACAGAATAAGCC
*
61406881 ACATAGGCATTGCAGAATAC
1 ACATAGGCATTGCAAAATAC
61406901 TCCATAATGG
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 34 0.36
46 59 0.63
47 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (46 bp):
ACATAGGCATTGCAAAATACGCCACAAAAGCATTACAGAATAAGCC
Found at i:61406935 original size:23 final size:23
Alignment explanation
Indices: 61406759--61406954 Score: 135
Period size: 23 Copynumber: 8.6 Consensus size: 23
61406749 GGCATTGTAG
* * * *
61406759 AATACACCACAAAAGCATTATAG
1 AATACGCCACAAAGGCATTACAA
* *
61406782 AATAAGCCACATAA-GCATTGCAA
1 AATACGCCACA-AAGGCATTACAA
* * * *
61406805 AATATGCCACAAAAGAATTACAT
1 AATACGCCACAAAGGCATTACAA
* * * *
61406828 GATAAGCCACATAGGCATTTCAA
1 AATACGCCACAAAGGCATTACAA
61406851 AATACGCCACAAA-GCATTACAA
1 AATACGCCACAAAGGCATTACAA
* * * *
61406873 AATATGCCACATAGGCATTGCAG
1 AATACGCCACAAAGGCATTACAA
* * * *
61406896 AATACTCCATAATGGCATTAAAA
1 AATACGCCACAAAGGCATTACAA
* * *
61406919 AATACGCTACAAAGGCATTATAG
1 AATACGCCACAAAGGCATTACAA
*
61406942 AATATGCCACAAA
1 AATACGCCACAAA
61406955 AGCTTCACAA
Statistics
Matches: 130, Mismatches: 40, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
22 21 0.16
23 107 0.82
24 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.20
Consensus pattern (23 bp):
AATACGCCACAAAGGCATTACAA
Found at i:61409603 original size:15 final size:15
Alignment explanation
Indices: 61409582--61409616 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
61409572 ACTCTTTAAG
61409582 CTTTAGTTTAATGCA
1 CTTTAGTTTAATGCA
* *
61409597 TTTTAGTTTATTGCA
1 CTTTAGTTTAATGCA
61409612 CTTTA
1 CTTTA
61409617 AATCTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (15 bp):
CTTTAGTTTAATGCA
Found at i:61416013 original size:46 final size:46
Alignment explanation
Indices: 61415871--61416083 Score: 177
Period size: 46 Copynumber: 4.5 Consensus size: 46
61415861 TAAACTGCTA
* * * * **
61415871 ATGCCATGTCCCAAACATGGTCTTACACAGGCTCTAGCATATCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-G-ACTA-CGTCTC-AAGCCG
* * *
61415921 ATGCCATGTCCCAGACATGGTCTTACGCTGAC-ACATCTCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGACTACGTCTCA-AGCCG
*
61415967 ATG-CATGTCCCAGACAT-GTCTTACACAGACTTACGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGAC-TACGTCTC-AAGCCG
* * *
61416013 ATG-CATGTCCTAGAAAT-GTCTTACACTAGCACT-CGTCCCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AG-ACTACGTCTCAA-GCCG
61416059 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
61416084 GACTAGCTCT
Statistics
Matches: 137, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 58 0.42
47 17 0.12
48 9 0.07
49 1 0.01
50 26 0.19
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGACTACGTCTCAAGCCG
Found at i:61420078 original size:35 final size:35
Alignment explanation
Indices: 61420038--61420196 Score: 165
Period size: 35 Copynumber: 4.5 Consensus size: 35
61420028 GTATGTACAT
61420038 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
61420073 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
61420108 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
61420143 ATATGATGACATATTGCACTTGTATATTTAGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* *
61420178 ATGTGATGACATAATGAAC
1 ATGTGATGATATATTGAAC
61420197 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:61439535 original size:46 final size:44
Alignment explanation
Indices: 61439430--61439647 Score: 170
Period size: 46 Copynumber: 4.7 Consensus size: 44
61439420 GCATATCAGT
* * * *
61439430 GCCGATGCCATGTCCCAGACATGGTCTTACGCTGACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTCGTCTCG-AG
*
61439476 GCCAATGCATGTCCCAGACATGTCTTACACTAACTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAAC-T-CGTCTCGAG
* * * *
61439522 GCCGATGCATGTCCTAGACATGTTTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTA--ACTCGTCTCGAG
* * * ** * *
61439568 GCCGATGCCATGTCCCATACATGGCCTTACATTGGCTC-TCCTAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTCGT-CT--CGAG
61439616 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
61439648 GCTCACAATA
Statistics
Matches: 137, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 68 0.50
47 26 0.19
48 16 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACTCGTCTCGAG
Found at i:61445323 original size:20 final size:21
Alignment explanation
Indices: 61445291--61445329 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
61445281 CTGCATTTTG
61445291 AAAATTTTCATAT-TTTCCCT
1 AAAATTTTCATATGTTTCCCT
61445311 AAAA-TTTCTATATGTTTCC
1 AAAATTTTC-ATATGTTTCC
61445330 AATTTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (21 bp):
AAAATTTTCATATGTTTCCCT
Found at i:61447505 original size:79 final size:78
Alignment explanation
Indices: 61447405--61447627 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
61447395 GCTCCTCGTT
* * *
61447405 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
61447470 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
61447485 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
61447548 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
61447563 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
61447626 GA
63 GA
61447628 CACATTCAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 19 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:61447522 original size:39 final size:40
Alignment explanation
Indices: 61447405--61447627 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
61447395 GCTCCTCGTT
* * *
61447405 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61447445 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61447485 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
61447524 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
61447563 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
61447604 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61447628 CACATTCAAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:61469399 original size:7 final size:7
Alignment explanation
Indices: 61469387--61469413 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
61469377 TAATTTTAAA
61469387 ATAATAT
1 ATAATAT
61469394 ATAATAT
1 ATAATAT
61469401 ATAATAT
1 ATAATAT
61469408 ATAATA
1 ATAATA
61469414 ACAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:61469826 original size:20 final size:20
Alignment explanation
Indices: 61469709--61469875 Score: 102
Period size: 20 Copynumber: 8.3 Consensus size: 20
61469699 AAAACTTTTG
*
61469709 ATAATA-ATAATATAGATAA
1 ATAATATATAATATATATAA
* *
61469728 AAAATATATAGTAGTATA-AA
1 ATAATATATAATA-TATATAA
*
61469748 A-AATGACATAATA-ATATAA
1 ATAAT-ATATAATATATATAA
61469767 ATAA-ATATAATATATAATACGA
1 ATAATATATAATATAT-ATA--A
* *
61469789 A-AGTATAT-ATGTA-A-AA
1 ATAATATATAATATATATAA
61469805 ATAATATATAATATATATAA
1 ATAATATATAATATATATAA
*
61469825 ATAATATGAATAATAAATAATCAA
1 ATAATAT--ATAATATAT-AT-AA
61469849 ATAATTATATAATATAATATAA
1 ATAA-TATATAATAT-ATATAA
61469871 A-AATA
1 ATAATA
61469876 AGATTAAAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 39
0.69 0.07 0.23
Matches are distributed among these distances:
16 2 0.02
17 6 0.05
18 15 0.13
19 15 0.13
20 30 0.26
21 10 0.09
22 17 0.15
23 10 0.09
24 8 0.07
25 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAATATATAATATATATAA
Found at i:61469852 original size:8 final size:7
Alignment explanation
Indices: 61469803--61469876 Score: 55
Period size: 7 Copynumber: 10.3 Consensus size: 7
61469793 ATATATGTAA
61469803 AAATAAT
1 AAATAAT
*
61469810 ATATAAT
1 AAATAAT
*
61469817 ATAT-AT
1 AAATAAT
61469823 AAATAAT
1 AAATAAT
61469830 ATGAATAAT
1 A--AATAAT
61469839 AAATAAT
1 AAATAAT
61469846 CAAATAATT
1 -AAATAA-T
*
61469855 ATATAAT
1 AAATAAT
61469862 ATAAT-AT
1 A-AATAAT
61469869 AAA-AAT
1 AAATAAT
61469875 AA
1 AA
61469877 GATTAAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
6 11 0.20
7 24 0.43
8 13 0.23
9 8 0.14
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (7 bp):
AAATAAT
Found at i:61469859 original size:45 final size:44
Alignment explanation
Indices: 61469803--61469897 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 44
61469793 ATATATGTAA
* *
61469803 AAATAATATATAATAT-ATATAAATAATATGAATAATAAAT-AATC
1 AAATAATATATAATATAATATAAA-AATAAGAATAA-AAATAAAAC
*
61469847 AAATAATTATATAATATAATATAAAAATAAGATTAAAAATAAAAC
1 AAATAA-TATATAATATAATATAAAAATAAGAATAAAAATAAAAC
61469892 AAATAA
1 AAATAA
61469898 AAAATTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 10 0.22
45 28 0.62
46 7 0.16
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (44 bp):
AAATAATATATAATATAATATAAAAATAAGAATAAAAATAAAAC
Found at i:61469867 original size:16 final size:15
Alignment explanation
Indices: 61469804--61469875 Score: 64
Period size: 16 Copynumber: 4.9 Consensus size: 15
61469794 TATATGTAAA
*
61469804 AATAATATATAATAT
1 AATAATAAATAATAT
61469819 -AT-ATAAATAATAT
1 AATAATAAATAATAT
61469832 GAATAATAAATAATCA-
1 -AATAATAAATAAT-AT
*
61469848 AATAATTATATAATAT
1 AATAA-TAAATAATAT
61469864 AAT-ATAAA-AATA
1 AATAATAAATAATA
61469876 AGATTAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
13 14 0.29
14 5 0.10
15 9 0.19
16 19 0.40
17 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (15 bp):
AATAATAAATAATAT
Found at i:61473686 original size:41 final size:40
Alignment explanation
Indices: 61473620--61473725 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 40
61473610 GTGCCATCCA
* *
61473620 TCGCACACTTAGTGCTATATATAGCCGAAGCTATCTCAAT
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAT
* * *
61473660 CTCGCACACTAAGTGCCATATGTAGCCGAAGCTATGTCGAT
1 -TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAT
* * *
61473701 TTGCACATTAAGTGCCACATATAGC
1 TCGCACACTAAGTGCCATATATAGC
61473726 TGATTTGTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 21 0.38
41 35 0.62
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAT
Found at i:61476501 original size:26 final size:27
Alignment explanation
Indices: 61476472--61476523 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
61476462 GACCCCAGTT
61476472 TGTAAAATCACCAAAATA-CCCTGTAG
1 TGTAAAATCACCAAAATACCCCTGTAG
* **
61476498 TGTAAAATGACCGTAATACCCCTGTA
1 TGTAAAATCACCAAAATACCCCTGTA
61476524 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (27 bp):
TGTAAAATCACCAAAATACCCCTGTAG
Found at i:61476902 original size:21 final size:21
Alignment explanation
Indices: 61476878--61476919 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
61476868 TATCCCTACA
* *
61476878 TGGTGTGTTGGTTGGTATGGG
1 TGGTGTATTGGTTGGAATGGG
61476899 TGGTGTATTGGTTGGAATGGG
1 TGGTGTATTGGTTGGAATGGG
61476920 CTGGGAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (21 bp):
TGGTGTATTGGTTGGAATGGG
Found at i:61477832 original size:22 final size:21
Alignment explanation
Indices: 61477807--61477855 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
61477797 TTGAAACTTG
* *
61477807 GTAAAAGGTATCGATACTTTTT
1 GTAAAA-GTATCGACACATTTT
*
61477829 GTAAAATTATCGACACATTTT
1 GTAAAAGTATCGACACATTTT
61477850 GTAAAA
1 GTAAAA
61477856 ATTCAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (21 bp):
GTAAAAGTATCGACACATTTT
Found at i:61477858 original size:22 final size:21
Alignment explanation
Indices: 61477815--61477855 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61477805 TGGTAAAAGG
* *
61477815 TATCGATACTTTTTGTAAAAT
1 TATCGACACATTTTGTAAAAT
61477836 TATCGACACATTTTGTAAAA
1 TATCGACACATTTTGTAAAA
61477856 ATTCAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATCGACACATTTTGTAAAAT
Found at i:61480065 original size:47 final size:48
Alignment explanation
Indices: 61479969--61480098 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 48
61479959 GTGTGAATAA
* * * **
61479969 TACCTTGATTTGACTATGGGCCATGGTATGGGTA-TTCAGAGAGGGGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGAGAGAAGT
* * *
61480016 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCCAG-GATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGAGAGAAGT
* *
61480063 TACCTTGATTTGGCTATAGGACATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
61480099 TATTGATTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (48 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGAGAGAAGT
Found at i:61482499 original size:27 final size:28
Alignment explanation
Indices: 61482448--61482532 Score: 127
Period size: 27 Copynumber: 3.0 Consensus size: 28
61482438 GTGATGGGTG
*
61482448 ATATGAATGTGATTGGGCCTCATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
61482476 ATATGAATGTG-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
61482503 ATATGAACGAGATTGGGCCTAAATGGGCC
1 ATATGAATGTGATTGGGCCT-AATGGGCC
61482532 A
1 A
61482533 AAGGAATAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 24 0.46
28 19 0.37
29 9 0.17
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:61483027 original size:107 final size:108
Alignment explanation
Indices: 61482837--61483336 Score: 514
Period size: 107 Copynumber: 4.7 Consensus size: 108
61482827 TAATAAAGAG
* * * *
61482837 AAATTACCGAAATACCC-CTAATTTGTAAAATTATCGAAGTACCCCCGATTTGTAAAATTA-TCG
1 AAATTACCGAAATACCCTC-GATTTGTAAAATTATTGAAATACCCCTGATTTGTAAAATTACT-G
* * *
61482900 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCCAATTTGTA
64 AAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTGTA
* * * *
61482945 AAATTACCGAAATA-CCTCGGTTTGTAAAATTATTGAAATATCTCTGATTTGTAAAATTACTAAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCCTGATTTGTAAAATTACTGAA
* * * * *
61483009 ATACCC-CCAGTTTATAAAATTACCTAAATACCCCTGGTTTGTA
66 ATACCCTCGA-TTTGTAAAATTACCAAAATACCCCCGATTTGTA
** * *
61483052 AAATTATTGAAATACCCTCGATTTGTAAAATTATCGAAATA-CCCTCGA-TTGTGAAATTACTGA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCCT-GATTTGTAAAATTACTGA
* * * *
61483115 AATACCCTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTG
65 AATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTGTA
* * * * * ** *
61483159 AAATTATCGAAACACCCTCGATTTGTGAAATTACTGAAACACCATTGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCCTGATTTGTAAAATTACTGAA
* * *
61483224 ATACCCTCGATTTGTAAAACT-CCCAAATACCCTCGATTTGTA
66 ATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTGTA
* * * * * * *
61483266 AAATTACTGAAACACCCCCGATTTGTAAAATTATTG-AATAACCTTG-TAGTGTAAAATTACCGA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCCTGAT-TTGTAAAATTACTGA
61483329 AATACCCT
65 AATACCCT
61483337 TGTAGTGAAA
Statistics
Matches: 329, Mismatches: 54, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
105 1 0.00
106 29 0.09
107 219 0.67
108 80 0.24
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (108 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAATACCCCTGATTTGTAAAATTACTGAA
ATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTGTA
Found at i:61483077 original size:134 final size:135
Alignment explanation
Indices: 61482837--61483336 Score: 536
Period size: 134 Copynumber: 3.7 Consensus size: 135
61482827 TAATAAAGAG
* * *
61482837 AAATTACCGAAATACCC-CTAATTTGTAAAATTATCGAAGTACCCCCGATTTGTAAAATTATCGA
1 AAATTACTGAAATACCCTC-GATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGA
* ** * *
61482901 AATACCCTTGGTTTGTAAAATTACCAAAATACCCCCAATTTGTAAAATTACCGAAATA-CCTCGG
65 AATACCCCTGGTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGG
61482965 TTTGTA
130 TTTGTA
* * * * *
61482971 AAATTATTGAAATA-TCTCTGATTTGTAAAATTA-CTAAAATACCCCC-AGTTTATAAAATTACC
1 AAATTACTGAAATACCCTC-GATTTGTAAAATTATC-GAAATACCCCCGA-TTTGTAAAATTATC
* * *
61483033 TAAATACCCCTGGTTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTC
63 GAAATACCCCTGGTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
* *
61483098 -GATTGTG
128 GGTTTGTA
* *
61483105 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTGAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAA
* * * * * * *
61483170 ACA-CCCTCGATTTGTGAAATTACTGAAACACCATTGATTTGTAAAATTACCGAAATACCCTCGA
66 ATACCCCT-GGTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGG
61483234 TTTGTA
130 TTTGTA
* ** * *
61483240 AAACT-CCCAAATACCCTCGATTTGTAAAATTA-CTGAAACACCCCCGATTTGTAAAATTATTG-
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCCCGATTTGTAAAATTATCGA
* * * *
61483302 AATA-ACCTTGTAGTGTAAAATTACCGAAATACCCT
65 AATACCCCTGGT-TTGTAAAATTACTGAAATACCCT
61483337 TGTAGTGAAA
Statistics
Matches: 302, Mismatches: 53, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
132 1 0.00
133 32 0.11
134 252 0.83
135 17 0.06
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (135 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAA
ATACCCCTGGTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGGT
TTGTA
Found at i:61483343 original size:27 final size:27
Alignment explanation
Indices: 61482837--61483336 Score: 480
Period size: 27 Copynumber: 18.7 Consensus size: 27
61482827 TAATAAAGAG
*
61482837 AAATTACCGAAATACCC-CTAATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
61482864 AAATTATCGAAGTACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61482891 AAATTATCGAAATACCCTTGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61482918 AAATTACCAAAATACCCCCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
61482945 AAATTACCGAAATA-CCTCGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
61482971 AAATTATTGAAATA-TCTCTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
** * *
61482998 AAATTACTAAAATACCC-CCAGTTTATA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* *
61483025 AAATTACCTAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
**
61483052 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
61483079 AAATTATCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
61483105 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
61483132 AAATTATCGAAATACCC-CTGATTTGTG
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
61483159 AAATTATCGAAACACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
61483186 AAATTACTGAAACACCATTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
61483213 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
61483240 AAACT-CCCAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61483266 AAATTACTGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * * *
61483293 AAATTATTG-AATAACCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
61483319 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
61483337 TGTAGTGAAA
Statistics
Matches: 392, Mismatches: 69, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 90 0.23
27 297 0.76
28 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:61484794 original size:79 final size:80
Alignment explanation
Indices: 61484693--61484839 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
61484683 TCCTCGTTCA
* * *
61484693 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
61484757 TTAACAACTCGCATG
66 TTAACAACTCGCATG
* * *
61484772 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
61484837 TTA
66 TTA
61484840 GTATCTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 34 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCATG
Found at i:61484848 original size:80 final size:79
Alignment explanation
Indices: 61484691--61484915 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
61484681 GCTCCTCGTT
* * * * *
61484691 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
61484756 TTTAACAACTCGCA
66 TTTAACAACTCGCA
** *
61484770 TGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
61484835 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * * *
61484850 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
61484914 GA
64 GA
61484916 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 37 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:61484850 original size:40 final size:40
Alignment explanation
Indices: 61484693--61484862 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
61484683 TCCTCGTTCA
* * * *
61484693 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
61484732 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCATG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
61484772 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
61484812 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
61484852 AAGGCCTTCGG
1 AATGCCTTCGG
61484863 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:61484875 original size:40 final size:40
Alignment explanation
Indices: 61484691--61484915 Score: 204
Period size: 40 Copynumber: 5.7 Consensus size: 40
61484681 GCTCCTCGTT
* * * * * *
61484691 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
61484731 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** *
61484770 TGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
61484810 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
61484850 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
61484891 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
61484916 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 113 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:61484924 original size:41 final size:41
Alignment explanation
Indices: 61484847--61484924 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61484837 TTAGTATCTC
* * *
61484847 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61484888 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61484925 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61492704 original size:40 final size:40
Alignment explanation
Indices: 61492522--61492744 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
61492512 TCCTCGTTCA
* * * * * *
61492522 AATGCCTTCAGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61492561 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61492601 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61492641 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
61492681 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61492721 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61492745 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61492753 original size:41 final size:41
Alignment explanation
Indices: 61492676--61492753 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61492666 TTAGTATCTC
* * *
61492676 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61492717 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61492754 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61501532 original size:47 final size:47
Alignment explanation
Indices: 61501477--61501606 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 47
61501467 GTGAGAATAA
* * *
61501477 TACCTTGATTTAGCTACAGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * * *
61501524 TACCTTGATTTGGCTACGGGCCTTGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGT
* ** *
61501571 TACCTTGATTGGGCTATTGGCCATGGTATAGCTACT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACT
61501607 TATCGATTTA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:61507227 original size:16 final size:18
Alignment explanation
Indices: 61507206--61507238 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
61507196 CATGCAAGCT
61507206 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
61507222 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
61507239 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:61507827 original size:43 final size:45
Alignment explanation
Indices: 61507764--61507982 Score: 288
Period size: 45 Copynumber: 5.0 Consensus size: 45
61507754 CTAAATTCAT
* * * *
61507764 TCACCGGTATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGT-ATC
*
61507806 TCACCGGCATTATAGCCTGCTAGGCTCGAATGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATC
*
61507851 TCACCGGCATT-TTGCCTGCTAGGCTCGAA-GCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATC
*
61507894 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATC
* * * *
61507939 TCACCGGCAGTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTAT
61507983 TGTGCGATAT
Statistics
Matches: 161, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
42 10 0.06
43 42 0.26
44 37 0.23
45 71 0.44
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATC
Found at i:61507919 original size:88 final size:88
Alignment explanation
Indices: 61507764--61507982 Score: 307
Period size: 88 Copynumber: 2.5 Consensus size: 88
61507754 CTAAATTCAT
* * *
61507764 TCACCGGTATTTCGCCTGCTAGGCTCGAAGCCCG-ATA-TCATTTCACCGGCATTATAGCCTGCT
1 TCACCGGCATTTAGCCTGCTAGGCTCGAAGCCCGAATAGT-ATCTCACCGGCATTATAGCCTGCT
* *
61507827 AGGCTCGAATGCCTGAATAGTATC
65 AGGCTCAAAGGCCTGAATAGTATC
* *
61507851 TCACCGGCATTTTGCCTGCTAGGCTCGAAGCCTGAATAGTATCTCACCGGCATTATAGCCTGCTA
1 TCACCGGCATTTAGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTA
61507916 GGCTCAAAGGCCTGAATAGTATC
66 GGCTCAAAGGCCTGAATAGTATC
* * *
61507939 TCACCGGCAGTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCA-TTTAGCCTGCTAGGCTCGAA-GCCCGAATAGTAT
61507983 TGTGCGATAT
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
87 31 0.26
88 57 0.49
89 17 0.15
90 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (88 bp):
TCACCGGCATTTAGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTA
GGCTCAAAGGCCTGAATAGTATC
Found at i:61508929 original size:47 final size:48
Alignment explanation
Indices: 61508783--61508929 Score: 246
Period size: 47 Copynumber: 3.1 Consensus size: 48
61508773 TTAAAATTTT
* *
61508783 CTTTAACTAAGTAACTTATCCGAAAATATTAAAAGCAAATTTAACAAG
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
*
61508831 C-TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAG
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
61508878 -TTTAACTAAGTAACTTATCCGGAAATATTAAGAGC-AATTTAACAAG
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
61508924 CTTTAA
1 CTTTAA
61508930 ATTCAACTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
46 11 0.12
47 81 0.87
48 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.31
Consensus pattern (48 bp):
CTTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
Found at i:61509544 original size:14 final size:14
Alignment explanation
Indices: 61509510--61509542 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
61509500 TAAAGCCATT
61509510 AAATTTAATAATGC
1 AAATTTAATAATGC
61509524 AAATTTAA-AATGC
1 AAATTTAATAATGC
*
61509537 ATATTT
1 AAATTT
61509543 TATTTATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATTTAATAATGC
Found at i:61513537 original size:40 final size:40
Alignment explanation
Indices: 61513354--61513576 Score: 244
Period size: 39 Copynumber: 5.7 Consensus size: 40
61513344 TTGAATGTTG
* *
61513354 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
61513393 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
61513433 TTCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
61513472 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61513511 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61513552 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61513577 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 89 0.56
40 61 0.38
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61513598 original size:79 final size:79
Alignment explanation
Indices: 61513406--61513609 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
61513396 GGACTAAGAT
** * * * *
61513406 CCGAAGGCATTTGTGCGAGAT-ACTAATTTCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
* *
61513469 AATTCCGGGCTAAGC
65 AATACCGAGCTAAGC
** *
61513484 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
61513548 -ATAACCGAGCTATGTC
65 AAT-ACCGAGCTAAG-C
* * *
61513564 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
61513610 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.34
79 45 0.42
80 25 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGAGCTAAGC
Found at i:61521382 original size:39 final size:40
Alignment explanation
Indices: 61521282--61521503 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
61521272 TTGAATGATG
*
61521282 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
61521320 ATCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
61521360 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
61521399 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
61521438 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
61521477 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
61521504 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
38 14 0.09
39 84 0.52
40 63 0.39
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:61521525 original size:79 final size:79
Alignment explanation
Indices: 61521333--61521536 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
61521323 CGACTAAGAT
** * *
61521333 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
61521396 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
61521411 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
61521475 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
61521491 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
61521537 TACGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 47 0.43
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:61525553 original size:27 final size:28
Alignment explanation
Indices: 61525515--61525574 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
61525505 CAGTTAACAT
* *
61525515 GGGTA-TTCCACCTAGACAATAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
*
61525542 GGGTAGTT-CACCAAGATAAGAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
61525569 GGGTAG
1 GGGTAG
61525575 CTTGCTGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (28 bp):
GGGTAGTTCCACCAAGACAAGAAACACG
Found at i:61538012 original size:33 final size:33
Alignment explanation
Indices: 61537970--61538035 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
61537960 ACCTTTATGC
* *
61537970 CTTAAATTGAAAATGATTTTTA-TATAGGGGGAG
1 CTTAAATTGAAAATGACTTTGACTA-AGGGGGAG
61538003 CTTAAATTGAAAATGACTTTGACTAAGGGGGAG
1 CTTAAATTGAAAATGACTTTGACTAAGGGGGAG
61538036 TAATCTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (33 bp):
CTTAAATTGAAAATGACTTTGACTAAGGGGGAG
Found at i:61541961 original size:40 final size:40
Alignment explanation
Indices: 61541917--61542067 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
61541907 TGATATAGCT
*
61541917 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
*
61541957 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
* *
61541997 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTATAGTA
*
61542037 ACTCGCACAATTGCCTTCGGG-CTTAGCCCGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGA
61542068 AATTAGTCAC
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.02
39 8 0.08
40 92 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
Found at i:61545781 original size:46 final size:46
Alignment explanation
Indices: 61545725--61545897 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 46
61545715 TGGTTGAGCA
*
61545725 TCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
61545771 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
61545816 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
61545864 -CTCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61545898 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 3 0.03
46 55 0.52
47 25 0.24
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61545881 original size:93 final size:93
Alignment explanation
Indices: 61545722--61545891 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
61545712 GGATGGTTGA
*
61545722 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCGTTGAGT
61545787 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* * * *
61545815 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTC-CGAACTCGTTGAG
61545879 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
61545892 CACTTAGGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:61552880 original size:46 final size:46
Alignment explanation
Indices: 61552830--61553095 Score: 287
Period size: 46 Copynumber: 5.7 Consensus size: 46
61552820 TGGTTGAGCA
61552830 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61552876 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61552921 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61552969 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61553014 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61553062 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61553096 GGGGCGAGTT
Statistics
Matches: 186, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 89 0.48
47 58 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61552986 original size:93 final size:93
Alignment explanation
Indices: 61552827--61553090 Score: 483
Period size: 93 Copynumber: 2.8 Consensus size: 93
61552817 GGATGGTTGA
61552827 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
61552892 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
61552920 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
61552985 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
61553013 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
61553078 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61553091 ACTTAGGGGC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61556533 original size:32 final size:32
Alignment explanation
Indices: 61556492--61556556 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
61556482 TCATGTAAAT
61556492 AATGAAATAACTACAAATTACCATAAGGGATC
1 AATGAAATAACTACAAATTACCATAAGGGATC
61556524 AATGAAATAACTACAAATTACCATAAGGGATC
1 AATGAAATAACTACAAATTACCATAAGGGATC
61556556 A
1 A
61556557 TACTCCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (32 bp):
AATGAAATAACTACAAATTACCATAAGGGATC
Found at i:61557069 original size:49 final size:49
Alignment explanation
Indices: 61556942--61557071 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 49
61556932 ACGTCAAAGT
* * *
61556942 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGC
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
61556991 TGATGTCGTGTCCCA-AAAGGTCTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTCTCATATATCGAG-GC
*
61557039 CGATGCCATGTCCCAGAGAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGAC
61557072 ACACAACAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
47 1 0.02
48 38 0.58
49 27 0.41
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGAAAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:61557155 original size:48 final size:48
Alignment explanation
Indices: 61557089--61557256 Score: 207
Period size: 48 Copynumber: 3.6 Consensus size: 48
61557079 AAGCTGACGC
* * *
61557089 CATGTCCCAAACAGGTCTTAGACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * * * * *
61557137 CATGTCCTAGACATGTCTTACACTAGC-TCT-CATCTTGATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* *
61557183 TATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
*
61557231 CATGTCCCA-ACATGTCTTTCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
61557257 ACACATATCA
Statistics
Matches: 98, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
46 36 0.37
47 19 0.19
48 43 0.44
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:61557155 original size:141 final size:138
Alignment explanation
Indices: 61556946--61557207 Score: 341
Period size: 141 Copynumber: 1.9 Consensus size: 138
61556936 CAAAGTCGAT
* * *
61556946 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGCTGATGTCGTGTCCCAAAAGG
1 GCCATGTCCCAAACAGGTCTTACACTGACTTTCATATCTCGAGGCTGATGTCATGTCCCAAAAGG
* * *
61557011 TCTTACACTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCAGAGAGGTCTTACACTGACACAC
66 TCTTACACTAGCTCTCATCT-T-GATGCCGATG-CATGTCCCAGACAGGTCTTACACTGACACAC
61557076 AACAAGCTGAC
128 AACAAGCTGAC
* * *
61557087 GCCATGTCCCAAACAGGTCTTAGACT-AGCTTGT-ATATCTCGAGGCTGATG-CATGTCCTAGAC
1 GCCATGTCCCAAACAGGTCTTACACTGA-CTT-TCATATCTCGAGGCTGATGTCATGTCCCA-AA
* * *
61557149 ATGTCTTACACTAGCTCTCATCTTGATGCCGATGTATGTCCCAGACATGTCTTACACTG
63 AGGTCTTACACTAGCTCTCATCTTGATGCCGATGCATGTCCCAGACAGGTCTTACACTG
61557208 GCTTGTATAT
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
138 22 0.21
139 9 0.08
140 9 0.08
141 65 0.61
142 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (138 bp):
GCCATGTCCCAAACAGGTCTTACACTGACTTTCATATCTCGAGGCTGATGTCATGTCCCAAAAGG
TCTTACACTAGCTCTCATCTTGATGCCGATGCATGTCCCAGACAGGTCTTACACTGACACACAAC
AAGCTGAC
Found at i:61559026 original size:23 final size:23
Alignment explanation
Indices: 61559000--61559043 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
61558990 TACAAAATGT
61559000 GCCACAAAGGCTATATAGAATAC
1 GCCACAAAGGCTATATAGAATAC
61559023 GCCACAAAGGCTATATAGAAT
1 GCCACAAAGGCTATATAGAAT
61559044 GCACCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (23 bp):
GCCACAAAGGCTATATAGAATAC
Found at i:61559054 original size:23 final size:23
Alignment explanation
Indices: 61559005--61559068 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
61558995 AATGTGCCAC
* * *
61559005 AAAGGCTATATAGAATACGCCAC
1 AAAGGCTATATAGAATGCACCAA
61559028 AAAGGCTATATAGAATGCACCAA
1 AAAGGCTATATAGAATGCACCAA
* * *
61559051 AAAGACAATACAGAATGC
1 AAAGGCTATATAGAATGC
61559069 CACAAAGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (23 bp):
AAAGGCTATATAGAATGCACCAA
Found at i:61560825 original size:22 final size:22
Alignment explanation
Indices: 61560800--61560843 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
61560790 TGTATGAAAA
*
61560800 AGCAGGCCTTGAGTAGGTGTTT
1 AGCAGGCCTTGAGCAGGTGTTT
*
61560822 AGCAGGCCTTGAGCCGGTGTTT
1 AGCAGGCCTTGAGCAGGTGTTT
61560844 TTTTAGCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.36, T:0.30
Consensus pattern (22 bp):
AGCAGGCCTTGAGCAGGTGTTT
Found at i:61567048 original size:16 final size:16
Alignment explanation
Indices: 61567027--61567058 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61567017 ACTCACAAAG
61567027 TCCATAGTTACTCTTT
1 TCCATAGTTACTCTTT
61567043 TCCATAGTTACTCTTT
1 TCCATAGTTACTCTTT
61567059 CCCACTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (16 bp):
TCCATAGTTACTCTTT
Found at i:61582253 original size:47 final size:49
Alignment explanation
Indices: 61582136--61582314 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 49
61582126 GTAACCCGCC
* * * *
61582136 CATAAGAGAACTCGGACTCAACTCAATGAGCTTGG--G-CGTTCACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACATT
61582182 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACA-T
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC--GTTCACATT
* * *
61582231 C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA---CGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACATT
61582275 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
61582315 CAAATATCCT
Statistics
Matches: 112, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
44 3 0.03
45 2 0.02
46 61 0.54
47 29 0.26
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACATT
Found at i:61582269 original size:93 final size:93
Alignment explanation
Indices: 61582143--61582314 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
61582133 GCCCATAAGA
* *
61582143 GAACTCGGACTCAACTCAATGAGCTTGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
61582208 CGAGCTCGGATGCCTAGTTACATCTCAT
66 CGAGCTCGGATGCCTAGTTACATCTCAT
* *
61582236 GAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
61582300 ACGAGCTCGGATGCC
65 ACGAGCTCGGATGCC
61582315 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAT
Found at i:61593276 original size:34 final size:34
Alignment explanation
Indices: 61593238--61593320 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
61593228 CTGATATGTT
* *
61593238 AACGGGCTTAGGCCCAGACTACTACTGTTACTGA
1 AACGGGCTAAGGCCCAGACTACTACTATTACTGA
* * * * *
61593272 AACGGGCTCAGGCCTAGATTGCTACTATTATTGA
1 AACGGGCTAAGGCCCAGACTACTACTATTACTGA
*
61593306 AATGGGCTAAGGCCC
1 AACGGGCTAAGGCCC
61593321 TAACTGTTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (34 bp):
AACGGGCTAAGGCCCAGACTACTACTATTACTGA
Found at i:61595393 original size:6 final size:6
Alignment explanation
Indices: 61595382--61595409 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
61595372 ACAAAATTCG
61595382 GACCTC GACCTC GACCTC GACCTC GACC
1 GACCTC GACCTC GACCTC GACCTC GACC
61595410 GGGGGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.18, T:0.14
Consensus pattern (6 bp):
GACCTC
Found at i:61604086 original size:39 final size:40
Alignment explanation
Indices: 61603990--61604210 Score: 247
Period size: 40 Copynumber: 5.5 Consensus size: 40
61603980 ATGATGTCCA
* * *
61603990 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCG
* * *
61604030 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTTCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
*
61604070 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* *
61604109 GGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAATT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATTCCG
* *
61604149 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
61604189 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
61604211 AATGAGGAGC
Statistics
Matches: 156, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.22
40 106 0.68
41 14 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:61604190 original size:80 final size:80
Alignment explanation
Indices: 61603990--61604210 Score: 279
Period size: 80 Copynumber: 2.8 Consensus size: 80
61603980 ATGATGTCCA
* * * *
61603990 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGT
*
61604053 GCGAGATACTAATTTCG
64 GCGAGATACTAAATTCG
* * *
61604070 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGTTAAGTCCCAAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTG
*
61604133 CGAGTTACTAAATTCG
65 CGAGATACTAAATTCG
* * *
61604149 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
61604211 AATGAGGAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.48
80 60 0.50
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGATACTAAATTCG
Found at i:61612102 original size:40 final size:40
Alignment explanation
Indices: 61612016--61612236 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
61612006 ATGATGTCCA
* * * *
61612016 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * * * *
61612056 GACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAATTTCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
61612096 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
61612135 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
61612175 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
* *
61612215 GGCTATGTCCAGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
61612237 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.21
40 114 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:61617011 original size:27 final size:27
Alignment explanation
Indices: 61616886--61617021 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
61616876 GTAAACACGC
* **
61616886 CATGAAAGAAATGTCTTTGTGGCGAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
61616913 CATGAAAGAAATGCCTTTTGTGGAAAAT
1 CATGAAAGAAATGCC-TTTGTGGAAAAT
* * * * **
61616941 CACGAAAGAAGTGCTTTTATGGCGAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
*
61616968 CATGAAAGAAATTCCTTTGTGGAAAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
* * *
61616995 CATGAAAGAAAAGCCTTGGTGGTAAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
61617022 TTTGAAGGGA
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 66 0.75
28 22 0.25
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (27 bp):
CATGAAAGAAATGCCTTTGTGGAAAAT
Found at i:61619019 original size:42 final size:43
Alignment explanation
Indices: 61618892--61619021 Score: 154
Period size: 44 Copynumber: 3.0 Consensus size: 43
61618882 ACATAGGATT
* *
61618892 TCGATATGTGTTTTCATGCAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCA
* * * * * *
61618935 TCGATCTGTGATTTACGTGTAAGACGATGTCTAGGACATTGGCA
1 TCGATATGTGATTT-CATGTAAGACCACGTCTGGGACGTTGGCA
* *
61618979 TC-ATATTTGATTTCATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCA
61619021 T
1 T
61619022 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
42 24 0.34
43 21 0.30
44 25 0.36
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:61623595 original size:124 final size:124
Alignment explanation
Indices: 61623375--61623622 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
61623365 ATAAGGTGAC
61623375 TATAAAGAATAAATATCCTTTGCCACGAATTGATGACTTGTTCGATTAGTTGAAAGGGGCCATAG
1 TATAAAGAATAAATATCCTTTGCCACGAATTGATGACTTGTTCGATTAGTTGAAAGGGGCCATAG
61623440 TGTTTTCAAAGATAGATTTTAGATCAGGTTACTATCAGCTGCAAGTCAAAGACTCTGAT
66 TGTTTTCAAAGATAGATTTTAGATCAGGTTACTATCAGCTGCAAGTCAAAGACTCTGAT
61623499 TATAAAGAATAAATATCCTTTGCCACGAATTGATGACTTGTTCGATTAGTTGAAAGGGGCCATAG
1 TATAAAGAATAAATATCCTTTGCCACGAATTGATGACTTGTTCGATTAGTTGAAAGGGGCCATAG
61623564 TGTTTTCAAAGATAGATTTTAGATCAGGTTACTATCAGCTGCAAGTCAAAGACTCTGAT
66 TGTTTTCAAAGATAGATTTTAGATCAGGTTACTATCAGCTGCAAGTCAAAGACTCTGAT
61623623 ATGCCAAAAA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (124 bp):
TATAAAGAATAAATATCCTTTGCCACGAATTGATGACTTGTTCGATTAGTTGAAAGGGGCCATAG
TGTTTTCAAAGATAGATTTTAGATCAGGTTACTATCAGCTGCAAGTCAAAGACTCTGAT
Found at i:61627417 original size:42 final size:43
Alignment explanation
Indices: 61627314--61627422 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 43
61627304 TATGTGTTTT
61627314 CATGTAAGACCACGTCTGGGACGATAGCATCGACCTATGATTTA
1 CATGTAAGACCACGTCTGGGACGATAGCATCGA-CTATGATTTA
* * * *
61627358 CGTGTAAGACCATGTCTGGGAC-ATCGACATCGTA-TTTGATTTA
1 CATGTAAGACCACGTCTGGGACGATAG-CATCG-ACTATGATTTA
61627401 -ATGTAAGACCACGTCTGGGACG
1 CATGTAAGACCACGTCTGGGACG
61627423 TTGGCATTGC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 19 0.34
43 11 0.20
44 25 0.45
45 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGATAGCATCGACTATGATTTA
Found at i:61629738 original size:27 final size:27
Alignment explanation
Indices: 61629708--61629885 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
61629698 ATATTGAGCC
* *
61629708 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
61629735 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61629762 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61629790 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61629817 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
61629844 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
61629871 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61629886 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61629820 original size:55 final size:54
Alignment explanation
Indices: 61629708--61629885 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
61629698 ATATTGAGCC
* * * * *
61629708 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
61629762 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
61629817 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
61629871 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61629886 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:61637591 original size:27 final size:27
Alignment explanation
Indices: 61637561--61637738 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
61637551 ATATTGAGCC
* *
61637561 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
61637588 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61637615 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61637643 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61637670 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
61637697 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
61637724 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61637739 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61637673 original size:55 final size:54
Alignment explanation
Indices: 61637561--61637738 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
61637551 ATATTGAGCC
* * * * *
61637561 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
61637615 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
61637670 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
61637724 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61637739 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:61645462 original size:25 final size:26
Alignment explanation
Indices: 61645405--61645454 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
61645395 TCATACTTCT
61645405 CATAGGGCATATCAGTCAATTTATCA
1 CATAGGGCATATCAGTCAATTTATCA
61645431 CATAGGGCATAAT-AGTC-ATTTATC
1 CATAGGGCAT-ATCAGTCAATTTATC
61645455 GGTTAGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 14 0.61
27 2 0.09
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (26 bp):
CATAGGGCATATCAGTCAATTTATCA
Found at i:61646926 original size:14 final size:14
Alignment explanation
Indices: 61646907--61646933 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61646897 TATTAAGGCA
61646907 ATAATTAAGAACAC
1 ATAATTAAGAACAC
61646921 ATAATTAAGAACA
1 ATAATTAAGAACA
61646934 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:61649728 original size:46 final size:46
Alignment explanation
Indices: 61649661--61649789 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
61649651 TGTAACCCGC
* * *
61649661 CCATAAGTGAACTCAGACTCAACTCAAC-ACGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGA-GCTCGGACATTCGCAT
* *
61649707 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
61649753 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
61649790 TGGCCAATAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 74 0.99
47 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:61655198 original size:93 final size:93
Alignment explanation
Indices: 61655086--61655256 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61655076 CCCATAAGTG
* *
61655086 AACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61655150 CGAGCTCAGATGCCTAGTTACATCTCTCA
65 CGAGCTCAGATGCCTAGTTACATCTCTCA
61655179 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
61655244 GAGTTCGGATGCC
66 GAGCTCAGATGCC
61655257 CAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCAGATGCCTAGTTACATCTCTCA
Found at i:61655246 original size:46 final size:46
Alignment explanation
Indices: 61655077--61655252 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
61655067 TGTACCCCGC
* *
61655077 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
* * *
61655123 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCAT
*
61655173 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
61655216 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61655253 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 2 0.02
46 61 0.56
47 25 0.23
49 2 0.02
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:61674868 original size:33 final size:33
Alignment explanation
Indices: 61674827--61674893 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
61674817 TATAGGTAAG
61674827 TATTTATGTGGTGTTCCAATTGAACTTGTAAAT
1 TATTTATGTGGTGTTCCAATTGAACTTGTAAAT
61674860 TATTTATGTGGTGTTCCAATTGAACTTGTAAAT
1 TATTTATGTGGTGTTCCAATTGAACTTGTAAAT
61674893 T
1 T
61674894 CGGCCACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (33 bp):
TATTTATGTGGTGTTCCAATTGAACTTGTAAAT
Done.