Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 90 of 344
Found at i:30067143 original size:30 final size:30
Alignment explanation
Indices: 30067103--30067167 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
30067093 ATGGATAGAT
* **
30067103 ACACGGGCATGTGTCTAGGCTGTATGTGAC
1 ACACGAGCATGTGTCTAGGCCATATGTGAC
* *
30067133 ACACGAGCATGTGTCTTGGCCATGTGTGAC
1 ACACGAGCATGTGTCTAGGCCATATGTGAC
30067163 ACACG
1 ACACG
30067168 GCTTGCCCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.25
Consensus pattern (30 bp):
ACACGAGCATGTGTCTAGGCCATATGTGAC
Found at i:30069229 original size:40 final size:39
Alignment explanation
Indices: 30069155--30069378 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
30069145 AACCCAAGTA
* *
30069155 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
30069194 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
30069234 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
* * *
30069277 CCTTCCGGACTTCGCCCGGATATAGTCACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
30069317 CCTTCGGGACTT-GCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
*
30069356 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30069379 CATCCGAATA
Statistics
Matches: 163, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 47 0.29
40 80 0.49
41 1 0.01
43 34 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:30069275 original size:83 final size:80
Alignment explanation
Indices: 30069155--30069378 Score: 335
Period size: 83 Copynumber: 2.8 Consensus size: 80
30069145 AACCCAAGTA
* *
30069155 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
30069219 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * *
30069234 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCCGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
*
30069299 TAGTCACTGGCACAAATG
63 TAGTCACTAGCACAAATG
* *
30069317 CCTTCGGGACTT-GCCCGGATATAGGAACTCGCACAAATGCCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30069379 CATCCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 46 0.35
80 10 0.08
81 2 0.02
82 11 0.08
83 61 0.47
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:30075996 original size:10 final size:10
Alignment explanation
Indices: 30075981--30076011 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30075971 ATGTATATAA
30075981 AAATATCTTC
1 AAATATCTTC
30075991 AAATATCTTC
1 AAATATCTTC
*
30076001 AATTATCTTC
1 AAATATCTTC
30076011 A
1 A
30076012 TAATGGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATATCTTC
Found at i:30079214 original size:40 final size:40
Alignment explanation
Indices: 30078984--30079215 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
30078974 CATTTGAATG
* * *
30078984 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
30079024 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
30079064 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30079104 ATATCCGGGCTAAGACCCGAAGGCATTTGTGGGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30079144 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
30079184 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30079216 TTGTGGTTAT
Statistics
Matches: 180, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 177 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:30096412 original size:20 final size:20
Alignment explanation
Indices: 30096389--30096476 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
30096379 TGGGCCTACG
*
30096389 TGGCCCAATTTGGCCTAGAA
1 TGGCCCAATTTGGCCCAGAA
*
30096409 TGGCCCAATTTGGCCTAGAA
1 TGGCCCAATTTGGCCCAGAA
*
30096429 TGGCCCAGTTTGGCCCAGAA
1 TGGCCCAATTTGGCCCAGAA
* * *
30096449 TGTCCCAGTTCGGCCCAGAA
1 TGGCCCAATTTGGCCCAGAA
30096469 TGGCCCAA
1 TGGCCCAA
30096477 AATCGTTTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.22
Consensus pattern (20 bp):
TGGCCCAATTTGGCCCAGAA
Found at i:30096473 original size:10 final size:10
Alignment explanation
Indices: 30096399--30096475 Score: 59
Period size: 10 Copynumber: 7.7 Consensus size: 10
30096389 TGGCCCAATT
*
30096399 TGGCCTAGAA
1 TGGCCCAGAA
*
30096409 TGGCCCA-ATT
1 TGGCCCAGA-A
*
30096419 TGGCCTAGAA
1 TGGCCCAGAA
**
30096429 TGGCCCAGTT
1 TGGCCCAGAA
30096439 TGGCCCAGAA
1 TGGCCCAGAA
* *
30096449 TGTCCCAG-T
1 TGGCCCAGAA
30096458 TCGGCCCAGAA
1 T-GGCCCAGAA
30096469 TGGCCCA
1 TGGCCCA
30096476 AAATCGTTTC
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
9 2 0.04
10 46 0.92
11 2 0.04
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (10 bp):
TGGCCCAGAA
Found at i:30098961 original size:38 final size:38
Alignment explanation
Indices: 30098861--30098964 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 38
30098851 TGATGTATGC
30098861 CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
1 CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
* ** *** *
30098899 CTATTGTTACCATTGAATTGAATACATGATAAACATGT
1 CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
*
30098937 CTACTGTTACTGTTGAGCCAAATACATG
1 CTACTGTTACTGTTGAACCAAATACATG
30098965 TGTAACACCC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (38 bp):
CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
Found at i:30101242 original size:16 final size:16
Alignment explanation
Indices: 30101221--30101258 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
30101211 TATTTGAGAG
30101221 TTGATTAAGTGGTAAA
1 TTGATTAAGTGGTAAA
*
30101237 TTGATTAAGTGGTAAC
1 TTGATTAAGTGGTAAA
30101253 TTGATT
1 TTGATT
30101259 TAGTTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.42
Consensus pattern (16 bp):
TTGATTAAGTGGTAAA
Found at i:30106535 original size:43 final size:43
Alignment explanation
Indices: 30106440--30106602 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
30106430 ACCGAGATGT
* * * * *
30106440 GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTAATGA
* *
30106483 GATTACGTGTAAGACCATGTCTGAGATATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCG-TAATGA
* *
30106526 GATTTCGTGTAAGATCC-TGTCTGGGATAGTGGCATCG-ATAT-A
1 GATTACGTGTAAGA-CCATGTCTGGGATATTGGCATCGTA-ATGA
* * **
30106568 TATTAACATGTAAGACCATAACTGGGATA-TGGCAT
1 GATT-ACGTGTAAGACCATGTCTGGGATATTGGCAT
30106603 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 13 0.13
43 80 0.81
44 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTAATGA
Found at i:30115497 original size:40 final size:40
Alignment explanation
Indices: 30115434--30115642 Score: 269
Period size: 40 Copynumber: 5.2 Consensus size: 40
30115424 GGATTTAGCT
* * *
30115434 GGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTTGCCC
1 GGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCC
** *
30115474 GGATATAGTCACTAGCATGAATGCCTTCGGGACTTAGCCT
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
30115514 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
* *
30115554 GGGTATAG-CAACTACTCGTACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTC-ACTA---GCACAAATGCCTTCGGGACTTAGCCC
* *
30115597 GGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
30115637 GGATAT
1 GGATAT
30115643 CATCTGAATA
Statistics
Matches: 148, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 111 0.75
41 1 0.01
43 35 0.24
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
Found at i:30115604 original size:83 final size:80
Alignment explanation
Indices: 30115434--30115642 Score: 269
Period size: 83 Copynumber: 2.6 Consensus size: 80
30115424 GGATTTAGCT
* * * **
30115434 GGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTTGCCCGGATATAGTCACTAGCATGAATGC
1 GGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30115498 CTTCGGGACTTAGCCT
65 CTTCGGGACTTAGCCC
* *
30115514 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGTACAAA
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAA
30115578 TGCCTTCGGGACTTAGCCC
62 TGCCTTCGGGACTTAGCCC
* *
30115597 GGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30115643 CATCTGAATA
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
79 1 0.01
80 46 0.41
81 1 0.01
83 65 0.58
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
TTCGGGACTTAGCCC
Found at i:30121754 original size:48 final size:48
Alignment explanation
Indices: 30121620--30121954 Score: 223
Period size: 48 Copynumber: 6.9 Consensus size: 48
30121610 TGATACTAGG
* * * **
30121620 GTTATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACCG
1 GTTATGTGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGACA-TT
** * * *
30121669 GTTTATAAGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATTGGCATT
1 G-TTATGTGAGCTAGTGTAAGACCATGTCTTGG-ACATGGCATCGACATT
* * * * *
30121718 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTC
1 GTTATGTGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGACATT
** * * *
30121766 AATATGCT-AGCTAATGTAAGACCAT-TTTTGGAGCATGACATCGACATT
1 GTTATG-TGAGCTAGTGTAAGACCATGTCTTGGA-CATGGCATCGACATT
* **
30121814 GTTATGTGAGTTAGTGTAAGACCATGT-TTGGAACATGGCATCGGTATT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTTGG-ACATGGCATCGACATT
* * * ** * * *
30121862 GTTATACT-TG-TCAGTGTAAGACCATGTCTAGGATGTTGCATTGACACT
1 GTTAT-GTGAGCT-AGTGTAAGACCATGTCTTGGACATGGCATCGACATT
* * * *
30121910 GATGTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCG
1 G-T-TATGTGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCG
30121955 GTATTTTACC
Statistics
Matches: 218, Mismatches: 53, Indels: 29
0.73 0.18 0.10
Matches are distributed among these distances:
47 7 0.03
48 131 0.60
49 16 0.07
50 64 0.29
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (48 bp):
GTTATGTGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGACATT
Found at i:30121880 original size:96 final size:95
Alignment explanation
Indices: 30121620--30121955 Score: 262
Period size: 96 Copynumber: 3.5 Consensus size: 95
30121610 TGATACTAGG
* * * * * ** **
30121620 GTTATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGGTTTATAAGAGCCAGT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC--AATATACTAG-CAGT
* * *
30121685 GTAAGACCATGTTTGGAACATGGCATTGGCATT
63 GTAAGACCATGTTTGGAACATGACATCGACATT
* * * *
30121718 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCAATATGCTAGCTAATGT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCAATATACTAGC-AGTGT
* *
30121783 AAGACCATTTTTGGAGCATGACATCGACATT
65 AAGACCATGTTTGGAACATGACATCGACATT
* * * *** *
30121814 GTTATGTGAGTTAGTGTAAGACCATGT-TTGGAACATGGCATCGGTATTGTTATACTTGTCAGTG
1 GTTATGTGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCAATATACTAG-CAGTG
* *** * *
30121878 TAAGACCATGTCTAGGATGTTG-CATTGACACT
64 TAAGACCATGT-TTGGAACATGACATCGACATT
* * * *
30121910 GATGTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGG
1 G-T-TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG
30121956 TATTTTACCC
Statistics
Matches: 190, Mismatches: 41, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
95 4 0.02
96 101 0.53
97 8 0.04
98 74 0.39
99 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (95 bp):
GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCAATATACTAGCAGTGTA
AGACCATGTTTGGAACATGACATCGACATT
Found at i:30132062 original size:48 final size:48
Alignment explanation
Indices: 30131896--30132276 Score: 388
Period size: 48 Copynumber: 7.9 Consensus size: 48
30131886 TGATACTAGG
* * * * *
30131896 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTC
1 GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* * * * * *
30131944 GATATGT--GTCAGTGTAAGACCATGTCTGGGACATAGCACCGACACTA
1 GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TT
* * ** *
30131991 GTTTATGAGAGCCAGTGTAAGACCATGTTTGAAACATGACATCGGCATT
1 G-TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* * * *
30132040 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTC
1 GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
** * *
30132088 AATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
1 GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* * * *
30132136 GTTATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATT
1 GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
** * * * * *
30132184 GTTATACGTGTCAGTGTAAGACTATGTCTGGGACATGGCATCGACACT
1 GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
*
30132232 GATGTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 G-T-TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
30132277 ATATTTTACC
Statistics
Matches: 269, Mismatches: 58, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
46 30 0.11
47 2 0.01
48 169 0.63
49 3 0.01
50 65 0.24
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
GTTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
Found at i:30132156 original size:144 final size:146
Alignment explanation
Indices: 30131896--30132277 Score: 479
Period size: 144 Copynumber: 2.6 Consensus size: 146
30131886 TGATACTAGG
* * * *
30131896 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGT--GTCAGTGT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* *
30131959 AAGACCATGTCTGGGACATAGCACCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGAA
66 AAGACCATGTCTGGGACATGGCATCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGAA
*
30132024 ACATGACATCGGCATT
131 ACATGACATCAGCATT
* *
30132040 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTCAATATGTGAGCCAGTGT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* * * * * * *
30132105 AAGACCATGTTTGGAACATGGCATCGGCA-TTG-TTATGTGAGCTAGTGTAAGACCATGTTTGGA
66 AAGACCATGTCTGGGACATGGCATCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGAA
*
30132168 ACATGGCATCAGCATT
131 ACATGACATCAGCATT
* * * * * *
30132184 GTTATACGTG-TC-AGTGTAAGACTATGTCTGGGACATGGCATCGACACTGATGTATGAGAGCCA
1 GTTAT--GTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-ATATGTGAGCCA
30132247 GTGTAAGACCATGTCTGGGACATGGCATCGA
62 GTGTAAGACCATGTCTGGGACATGGCATCGA
30132278 TATTTTACCC
Statistics
Matches: 204, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
144 127 0.62
145 5 0.02
146 72 0.35
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (146 bp):
GTTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
AAGACCATGTCTGGGACATGGCATCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGAA
ACATGACATCAGCATT
Found at i:30136908 original size:39 final size:38
Alignment explanation
Indices: 30136865--30137018 Score: 137
Period size: 39 Copynumber: 3.9 Consensus size: 38
30136855 AATTATTGTA
*
30136865 TGATTGCACATATGTGCCTCTATTTGTACTTCGGTACCC
1 TGATTGCACATACGTGCCT-TATTTGTACTTCGGTACCC
* * *
30136904 TGATTGCACATACGTGCCATTGTCTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCC-TTATTTGTACTTCGGTA-CCC
* * * *
30136944 TAATTACACATACGTGGCCTTGTTTGTACTTTGGTACCC
1 TGATTGCACATACGT-GCCTTATTTGTACTTCGGTACCC
* * * * * *
30136983 TTAATGCACATTCGTGCCCCTATTTATATTTCGGTA
1 TGATTGCACATACGTG-CCTTATTTGTACTTCGGTA
30137019 ACTCTAAATC
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 58 0.61
40 33 0.35
41 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (38 bp):
TGATTGCACATACGTGCCTTATTTGTACTTCGGTACCC
Found at i:30136972 original size:40 final size:40
Alignment explanation
Indices: 30136887--30137000 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
30136877 TGTGCCTCTA
* * *
30136887 TTTGTACTTCGGTA-CCCTGATTGCACATACGTGCCATTG
1 TTTGTACTTTGGTACCCCTAATTACACATACGTGCCATTG
*
30136926 TCTGTACTTTGGTACCCCTAATTACACATACGTGGCC-TTG
1 TTTGTACTTTGGTACCCCTAATTACACATACGT-GCCATTG
* * *
30136966 TTTGTACTTTGGTACCCTTAA-TGCACATTCGTGCC
1 TTTGTACTTTGGTACCCCTAATTACACATACGTGCC
30137001 CCTATTTATA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
38 3 0.05
39 21 0.32
40 38 0.58
41 3 0.05
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (40 bp):
TTTGTACTTTGGTACCCCTAATTACACATACGTGCCATTG
Found at i:30139269 original size:11 final size:10
Alignment explanation
Indices: 30139231--30139273 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
30139221 CAATTCACTA
30139231 ACCAAATCAT
1 ACCAAATCAT
*
30139241 ACCAAATCTAA
1 ACCAAATC-AT
30139252 ACCAAAGTCAT
1 ACCAAA-TCAT
*
30139263 ACCAAAGCAT
1 ACCAAATCAT
30139273 A
1 A
30139274 TGATTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:30140131 original size:33 final size:34
Alignment explanation
Indices: 30140101--30140165 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
30140091 GTCTCAGTTA
*
30140101 GGGCTTTAG-CCCATTCAGTAACAGTATCAGTGT
1 GGGCTTTAGACCAATTCAGTAACAGTATCAGTGT
*
30140134 GGGCTTTAGACTAATTCAGTAACAGTATCAGT
1 GGGCTTTAGACCAATTCAGTAACAGTATCAGT
30140166 ACAAAATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (34 bp):
GGGCTTTAGACCAATTCAGTAACAGTATCAGTGT
Found at i:30142838 original size:44 final size:42
Alignment explanation
Indices: 30142696--30142854 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
30142686 AGCTCATACA
* * *
30142696 ATGCCAACGTCCCAGACGTGGTCTTCCATGT-AATCAAATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATC-AA-ATCG
* *
30142739 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC-AAAATCAAATACG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAAATCAAAT-CG
*
30142781 ATGCCAACATCCCAAACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCA-AA-TCG
*
30142825 ATGCCAATGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAAACGTGGTCTTACACG
30142855 ATAACACATA
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 34 0.34
44 33 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATCG
Found at i:30142848 original size:86 final size:85
Alignment explanation
Indices: 30142691--30142853 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
30142681 CGGAAAGCTC
* * * * * *
30142691 ATACAATGCCAACGTCCCAGACGTGGTCTTCCATGTAATCAAATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAAC
30142756 AGGGTCTTACACAAAATCAA
66 AGGGTCTTACACAAAATCAA
* *
30142776 ATACGATGCCAACATCCCAAACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAA
1 ATACAATGCCAACATCCCAAACGTGGTCTTACACGT-AATCA-AATATCGATGCCAATGTCCCAA
30142840 AC-GTGGTCTTACAC
64 ACAG-GGTCTTACAC
30142854 GATAACACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 32 0.48
86 33 0.49
87 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAAC
AGGGTCTTACACAAAATCAA
Found at i:30145380 original size:40 final size:40
Alignment explanation
Indices: 30145282--30145664 Score: 556
Period size: 40 Copynumber: 9.6 Consensus size: 40
30145272 TCCTCGTTCA
* * * * *
30145282 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
30145321 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30145361 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30145401 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
30145441 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30145481 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30145521 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
30145561 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
30145601 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
30145641 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30145665 CAGCATTCAA
Statistics
Matches: 318, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 37 0.12
40 273 0.86
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:30148796 original size:29 final size:29
Alignment explanation
Indices: 30148754--30148811 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30148744 AGTTCAAACA
30148754 AAACATAATAGCCTATACATGCCGAAATG
1 AAACATAATAGCCTATACATGCCGAAATG
30148783 AAACATAATAGCCTATACATGCCGAAATG
1 AAACATAATAGCCTATACATGCCGAAATG
30148812 TTCTCTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (29 bp):
AAACATAATAGCCTATACATGCCGAAATG
Found at i:30156118 original size:10 final size:10
Alignment explanation
Indices: 30156103--30156145 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
30156093 TAATTCACCA
30156103 ACCAAATCAT
1 ACCAAATCAT
*
30156113 ACCAAATCTAA
1 ACCAAATC-AT
30156124 ACCAAAATCAT
1 ACC-AAATCAT
*
30156135 ACCAAAGCAT
1 ACCAAATCAT
30156145 A
1 A
30156146 TGATTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:30159546 original size:51 final size:49
Alignment explanation
Indices: 30159481--30159623 Score: 172
Period size: 51 Copynumber: 3.0 Consensus size: 49
30159471 CTACCTTATA
* * *
30159481 ACATGTAACACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATG
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
* *
30159530 TTACATGTATCGCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATG
1 --ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
*
30159581 -C-----TCTCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
30159624 CCATATAATC
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
43 40 0.47
48 1 0.01
51 44 0.52
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (49 bp):
ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
Found at i:30159603 original size:43 final size:43
Alignment explanation
Indices: 30159542--30159706 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
30159532 ACATGTATCG
* *
30159542 CATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGCTCT
1 CATCCATCACGAACTCGGACCACTCAACGAGCTCGGATGCTCT
* *
30159585 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC-CAT
1 CATCCATCACGAACTCGGACCACTCAACGAGCTCGGATGCTC-T
* * * * * * * *
30159628 -AT-AATCACAAACTTGGACCACTCAACAAGTTCGAATTCTCA
1 CATCCATCACGAACTCGGACCACTCAACGAGCTCGGATGCTCT
**
30159669 CATATATCACGAACTCGGACCACTCAACGAGCTCGGAT
1 CATCCATCACGAACTCGGACCACTCAACGAGCTCGGAT
30159707 ATCTTAATTC
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
41 27 0.27
42 6 0.06
43 68 0.67
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
CATCCATCACGAACTCGGACCACTCAACGAGCTCGGATGCTCT
Found at i:30166147 original size:30 final size:30
Alignment explanation
Indices: 30166113--30166173 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30166103 TCCTTAACTC
30166113 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30166143 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30166173 A
1 A
30166174 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30169770 original size:67 final size:65
Alignment explanation
Indices: 30169581--30169770 Score: 201
Period size: 67 Copynumber: 2.9 Consensus size: 65
30169571 CATATAGTTC
* * * * *
30169581 AGCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCG
1 AGCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCACATATATCCCG
30169643 T
65 T
* * * * *
30169644 AGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT-ACATATATCC
1 AGCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTCACATATATCC
30169708 CGT
63 CGT
*
30169711 AGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCT-ACATCATAT
1 AGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCACAT-ATAT
30169771 TGTCTTTTAG
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.18
64 28 0.27
65 4 0.04
66 23 0.22
67 30 0.29
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (65 bp):
AGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCACATATATCCCGT
Found at i:30172283 original size:20 final size:20
Alignment explanation
Indices: 30172258--30172297 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30172248 TGATAAAATA
*
30172258 AAGATTATTTATCATCCATC
1 AAGATTATTTAGCATCCATC
30172278 AAGATTATTTAGCATCCATC
1 AAGATTATTTAGCATCCATC
30172298 CATTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (20 bp):
AAGATTATTTAGCATCCATC
Found at i:30175659 original size:26 final size:26
Alignment explanation
Indices: 30175595--30175785 Score: 154
Period size: 27 Copynumber: 7.2 Consensus size: 26
30175585 GGTCGTTAAG
* *
30175595 ACCCTGATTTGTAAAATTACTGAAAT
1 ACCCCGATTTGTAAAATTACCGAAAT
*
30175621 ACCCCCGATTTGTAAAATTACCGAAGT
1 A-CCCCGATTTGTAAAATTACCGAAAT
*
30175648 ACCCCGATTTGTAAAATTACTGAAAT
1 ACCCCGATTTGTAAAATTACCGAAAT
*
30175674 ACCCTC-AGTTTGTAAAATTACCAAAAT
1 ACCC-CGA-TTTGTAAAATTACCGAAAT
* * * **
30175701 ACTCTCG-GTTATAAAATTACTAAAAT
1 AC-CCCGATTTGTAAAATTACCGAAAT
* * *
30175727 ATCCTC-AGTTTTTAAAATTATCGAAAT
1 A-CCCCGA-TTTGTAAAATTACCGAAAT
** *
30175754 ACCCTTAGTTTATAAAATTACCGAAAT
1 ACCCCGA-TTTGTAAAATTACCGAAAT
30175781 ACCCC
1 ACCCC
30175786 CGATCGAAAT
Statistics
Matches: 135, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
26 51 0.38
27 83 0.61
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (26 bp):
ACCCCGATTTGTAAAATTACCGAAAT
Found at i:30175686 original size:53 final size:53
Alignment explanation
Indices: 30175595--30175784 Score: 204
Period size: 53 Copynumber: 3.6 Consensus size: 53
30175585 GGTCGTTAAG
* * * *
30175595 ACCCTGATTTGTAAAATTACTGAAATACCC-CCGATTTGTAAAATTACCGAAGT
1 ACCCCGATTTATAAAATTACTGAAATACCCTCAG-TTTGTAAAATTACCGAAAT
* *
30175648 ACCCCGATTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCAAAAT
1 ACCCCGATTTATAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCGAAAT
* * * * * *
30175701 ACTCTCG-GTTATAAAATTACTAAAATATCCTCAGTTTTTAAAATTATCGAAAT
1 AC-CCCGATTTATAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCGAAAT
** *
30175754 ACCCTTAGTTTATAAAATTACCGAAATACCC
1 ACCCCGA-TTTATAAAATTACTGAAATACCC
30175785 CCGATCGAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.01
53 89 0.78
54 24 0.21
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
ACCCCGATTTATAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCGAAAT
Found at i:30175793 original size:42 final size:42
Alignment explanation
Indices: 30175746--30175826 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
30175736 TTTTAAAATT
30175746 ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCCCCG
1 ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCCCCG
* * **
30175788 ATCGAAATACCCTTGGTTTGTAAAATTATTGAAATACCC
1 ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCC
30175827 TTATAGTGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (42 bp):
ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCCCCG
Found at i:30179563 original size:27 final size:27
Alignment explanation
Indices: 30178805--30179563 Score: 861
Period size: 27 Copynumber: 28.1 Consensus size: 27
30178795 AAGTACTCTC
*
30178805 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
30178831 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
30178859 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
30178885 AGTTTACAGAATTACCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
30178913 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
30178939 AGGTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
30178967 ATTTACAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
**
30178994 ATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
30179021 ATTTATAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * * *
30179048 ATTTGTAAAATTATCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
30179075 ATTTATAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
30179102 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
30179128 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
30179156 ATTTACAGAATTACCGTTTTAACCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
30179182 AGTTTACAAAATTACCATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
30179210 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* ** *
30179236 AGGTTACAGAATTACTATTTTACCCTCA
1 A-TTTACAGAATTACCGTTTTACCCTCG
* * * *
30179264 ATTTATATAATTACCGTTTTATCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
**
30179291 ATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
**
30179318 ATTTACA-AAGTTACCGTTTTACCCTTA
1 ATTTACAGAA-TTACCGTTTTACCCTCG
** *
30179345 ATTTGTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
30179372 ATTTAGAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
30179398 AGTTTACAGAATTACTGTTTTACCCTCA
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
30179426 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
30179453 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
30179480 ATTTACAGAATTACTGGTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* * *
30179506 AGTTTACAAAATTATCATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
30179534 ATTTACATAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
30179561 ATT
1 ATT
30179564 GTGAAATTAC
Statistics
Matches: 619, Mismatches: 96, Indels: 35
0.83 0.13 0.05
Matches are distributed among these distances:
26 10 0.02
27 599 0.97
28 10 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:30179631 original size:54 final size:54
Alignment explanation
Indices: 30179568--30179764 Score: 270
Period size: 54 Copynumber: 3.6 Consensus size: 54
30179558 TTGATTGTGA
* ** * *
30179568 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
30179622 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
*
30179676 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
30179730 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCA
30179765 TTTTGCCCCT
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 125 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:30179763 original size:27 final size:27
Alignment explanation
Indices: 30179568--30179763 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
30179558 TTGATTGTGA
* *
30179568 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
30179595 AATTTTCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
30179622 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
30179649 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
30179676 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
30179703 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
30179730 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
30179757 AATTACC
1 AATTACC
30179764 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:30180005 original size:27 final size:25
Alignment explanation
Indices: 30179962--30180044 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 25
30179952 CGGAGGAAGC
*
30179962 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGT-GCTCTGCCAC-AATATCT
30179989 GTTCTGGTAGCTCTGCCACAATATCT
1 GTTCTGGT-GCTCTGCCACAATATCT
*
30180015 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTG-CTCTGCCACAATATCT
30180042 GTT
1 GTT
30180045 AACTGATCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (25 bp):
GTTCTGGTGCTCTGCCACAATATCT
Found at i:30180410 original size:27 final size:26
Alignment explanation
Indices: 30180346--30180419 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
30180336 TAGGTGGGTT
* * *
30180346 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACCC
*
30180373 TGCCACAATATTTGTATCTGGTGACCC
1 TGCCACAATATCTGT-TCTGGTGACCC
* *
30180400 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
30180420 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACCC
Found at i:30180546 original size:6 final size:6
Alignment explanation
Indices: 30180537--30180656 Score: 131
Period size: 6 Copynumber: 19.8 Consensus size: 6
30180527 TTGAATTCAC
* *
30180537 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* *
30180585 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
30180634 ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
30180657 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
5 7 0.07
6 82 0.85
7 7 0.07
8 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30180569 original size:24 final size:24
Alignment explanation
Indices: 30180538--30180651 Score: 149
Period size: 24 Copynumber: 4.7 Consensus size: 24
30180528 TGAATTCACA
** *
30180538 TTCTGATTCTG-TTACTAATACTGA
1 TTCTGATTCTGATT-CTGTTACTAA
*
30180562 TTCTGATTCTGATTCTGTTACTGA
1 TTCTGATTCTGATTCTGTTACTAA
*
30180586 TTCTGATTCTGATTCTGTCACCTAA
1 TTCTGATTCTGATTCTGTTA-CTAA
*
30180611 TTCTGATTCTGATTCTGTTACTGA
1 TTCTGATTCTGATTCTGTTACTAA
30180635 TTCTGATTCTGATTCTG
1 TTCTGATTCTGATTCTG
30180652 ATTCTCATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
24 58 0.71
25 24 0.29
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (24 bp):
TTCTGATTCTGATTCTGTTACTAA
Found at i:30183349 original size:26 final size:26
Alignment explanation
Indices: 30183278--30183351 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
30183268 TTTCTCATCC
*
30183278 CAATTTTA-CTCTAGTAAAATTTTGA
1 CAATTTTACCACTAGTAAAATTTTGA
* *
30183303 CAATTTTACCATTCG-ATAAATTTTGA
1 CAATTTTACCACTAGTA-AAATTTTGA
** *
30183329 TGATTTTACCCCTAGTAAAATTT
1 CAATTTTACCACTAGTAAAATTT
30183352 CAAGAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 9 0.24
26 28 0.74
27 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (26 bp):
CAATTTTACCACTAGTAAAATTTTGA
Found at i:30185890 original size:46 final size:46
Alignment explanation
Indices: 30185823--30186002 Score: 188
Period size: 46 Copynumber: 3.9 Consensus size: 46
30185813 AATCATGTAA
* *
30185823 CCCACCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTT
1 CCCATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT
*
30185869 CCCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 CCCATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTT
* * * ** *
30185920 -ACAT-C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGTACATT
1 CCCATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT
* *
30185962 CGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCCATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
30186003 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 15, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 64 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (46 bp):
CCCATCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT
Found at i:30185968 original size:93 final size:93
Alignment explanation
Indices: 30185835--30186006 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
30185825 CACCCATAAG
* *
30185835 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
30185900 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
30185928 CGAACTCGGACTCAACTCAATGAGTTCGTACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
30185993 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30186007 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30219850 original size:46 final size:46
Alignment explanation
Indices: 30219796--30219969 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
30219786 TTTGGGCATT
*
30219796 CGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAGCGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTC
* * * * * *
30219842 TGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCGTC
* * * *
30219889 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTC
*
30219935 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30219970 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 63 0.61
47 30 0.29
48 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTC
Found at i:30219949 original size:93 final size:93
Alignment explanation
Indices: 30219790--30219961 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
30219780 GGGATATTTG
* * * * *
30219790 GGCATTCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAGCGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
30219855 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
30219883 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
30219948 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30219962 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30221390 original size:20 final size:20
Alignment explanation
Indices: 30221365--30221411 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
30221355 ATTTTGATAT
*
30221365 ACATGAT-TGATATGATTTGC
1 ACATGATATG-TATGATATGC
30221385 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30221405 ACATGAT
1 ACATGAT
30221412 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30221532 original size:25 final size:26
Alignment explanation
Indices: 30221461--30221557 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
30221451 GAGGAAGTGC
* *
30221461 AAAAGGGCTTATTCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
30221487 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30221513 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
30221538 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
30221558 ATTAAAGAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 32 0.48
26 34 0.52
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30221542 original size:51 final size:51
Alignment explanation
Indices: 30221461--30221557 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
30221451 GAGGAAGTGC
* **
30221461 AAAAGGGCTTATTCCCCAGTTTATTAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTT-TGCCCCAGTTTATTG
* *
30221513 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTT
30221558 ATTAAAGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 9 0.22
51 21 0.52
52 10 0.25
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:30225152 original size:28 final size:29
Alignment explanation
Indices: 30225112--30225182 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
30225102 ATAGTAAGTC
30225112 CGCACACTTAGTGCT-TA-ATAATCAAACT
1 CGCACACTTAGTGCTATACAT-ATCAAACT
* *
30225140 CGCACACTTAGTGCTATACATTTTAAACT
1 CGCACACTTAGTGCTATACATATCAAACT
*
30225169 CGTACACTTAGTGC
1 CGCACACTTAGTGC
30225183 CAATCTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.39
29 21 0.55
30 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACATATCAAACT
Found at i:30232266 original size:28 final size:29
Alignment explanation
Indices: 30232226--30232296 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
30232216 ATAGTAAGTC
30232226 CGCACACTTAGTGCT-TA-ATAATCAAACT
1 CGCACACTTAGTGCTATACAT-ATCAAACT
* *
30232254 CGCACACTTAGTGCTATACATTTTAAACT
1 CGCACACTTAGTGCTATACATATCAAACT
30232283 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30232297 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 15 0.38
29 22 0.56
30 2 0.05
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACATATCAAACT
Found at i:30239641 original size:20 final size:20
Alignment explanation
Indices: 30239616--30239662 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
30239606 ATTTTGATAT
*
30239616 ACATGAT-TGATATGATTTGC
1 ACATGATATG-TATGATATGC
30239636 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30239656 ACATGAT
1 ACATGAT
30239663 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30239763 original size:27 final size:26
Alignment explanation
Indices: 30239712--30239861 Score: 225
Period size: 26 Copynumber: 5.8 Consensus size: 26
30239702 GAGGAAGTGC
30239712 AAAAGGGCTTATG-CCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30239737 AAATAGGGCTTATGCCCCAGTTTATTG
1 AAA-AGGGCTTATGCCCCAGTTTATTG
30239764 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
* *
30239791 AAAAAGACTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30239817 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30239842 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
30239862 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
25 36 0.31
26 42 0.36
27 35 0.30
28 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30239802 original size:53 final size:52
Alignment explanation
Indices: 30239712--30239861 Score: 225
Period size: 53 Copynumber: 2.9 Consensus size: 52
30239702 GAGGAAGTGC
30239712 AAAAGGGCTTATG-CCCAGTTTATTGAAATAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAA-AGGGCTTATGCCCCAGTTTATTG
* *
30239764 AAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGACTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTG
**
30239817 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTT
30239862 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
50 10 0.11
51 21 0.23
52 10 0.11
53 34 0.38
54 15 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30247748 original size:25 final size:25
Alignment explanation
Indices: 30247720--30247767 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30247710 TTATATTATG
* * *
30247720 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
30247745 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
30247768 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:30247828 original size:20 final size:20
Alignment explanation
Indices: 30247803--30247849 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30247793 ATTTTGATAT
*
30247803 ACATGAT-TGACATGATTTGC
1 ACATGATATG-CATGATATGC
*
30247823 ACATGATATGTATGATATGC
1 ACATGATATGCATGATATGC
30247843 ACATGAT
1 ACATGAT
30247850 GTATTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:30247954 original size:26 final size:26
Alignment explanation
Indices: 30247901--30248048 Score: 221
Period size: 26 Copynumber: 5.7 Consensus size: 26
30247891 GGAAGTGCAG
30247901 AAGGGCTTA-GCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AA
*
30247927 AACGGCTTATGCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AA
30247954 AAGGG-TTATGCCCCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
*
30247979 AAGGGCTTATGCCTCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
* *
30248005 AAGGGCTTATACCCCAGTTTATCGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
30248031 AAGGGCTT-TGCCCCAGTT
1 AAGGGCTTATGCCCCAGTT
30248049 ATTAAAGAGG
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
25 16 0.14
26 76 0.67
27 21 0.19
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
AAGGGCTTATGCCCCAGTTTATTGAA
Found at i:30253955 original size:46 final size:44
Alignment explanation
Indices: 30253897--30254062 Score: 131
Period size: 46 Copynumber: 3.6 Consensus size: 44
30253887 CCCATAAGCA
30253897 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAGCCATAGGTG
1 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCACA-CCATA-GTG
* * ** *
30253943 AACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACA-TTTCA-CG
1 AACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACACCAT-AGTG
* * * * *
30253990 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCACA-CCAT-AGTG
30254036 AACTCGGACTCAACTCAACGAGCTCGG
1 AACTCGGACTCAACTCAACGAGCTCGG
30254063 ATGCTCAACC
Statistics
Matches: 94, Mismatches: 16, Indels: 20
0.72 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 1 0.01
45 2 0.02
46 51 0.54
47 26 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
AACTCGGACTCAACTCAACGAGCTCGGGCGTTCACACCATAGTG
Found at i:30254063 original size:93 final size:93
Alignment explanation
Indices: 30253897--30254066 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
30253887 CCCATAAGCA
* * * * *
30253897 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAGCCATAGGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCACAGCCATAAGTGAACTCGGACTCAACTCAAC
*
30253962 GAGTTCGGATGCCTAGTTACATTTCACG
66 GAGCTCGGATGCCTAGTTACATTTCACG
* * *
30253990 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCACAGCCATAAGTGAACTCGGACTCAACTCAAC
30254055 GAGCTCGGATGC
66 GAGCTCGGATGC
30254067 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGACATTCACAGCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATTTCACG
Found at i:30254082 original size:46 final size:44
Alignment explanation
Indices: 30253897--30254082 Score: 101
Period size: 46 Copynumber: 4.0 Consensus size: 44
30253887 CCCATAAGCA
** * *
30253897 AACTCGGACTCAACTCAACGAGCTCGGGCGTTC-ACAGCCATAGGTG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCTCAACA-TC-TA-GTG
* * * *
30253943 AACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTACATTTCA-CG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACATCT-AGTG
* * * * * *
30253990 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGCTC-G-GATGCTCA-ACATCTAGTG
30254036 AACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCTCAA-CAT-CTAGTG
30254082 A
1 A
30254083 CATCTCACTT
Statistics
Matches: 107, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
44 8 0.07
45 3 0.03
46 56 0.52
47 29 0.27
48 2 0.02
49 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCTAGTG
Found at i:30255608 original size:27 final size:27
Alignment explanation
Indices: 30255569--30255760 Score: 180
Period size: 27 Copynumber: 7.1 Consensus size: 27
30255559 GGTTGTTAAG
* *
30255569 ACCCC-AGTTTGTAAAATTACCGAAAT
1 ACCCCTAGATTGTAAAATTATCGAAAT
30255595 ACCCCTAGATTGTAAAATTATCGAAAT
1 ACCCCTAGATTGTAAAATTATCGAAAT
* *
30255622 ACCCCCA-ATTTGTAAAATTATCAAAAT
1 ACCCCTAGA-TTGTAAAATTATCGAAAT
* *
30255649 ACCCCCAGATTGCAAAATTA-CTGAAAT
1 ACCCCTAGATTGTAAAATTATC-GAAAT
* * *
30255676 AACCCTAGTTTGTAAAATTA-CCAAAGT
1 ACCCCTAGATTGTAAAATTATCGAAA-T
*
30255703 A-CCCTTGTATTGTAAAATTATCGAAAT
1 ACCCCTAG-ATTGTAAAATTATCGAAAT
* * *
30255730 A-CCCTTGTAGTGTAAAATTATCAAAAT
1 ACCCCTAG-ATTGTAAAATTATCGAAAT
30255757 ACCC
1 ACCC
30255761 TATAGGATAA
Statistics
Matches: 142, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 15 0.11
27 120 0.85
28 7 0.05
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
ACCCCTAGATTGTAAAATTATCGAAAT
Found at i:30255650 original size:54 final size:53
Alignment explanation
Indices: 30255569--30255760 Score: 217
Period size: 54 Copynumber: 3.6 Consensus size: 53
30255559 GGTTGTTAAG
*
30255569 ACCCCAGTTTGTAAAATTACCGAAATACCCCTAGATTGTAAAATTATCGAAAT
1 ACCCCAGTTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCGAAAT
* * * *
30255622 ACCCCCAATTTGTAAAATTATCAAAATACCCCCAGATTGCAAAATTA-CTGAAAT
1 A-CCCCAGTTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATC-GAAAT
* * *
30255676 AACCCTAGTTTGTAAAATTACCAAAGTA-CCCTTGTATTGTAAAATTATCGAAAT
1 -ACCCCAGTTTGTAAAATTACCAAAATACCCCTAG-ATTGTAAAATTATCGAAAT
** * *
30255730 ACCCTTGTAGTGTAAAATTATCAAAATACCC
1 ACCCCAGT-TTGTAAAATTACCAAAATACCC
30255761 TATAGGATAA
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
53 13 0.11
54 99 0.85
55 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (53 bp):
ACCCCAGTTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCGAAAT
Found at i:30255706 original size:81 final size:81
Alignment explanation
Indices: 30255570--30255733 Score: 206
Period size: 81 Copynumber: 2.0 Consensus size: 81
30255560 GTTGTTAAGA
* * * *
30255570 CCCCAGTTTGTAAAATTACCGAAATACCCCTAGATTGTAAAATTATCGAAATACCCCCAAT-TTG
1 CCCCAGATTGCAAAATTACCGAAATAACCCTAGATTGTAAAATTATCCAAATA-CCCCAATATTG
30255634 TAAAATTATCAAAATAC
65 TAAAATTATCAAAATAC
* * ***
30255651 CCCCAGATTGCAAAATTACTGAAATAACCCTAGTTTGTAAAATTA-CCAAAGTACCCTTGTATTG
1 CCCCAGATTGCAAAATTACCGAAATAACCCTAGATTGTAAAATTATCCAAA-TACCCCAATATTG
*
30255715 TAAAATTATCGAAATAC
65 TAAAATTATCAAAATAC
30255732 CC
1 CC
30255734 TTGTAGTGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
80 8 0.11
81 63 0.89
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
CCCCAGATTGCAAAATTACCGAAATAACCCTAGATTGTAAAATTATCCAAATACCCCAATATTGT
AAAATTATCAAAATAC
Found at i:30257368 original size:13 final size:13
Alignment explanation
Indices: 30257350--30257376 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30257340 TTGGTGGACT
30257350 TAAAATATTTTTC
1 TAAAATATTTTTC
30257363 TAAAATATTTTTC
1 TAAAATATTTTTC
30257376 T
1 T
30257377 GAATGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAAATATTTTTC
Found at i:30259963 original size:27 final size:27
Alignment explanation
Indices: 30259932--30260030 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
30259922 CCTAGTTTTT
*
30259932 AAATTACTAAAATACCCTCAGATTGTA
1 AAATTACCAAAATACCCTCAGATTGTA
30259959 AAATTACCAAAATACCCTC-GATTTGTA
1 AAATTACCAAAATACCCTCAGA-TTGTA
* * * *
30259986 ATATTACCAAAATACCCCCATATTATA
1 AAATTACCAAAATACCCTCAGATTGTA
30260013 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
30260031 TGTAGTGTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 2 0.03
27 60 0.95
28 1 0.02
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAGATTGTA
Found at i:30260040 original size:54 final size:54
Alignment explanation
Indices: 30259932--30260045 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
30259922 CCTAGTTTTT
* * * *
30259932 AAATTACTAAAATACCCTCAGATTGTAAAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCCCAGATTATAAAATTACCAAAATACCCTCGATGTGTA
* * *
30259986 ATATTACCAAAATACCCCCATATTATAAAATTACCAAAATACCCTTG-TAGTGTA
1 AAATTACCAAAATACCCCCAGATTATAAAATTACCAAAATACCCTCGAT-GTGTA
30260040 AAATTA
1 AAATTA
30260046 TTGAAGTATC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCCAGATTATAAAATTACCAAAATACCCTCGATGTGTA
Found at i:30260041 original size:27 final size:27
Alignment explanation
Indices: 30259932--30260045 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
30259922 CCTAGTTTTT
*
30259932 AAATTACTAAAATACCCTCAG-ATTGTA
1 AAATTACCAAAATACCCTC-GTATTGTA
30259959 AAATTACCAAAATACCCTCG-ATTTGTA
1 AAATTACCAAAATACCCTCGTA-TTGTA
* * * *
30259986 ATATTACCAAAATACCCCCATATTATA
1 AAATTACCAAAATACCCTCGTATTGTA
* *
30260013 AAATTACCAAAATACCCTTGTAGTGTA
1 AAATTACCAAAATACCCTCGTATTGTA
30260040 AAATTA
1 AAATTA
30260046 TTGAAGTATC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 2 0.03
27 71 0.96
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGTATTGTA
Found at i:30260097 original size:27 final size:27
Alignment explanation
Indices: 30260011--30260082 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
30260001 CCCCATATTA
** *
30260011 TAAAATTACCAAAATACCCTTGTAGTG
1 TAAAATTACTGAAATACCCTTGTAGCG
* * *
30260038 TAAAATTATTGAAGTATCCTTGTAGCG
1 TAAAATTACTGAAATACCCTTGTAGCG
30260065 TAAAATTACTGAAATACC
1 TAAAATTACTGAAATACC
30260083 TTAGTTGGGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTTGTAGCG
Found at i:30265269 original size:42 final size:41
Alignment explanation
Indices: 30265119--30265270 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 41
30265109 TGAGTTTACC
* * * * *
30265119 TGTAAGACCATATCTGAGATATGACATCGTTGTGATATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCA
* * * * *
30265161 TGTAAGACCAT-GCTGGGACATGGAATCGATATGAGAATCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
* *
30265201 TGTAAGACCATCA-CTGGGCTATTGGCATCAATATGAGATTCCA
1 TGTAAGACCAT-ATCTGGGATA-TGGCATCGATATGAGATT-CA
*
30265244 CGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
30265271 TGGTACAATT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
40 13 0.15
41 23 0.26
42 33 0.38
43 18 0.21
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
Found at i:30267243 original size:33 final size:33
Alignment explanation
Indices: 30267201--30267359 Score: 273
Period size: 33 Copynumber: 4.8 Consensus size: 33
30267191 TGAATAACAT
30267201 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
30267234 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
30267267 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
* * *
30267300 AGTATCAGTACATTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
* *
30267333 AGAATCAGTACAGTCTGGGCCTAAGCC
1 AGTATCAGTACAGTCTGGGCCAAAGCC
30267360 TTATATAGTA
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 121 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (33 bp):
AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
Found at i:30267268 original size:27 final size:31
Alignment explanation
Indices: 30267201--30267387 Score: 211
Period size: 33 Copynumber: 5.9 Consensus size: 31
30267191 TGAATAACAT
30267201 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCC--TTC
30267234 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCC--TTC
30267267 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCC--TTC
* *
30267300 AGTATCAGTACATTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCT-T-C
* *
30267333 AGAATCAGTACAGTCTGGGCCTAAG-CCTT-
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTTC
* *
30267362 A-TAT-AGTAGCAGTGTGGGCCTAAGCC
1 AGTATCAGTA-CAGTCTGGGCCAAAGCC
30267388 AAATGCAGTA
Statistics
Matches: 144, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.03
28 16 0.11
29 2 0.01
31 2 0.01
32 4 0.03
33 116 0.81
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (31 bp):
AGTATCAGTACAGTCTGGGCCAAAGCCCTTC
Found at i:30267397 original size:28 final size:27
Alignment explanation
Indices: 30267338--30267397 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
30267328 TATACAGAAT
**
30267338 CAGTACAGTCTGGGCCTAAGCCTTATA
1 CAGTACAGTCTGGGCCTAAGCCAAATA
* * *
30267365 TAGTAGCAGTGTGGGCCTAAGCCAAATG
1 CAGTA-CAGTCTGGGCCTAAGCCAAATA
30267393 CAGTA
1 CAGTA
30267398 ACAATATAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (27 bp):
CAGTACAGTCTGGGCCTAAGCCAAATA
Found at i:30267409 original size:99 final size:98
Alignment explanation
Indices: 30267201--30267397 Score: 251
Period size: 99 Copynumber: 2.0 Consensus size: 98
30267191 TGAATAACAT
* *
30267201 AGTATCAGTACAGTCTGGGCCAAAGCCCTATTCAGTATCAGTACAGTCTGGGCCAAAGCCCTATT
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATACAGAATCAGTACAGTCTGGGCCAAAGCCC-ATT
** *
30267266 CAGTATCAGTACAGTCTGGGCCAAAGCCCTATTC
65 CAGTATCAGTACAGTCTGGGCCAAAGCCAAATGC
* * *
30267300 AGTATCAGTACATTCTGGGCCTAAGCCCTATACAGAATCAGTACAGTCTGGGCCTAAG-CC-TT-
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATACAGAATCAGTACAGTCTGGGCCAAAGCCCATTC
* *
30267362 A-TAT-AGTAGCAGTGTGGGCCTAAGCCAAATGC
66 AGTATCAGTA-CAGTCTGGGCCAAAGCCAAATGC
30267394 AGTA
1 AGTA
30267398 ACAATATAGT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
93 4 0.05
94 25 0.29
95 1 0.01
96 2 0.02
98 2 0.02
99 53 0.61
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (98 bp):
AGTATCAGTACAGTCTGGGCCAAAGCCCTATACAGAATCAGTACAGTCTGGGCCAAAGCCCATTC
AGTATCAGTACAGTCTGGGCCAAAGCCAAATGC
Found at i:30267821 original size:27 final size:27
Alignment explanation
Indices: 30267757--30267809 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
30267747 GGGCATAATC
*
30267757 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGCATTACA
* *
30267784 GTCACTTTACCCTACAGGGGCATTAC
1 GTCATTTTACCATACAGGGGCATTAC
30267810 GCTCTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACA
Found at i:30267894 original size:27 final size:27
Alignment explanation
Indices: 30267864--30267916 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30267854 GGGTGTTTTG
30267864 GTAAATCT-ACAAACCAAAGGTATTTCA
1 GTAAATCTGA-AAACCAAAGGTATTTCA
* * *
30267891 GTAATTTTGAAAACCAATGGTATTTC
1 GTAAATCTGAAAACCAAAGGTATTTC
30267917 TATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (27 bp):
GTAAATCTGAAAACCAAAGGTATTTCA
Found at i:30267922 original size:27 final size:28
Alignment explanation
Indices: 30267874--30267955 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
30267864 GTAAATCTAC
30267874 AAACCAAAGGTATTTC-AGTAATTTT-GA
1 AAACCAAAGGTATTTCTA-TAATTTTAGA
*
30267901 AAACCAATGGTATTTCTATAATTTTTAGA
1 AAACCAAAGGTATTTCTATAA-TTTTAGA
** * *
30267930 AAGTCAAGGGTATTTCTGTAATTTTA
1 AAACCAAAGGTATTTCTATAATTTTA
30267956 TAAATTAGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.38
28 10 0.21
29 19 0.40
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (28 bp):
AAACCAAAGGTATTTCTATAATTTTAGA
Found at i:30267942 original size:29 final size:28
Alignment explanation
Indices: 30267882--30268035 Score: 111
Period size: 27 Copynumber: 5.6 Consensus size: 28
30267872 ACAAACCAAA
* * * *
30267882 GGTATTTCAGTAATTTTGA-AAACCAAT
1 GGTATTTCTGTAATTTTTAGAAATCAAG
*
30267909 GGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCTGTAATTTTTAGAAA-TCAAG
* * *
30267938 GGTATTTCTGTAA-TTTTATAAATTAGG
1 GGTATTTCTGTAATTTTTAGAAATCAAG
** *
30267965 GGTATTTCTGTAA-TTTTCCAAATTAAG
1 GGTATTTCTGTAATTTTTAGAAATCAAG
* * ** *
30267992 GGTATTTCAGTAA-TATTCCAAATCAGG
1 GGTATTTCTGTAATTTTTAGAAATCAAG
30268019 GGTATTT-TGGTAATTTT
1 GGTATTTCT-GTAATTTT
30268036 AAAAATTAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 77 0.73
28 13 0.12
29 15 0.14
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (28 bp):
GGTATTTCTGTAATTTTTAGAAATCAAG
Found at i:30267975 original size:27 final size:27
Alignment explanation
Indices: 30267909--30268170 Score: 158
Period size: 27 Copynumber: 9.6 Consensus size: 27
30267899 GAAAACCAAT
* * * *
30267909 GGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCTGTAA-TTTTACAAA-TTAGG
*
30267938 GGTATTTCTGTAATTTTATAAATTAGG
1 GGTATTTCTGTAATTTTACAAATTAGG
* *
30267965 GGTATTTCTGTAATTTTCCAAATTAAG
1 GGTATTTCTGTAATTTTACAAATTAGG
* * * *
30267992 GGTATTTCAGTAATATTCCAAATCAGG
1 GGTATTTCTGTAATTTTACAAATTAGG
* *
30268019 GGTATTT-TGGTAATTTTAAAAATTAAG
1 GGTATTTCT-GTAATTTTACAAATTAGG
* * * *
30268046 TGT-TTTTTAGTAATTTTAC-AAGTCGAG
1 GGTATTTCT-GTAATTTTACAAATTAG-G
** * **
30268073 GGTATTTCAATAATTTTATAGGTT-GAG
1 GGTATTTCTGTAATTTTACAAATTAG-G
* * **
30268100 GGTATTTCGGTAATTTCACAAACCAGG
1 GGTATTTCTGTAATTTTACAAATTAGG
**
30268127 GGTATTT-TGGTAATTTTACAAACCAGG
1 GGTATTTCT-GTAATTTTACAAATTAGG
30268154 GGTATTT-TGGTAATTTT
1 GGTATTTCT-GTAATTTT
30268171 GTAAACCAAA
Statistics
Matches: 185, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 6 0.03
27 154 0.83
28 13 0.07
29 12 0.06
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTACAAATTAGG
Found at i:30268020 original size:54 final size:54
Alignment explanation
Indices: 30267854--30268148 Score: 211
Period size: 54 Copynumber: 5.4 Consensus size: 54
30267844 TCGCCTACAA
* * * ** * * *
30267854 GGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTGA-AAACCAA
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTT-ACAAATCAG
* * * * * * *
30267908 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTATAAATTAG
1 GGGTATTT-TGGTAA-TTTTACAAA-TTAAGGGTATTTCAGTAATTTTACAAATCAG
* * *
30267964 GGGTATTTCT-GTAATTTTCCAAATTAAGGGTATTTCAGTAATATTCCAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
* * * * *
30268018 GGGTATTTTGGTAATTTTAAAAATTAAGTGTTTTTTAGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
*** * ** * * * *
30268071 AGGGTATTTCAATAATTTTATAGGTTGAGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
30268126 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
30268149 CCAGGGGTAT
Statistics
Matches: 184, Mismatches: 50, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
53 2 0.01
54 131 0.71
55 16 0.09
56 35 0.19
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
Found at i:30268059 original size:81 final size:81
Alignment explanation
Indices: 30267882--30268086 Score: 191
Period size: 81 Copynumber: 2.5 Consensus size: 81
30267872 ACAAACCAAA
* * * * * ** *
30267882 GGTATTTCAGTAATTTTGA-AAACCAATGGTATTTCTATAATTTTTAGAAAGTCAAGGGTATTTC
1 GGTATTTCTGTAATTTT-ACAAATCAAGGGTATTTCAATAA-TATTCCAAA-TCAGGGGTATTTC
* *
30267946 TGTAATTTTATAAATTAGG
63 TGTAATTTTAAAAATTAAG
* * *
30267965 GGTATTTCTGTAATTTTCCAAATTAAGGGTATTTCAGTAATATTCCAAATCAGGGGTATTT-TGG
1 GGTATTTCTGTAATTTTACAAATCAAGGGTATTTCAATAATATTCCAAATCAGGGGTATTTCT-G
30268029 TAATTTTAAAAATTAAG
65 TAATTTTAAAAATTAAG
* * * *
30268046 TGT-TTTTTAGTAATTTTACAAGTCGAGGGTATTTCAATAAT
1 GGTATTTCT-GTAATTTTACAAATCAAGGGTATTTCAATAAT
30268087 TTTATAGGTT
Statistics
Matches: 99, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
80 5 0.05
81 56 0.57
82 6 0.06
83 32 0.32
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (81 bp):
GGTATTTCTGTAATTTTACAAATCAAGGGTATTTCAATAATATTCCAAATCAGGGGTATTTCTGT
AATTTTAAAAATTAAG
Found at i:30268185 original size:27 final size:27
Alignment explanation
Indices: 30268101--30268186 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
30268091 TAGGTTGAGG
* * ***
30268101 GTATTTCGGTAATTTCACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAAAA
***
30268128 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAAAA
**
30268155 GTATTTTGGTAATTTTGTAAACCAAAA
1 GTATTTTGGTAATTTTACAAACCAAAA
30268182 GTATT
1 GTATT
30268187 CAGTAATTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAAAA
Found at i:30268217 original size:27 final size:27
Alignment explanation
Indices: 30268184--30268258 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
30268174 AACCAAAAGT
30268184 ATTCAGTAATTCTACCCTACAAGGGCA
1 ATTCAGTAATTCTACCCTACAAGGGCA
* * *
30268211 TTTCAGTAATTCTACACTACAGGGGCA
1 ATTCAGTAATTCTACCCTACAAGGGCA
* *
30268238 ATTCAGTAATACTAGCCTACA
1 ATTCAGTAATTCTACCCTACA
30268259 GATATGAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (27 bp):
ATTCAGTAATTCTACCCTACAAGGGCA
Found at i:30270321 original size:33 final size:33
Alignment explanation
Indices: 30270269--30270378 Score: 157
Period size: 33 Copynumber: 3.3 Consensus size: 33
30270259 AGTGAATAAC
* *
30270269 ACAGTATCAGTACAGTCTGGGCCAAAGGCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
* * *
30270302 TCAGTATCAGCACAATCTGGGCCTAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
*
30270335 ACAGTATCAGTACAGTCTGGACCTAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
*
30270368 ACAGTAGCAGT
1 ACAGTATCAGT
30270379 GTTGGCCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (33 bp):
ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
Found at i:30270387 original size:28 final size:30
Alignment explanation
Indices: 30270321--30270391 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
30270311 GCACAATCTG
*
30270321 GGCCTAAGCCCTATACAGTATCAGTACAGTCT
1 GGCCTAAGCCCTATACAGTAGCAGT--AGTCT
30270353 GGACCTAAGCCCTATACAGTAGCAGT-GT-T
1 GG-CCTAAGCCCTATACAGTAGCAGTAGTCT
30270382 GGCCTAAGCC
1 GGCCTAAGCC
30270392 AAATGCAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 8 0.22
29 3 0.08
30 2 0.05
32 2 0.05
33 22 0.59
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (30 bp):
GGCCTAAGCCCTATACAGTAGCAGTAGTCT
Found at i:30270803 original size:27 final size:26
Alignment explanation
Indices: 30270762--30270861 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
30270752 GGCATAATCA
*
30270762 TCATTTTGCCATACAAGGGTATTACAG
1 TCATTTTACC-TACAAGGGTATTACAG
* * * *
30270789 TCACTTTACCCTACAGGGGCATTACGG
1 TCATTTTA-CCTACAAGGGTATTACAG
* * * **
30270816 TCTTTTTACCTATTAGGGGTATTTTAG
1 TCATTTTACCTA-CAAGGGTATTACAG
30270843 TCATTTTACCTACAAGGGT
1 TCATTTTACCTACAAGGGT
30270862 GTTTTGGTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
26 9 0.16
27 45 0.80
28 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTACAG
Found at i:30270898 original size:27 final size:27
Alignment explanation
Indices: 30270868--30270920 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
30270858 GGGTGTTTTG
30270868 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
30270895 GTAATTTTGCAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
30270921 TCTAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:30271026 original size:54 final size:54
Alignment explanation
Indices: 30270883--30271093 Score: 210
Period size: 54 Copynumber: 3.9 Consensus size: 54
30270873 TCTACAAACC
* * * * *
30270883 AAGGGTATTTCAGTAATTTTGCAAACCAATGGTATTTCTCTAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTGTAA-TTTTA-AAAATT
* * * * * **
30270939 AAGGATATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTAATTTTCCAAATT
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTGTAATTTTAAAAATT
* *
30270993 AAGGGTATTTTAGTAATTTTCCAAATCAAGGGTATTT-TGGTAATTTTAAAAATT
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCT-GTAATTTTAAAAATT
* * ** *
30271047 AAGGGTATTTCAGTAATTTTACAAGT-GGGGGTATTTCGGTAATTTTA
1 AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTGTAATTTTA
30271094 TAGGTTGATG
Statistics
Matches: 126, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 18 0.14
54 69 0.55
55 4 0.03
56 35 0.28
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGCAAATCAAGGGTATTTCTGTAATTTTAAAAATT
Found at i:30271067 original size:27 final size:27
Alignment explanation
Indices: 30270883--30271093 Score: 145
Period size: 27 Copynumber: 7.8 Consensus size: 27
30270873 TCTACAAACC
** **
30270883 AAGGGTATTTCAGTAATTTTGCAAACC
1 AAGGGTATTTCAGTAATTTTAAAAATT
* ** * *
30270910 AATGGTATTTCTCTAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAA-TTTTA-AAAATT
* * **
30270939 AAGGATATTTCTGTAATTTTGTAAATT
1 AAGGGTATTTCAGTAATTTTAAAAATT
* * **
30270966 AGGGGTATTTCTGTAATTTTCCAAATT
1 AAGGGTATTTCAGTAATTTTAAAAATT
* ** *
30270993 AAGGGTATTTTAGTAATTTTCCAAATC
1 AAGGGTATTTCAGTAATTTTAAAAATT
**
30271020 AAGGGTATTTTGGTAATTTTAAAAATT
1 AAGGGTATTTCAGTAATTTTAAAAATT
* *
30271047 AAGGGTATTTCAGTAATTTT-ACAAGT
1 AAGGGTATTTCAGTAATTTTAAAAATT
** *
30271073 GGGGGTATTTCGGTAATTTTA
1 AAGGGTATTTCAGTAATTTTA
30271094 TAGGTTGATG
Statistics
Matches: 148, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 21 0.14
27 103 0.70
28 8 0.05
29 16 0.11
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTTTAAAAATT
Found at i:30271107 original size:53 final size:53
Alignment explanation
Indices: 30270967--30271123 Score: 154
Period size: 53 Copynumber: 2.9 Consensus size: 53
30270957 TTGTAAATTA
* ** * * *
30270967 GGGGTATTTCTGTAATTTTCCAAATTAAGGGTATTTTAGTAATTTTC-CAAATCA
1 GGGGTATTTCGGTAATTTTAAAAATTAAGGGTATTTCAGTAA-TTTCACAAGT-G
* * *
30271021 AGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCAGTAATTTTACAAGTG
1 GGGGTATTTCGGTAATTTTAAAAATTAAGGGTATTTCAGTAATTTCACAAGTG
* ** * * *
30271074 GGGGTATTTCGGTAATTTTATAGGTTGATGGTATTTCGGTAATTTCACAA
1 GGGGTATTTCGGTAATTTTAAAAATTAAGGGTATTTCAGTAATTTCACAA
30271124 ACCAGGGGTA
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
53 44 0.52
54 40 0.48
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGGTATTTCGGTAATTTTAAAAATTAAGGGTATTTCAGTAATTTCACAAGTG
Found at i:30271111 original size:27 final size:27
Alignment explanation
Indices: 30270968--30271118 Score: 110
Period size: 27 Copynumber: 5.6 Consensus size: 27
30270958 TGTAAATTAG
* * *
30270968 GGGTATTTCTGTAATTTTCCAAA-TTAA
1 GGGTATTTCGGTAATTTT-AAAAGTTGA
** * **
30270995 GGGTATTTTAGTAATTTTCCAAA-TCAA
1 GGGTATTTCGGTAATTTT-AAAAGTTGA
* * *
30271022 GGGTATTTTGGTAATTTTAAAAATTAA
1 GGGTATTTCGGTAATTTTAAAAGTTGA
* * *
30271049 GGGTATTTCAGTAATTTTACAAG-TGG
1 GGGTATTTCGGTAATTTTAAAAGTTGA
* *
30271075 GGGTATTTCGGTAATTTTATAGGTTGA
1 GGGTATTTCGGTAATTTTAAAAGTTGA
*
30271102 TGGTATTTCGGTAATTT
1 GGGTATTTCGGTAATTT
30271119 CACAAACCAG
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 24 0.23
27 81 0.77
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTAAAAGTTGA
Found at i:30271195 original size:27 final size:27
Alignment explanation
Indices: 30271160--30271235 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
30271150 AACCAAAGGT
*
30271160 ATTCAGTAATTTTACCCTACAAGGGCA
1 ATTCAGTAATTCTACCCTACAAGGGCA
* * * *
30271187 TTTCAGTAATTCTATCCTATACGGGCA
1 ATTCAGTAATTCTACCCTACAAGGGCA
* *
30271214 ATTCAGTAATACTAGCCTACAA
1 ATTCAGTAATTCTACCCTACAA
30271236 ATATGAGATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (27 bp):
ATTCAGTAATTCTACCCTACAAGGGCA
Found at i:30273349 original size:33 final size:33
Alignment explanation
Indices: 30273249--30273356 Score: 144
Period size: 33 Copynumber: 3.3 Consensus size: 33
30273239 TGAATAACAT
** * *
30273249 AGTATCAGTACAGTCCAGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
* *
30273282 AATATCAGTACAGTTTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
*
30273315 AGTATCAGTACAGTCTGGGCCTAACCCCTATAC
1 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
*
30273348 AGTAGCAGT
1 AGTATCAGT
30273357 GTGGGCCTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (33 bp):
AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
Found at i:30273361 original size:28 final size:28
Alignment explanation
Indices: 30273287--30273366 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 28
30273277 TATTCAATAT
* *
30273287 CAGTA-CAGTTTGGGCCTAAGCCCTATA
1 CAGTAGCAGTCTGGGCCTAACCCCTATA
30273314 CAGTATCAGTACAGTCTGGGCCTAACCCCTATA
1 CAG--T-AG--CAGTCTGGGCCTAACCCCTATA
*
30273347 CAGTAGCAGTGTGGGCCTAA
1 CAGTAGCAGTCTGGGCCTAA
30273367 GCGAAATGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 3 0.07
28 13 0.30
29 1 0.02
30 3 0.07
31 1 0.02
33 23 0.52
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAGCAGTCTGGGCCTAACCCCTATA
Found at i:30273770 original size:27 final size:26
Alignment explanation
Indices: 30273740--30273840 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
30273730 GGGCATAATC
30273740 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACC-TACAGGGGTATTACA
* * *
30273767 GTCACTTTACCCTACAGGGGCATTACG
1 GTCATTTTA-CCTACAGGGGTATTACA
* * **
30273794 GTCTTTTTACCTATTAGGGGTATTTTA
1 GTCATTTTACCTA-CAGGGGTATTACA
* *
30273821 GTCATTTCACCTACAAGGGT
1 GTCATTTTACCTACAGGGGT
30273841 GTTTTGCTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
26 9 0.16
27 47 0.81
28 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACA
Found at i:30273886 original size:27 final size:27
Alignment explanation
Indices: 30273856--30274148 Score: 175
Period size: 27 Copynumber: 10.9 Consensus size: 27
30273846 GCTAAATCTA
* *
30273856 CAAACCAAGGGTATTTCAATAATTTTG
1 CAAATCAAGGGTATTTCAGTAATTTTG
* **
30273883 CAAACCAATAGTATTTCTA-TAATTTTTAG
1 CAAATCAAGGGTATTTC-AGTAA-TTTT-G
*
30273912 -AAAGTCAAGGGTATTTCTGTAATTTTG
1 CAAA-TCAAGGGTATTTCAGTAATTTTG
* * * *
30273939 TAAATTAGGGGTATTTCTGTAATTTT-
1 CAAATCAAGGGTATTTCAGTAATTTTG
* * * *
30273965 TAAATTAAGGGTATTTTAGTAATTTTC
1 CAAATCAAGGGTATTTCAGTAATTTTG
** *
30273992 CAAATC-AGGGTATTTTGGTAATTTTC
1 CAAATCAAGGGTATTTCAGTAATTTTG
*
30274018 CAAATCAAGGGTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCAGTAATTTTG
* *** * *
30274045 CAAGTGGGGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCAGTAATTTTG
* ** ** *
30274072 TAGGTTGAGGGTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCAGTAATTTTG
* * *
30274099 CAAACCAGGGGTACTTT-GGTAATTTTG
1 CAAATCAAGGGTA-TTTCAGTAATTTTG
* * *
30274126 TAAACCAAAGGTA-TTCAGTAATT
1 CAAATCAAGGGTATTTCAGTAATT
30274149 CTACCCTACA
Statistics
Matches: 216, Mismatches: 40, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.01
26 54 0.25
27 128 0.59
28 18 0.08
29 14 0.06
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCAGTAATTTTG
Found at i:30274110 original size:54 final size:53
Alignment explanation
Indices: 30273862--30274148 Score: 229
Period size: 54 Copynumber: 5.3 Consensus size: 53
30273852 TCTACAAACC
* * * *** ** *
30273862 AAGGGTATTTCAATAATTTTGCAAACCAATAGTATTTCTATAATTTTTAGAAAGTC
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTT--AAA-TT
* ** * *
30273918 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTAATTTTTAAATT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTTAAATT
* * * * *
30273971 AAGGGTATTTTAGTAATTTTCCAAATCA-GGGTATTTTGGTAATTTTCCAAATC
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTT-TAAATT
* ** **
30274024 AAGGGTATTTCAGTAATTTTACAAGTGGGGGGTATTTCGGTAATTTTATAGGTT
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTT-TAAATT
* * **
30274078 GAGGGTATTTCAGTAATTTTACAAACCAGGGGTACTTT-GGTAATTTTGTAAACC
1 AAGGGTATTTCAGTAATTTTACAAATCAGGGGTA-TTTCGGTAATTTT-TAAATT
*
30274132 AAAGGTA-TTCAGTAATT
1 AAGGGTATTTCAGTAATT
30274149 CTACCCTACA
Statistics
Matches: 186, Mismatches: 42, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
52 16 0.09
53 61 0.33
54 67 0.36
55 3 0.02
56 39 0.21
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
AAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTCGGTAATTTTTAAATT
Found at i:30274174 original size:27 final size:27
Alignment explanation
Indices: 30274138--30274210 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
30274128 AACCAAAGGT
30274138 ATTCAGTAATTCTACCCTACAAGGGCA
1 ATTCAGTAATTCTACCCTACAAGGGCA
* * *
30274165 TTTTAGTAATTCTACCCTACAGGGGCA
1 ATTCAGTAATTCTACCCTACAAGGGCA
* *
30274192 ATTCAGTAATACTAGCCTA
1 ATTCAGTAATTCTACCCTA
30274211 GAGATTCACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (27 bp):
ATTCAGTAATTCTACCCTACAAGGGCA
Found at i:30278676 original size:26 final size:26
Alignment explanation
Indices: 30278640--30278722 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
30278630 ATGAAATGCC
30278640 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAAACCAT
* *
30278666 TATCATGGAACATTTACGTAATCCAT
1 TATCATGGAACATTTACCTAAACCAT
*
30278692 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCAT
30278718 TATCA
1 TATCA
30278723 ATTTTTACCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAAACCAT
Found at i:30285512 original size:12 final size:11
Alignment explanation
Indices: 30285483--30285531 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
30285473 TATAAACACC
30285483 TATTATTTATTGT
1 TATT-TTTATT-T
30285496 TATTTTCTATTT
1 TATTTT-TATTT
30285508 TATTTTTATCTT
1 TATTTTTAT-TT
*
30285520 TATTTATATTT
1 TATTTTTATTT
30285531 T
1 T
30285532 TCAATTACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.18
12 19 0.58
13 8 0.24
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:30289697 original size:40 final size:40
Alignment explanation
Indices: 30289641--30289912 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
30289631 AACATTGGAT
30289641 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
30289681 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
30289721 TATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
30289761 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
30289801 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
30289841 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
30289881 TATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 TATATCCGGGCTAAGACCCGAAGGCAATTATG
30289913 TTTGCGGCTG
Statistics
Matches: 214, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:30300154 original size:29 final size:28
Alignment explanation
Indices: 30300122--30300182 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
30300112 ATTTATATTC
30300122 ATATGACCCATTAGGCCCAAATCACCTTT
1 ATATGACCCATTAGGCCCAAATCACC-TT
* *
30300151 ATATGGCCCATTAGGCCCATATCACCTT
1 ATATGACCCATTAGGCCCAAATCACCTT
30300179 ATAT
1 ATAT
30300183 TCATGCTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (28 bp):
ATATGACCCATTAGGCCCAAATCACCTT
Found at i:30300460 original size:104 final size:104
Alignment explanation
Indices: 30300280--30300487 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
30300270 GCCTATTCTG
30300280 CCCGGGTTGGCCAGATCACAGACTGTAACGCCCCAATTTTTGGGAATTCTGTAAAAGTTGTAAAA
1 CCCGGGTTGGCCAGATCACAGACTGTAACGCCCCAATTTTTGGGAATTCTGTAAAAGTTGTAAAA
30300345 TTTAAAATTCTGTGTTCTGTTTGGTATGTGTAGGATTAA
66 TTTAAAATTCTGTGTTCTGTTTGGTATGTGTAGGATTAA
30300384 CCCGGGTTGGCCAGATCACAGACTGTAACGCCCCAATTTTTGGGAATTCTGTAAAAGTTGTAAAA
1 CCCGGGTTGGCCAGATCACAGACTGTAACGCCCCAATTTTTGGGAATTCTGTAAAAGTTGTAAAA
*
30300449 TTTAAAATTCTGTGTTTTGTTTGGTATGTGTAGGATTAA
66 TTTAAAATTCTGTGTTCTGTTTGGTATGTGTAGGATTAA
30300488 TCATGTTGGT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (104 bp):
CCCGGGTTGGCCAGATCACAGACTGTAACGCCCCAATTTTTGGGAATTCTGTAAAAGTTGTAAAA
TTTAAAATTCTGTGTTCTGTTTGGTATGTGTAGGATTAA
Found at i:30302143 original size:28 final size:28
Alignment explanation
Indices: 30302111--30302175 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
30302101 ATTTACTAGA
* *
30302111 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATATATGCAAAATGACCATT
* *
30302139 ATACCCCTATATGTGCAAAATGACCTTT
1 ATACCCCTATATATGCAAAATGACCATT
30302167 ATACCCCTA
1 ATACCCCTA
30302176 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATATATGCAAAATGACCATT
Found at i:30302339 original size:27 final size:28
Alignment explanation
Indices: 30302281--30302370 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
30302271 AGGAAGCGTC
*
30302281 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
30302309 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
30302336 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
30302365 CTGGTG
1 CTGGTG
30302371 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:30302381 original size:29 final size:28
Alignment explanation
Indices: 30302291--30302381 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
30302281 CTGGTGGCTA
* * *
30302291 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
30302319 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
30302346 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
30302375 TGTCACA
1 TGCCACA
30302382 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:30302389 original size:55 final size:56
Alignment explanation
Indices: 30302281--30302395 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
30302271 AGGAAGCGTC
* * *
30302281 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
30302336 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
30302392 CTGG
1 CTGG
30302396 CAGCCACGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:30306587 original size:40 final size:40
Alignment explanation
Indices: 30306550--30306731 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
30306540 GCTACTCGTT
*
30306550 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATT-TAGTAACTCGCA
* * *
30306590 CAAATACCTTCAGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* * * *
30306630 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* * * * * *
30306669 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCAGATTTAGTAAC-TCGCA
30306710 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30306732 GGACATCATT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 71 0.61
41 13 0.11
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
Found at i:30313922 original size:39 final size:40
Alignment explanation
Indices: 30313797--30313928 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
30313787 GCTACTCGTT
30313797 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCAGATT-TAGTAACTCGCA
* *
30313837 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACATAGCCCAGATTTAGTAACTCGCA
* * * * *
30313877 CCAATGCCTTCAGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCAGATTTAGTAACTCGCA
30313916 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30313929 ATCTAAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 31 0.39
40 47 0.59
41 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCAGATTTAGTAACTCGCA
Found at i:30319405 original size:16 final size:15
Alignment explanation
Indices: 30319380--30319409 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30319370 CTAGATCGGC
30319380 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAAGCT
30319395 AAAATGCCGAAAAGC
1 AAAA-GCCGAAAAGC
30319410 CGGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGCCGAAAAGCT
Found at i:30319888 original size:27 final size:28
Alignment explanation
Indices: 30319827--30319916 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
30319817 AGGAAGCGTC
*
30319827 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * **
30319855 CTTGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
30319882 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
30319911 CTGGTG
1 CTGGTG
30319917 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:30319927 original size:29 final size:28
Alignment explanation
Indices: 30319837--30319927 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
30319827 CTGGTGGCTA
* * * *
30319837 TGCCACAAATTATCTGTTCTTGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
30319865 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
30319892 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
30319921 TGTCACA
1 TGCCACA
30319928 TTTTCTATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:30320986 original size:16 final size:16
Alignment explanation
Indices: 30320967--30321003 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30320957 AAACTTTCCA
30320967 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGG
* *
30320983 CTTTTTGGTATTTCGG
1 CTTTTCGGCATTTCGG
30320999 CTTTT
1 CTTTT
30321004 TCCGATCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.05, C:0.19, G:0.22, T:0.54
Consensus pattern (16 bp):
CTTTTCGGCATTTCGG
Found at i:30325185 original size:28 final size:29
Alignment explanation
Indices: 30325140--30325215 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
30325130 TATATACATG
* *
30325140 CATATGGCCCA-CTTGGCCCAA-TCTTATT
1 CATATGGCCCATC-AGGCCCAATTCATATT
*
30325168 TATATGGCCCATCAGGCCCAATTCATATT
1 CATATGGCCCATCAGGCCCAATTCATATT
* *
30325197 CATATGACCCATTAGGCCC
1 CATATGGCCCATCAGGCCC
30325216 CAAATCACCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 17 0.43
29 23 0.57
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTCATATT
Found at i:30325230 original size:29 final size:28
Alignment explanation
Indices: 30325167--30325230 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
30325157 CCAATCTTAT
* * *
30325167 TTATATGGCCCATCAGGCCCAATTCATA
1 TTATATGACCCATCAGGCCCAAATCACA
* *
30325195 TTCATATGACCCATTAGGCCCCAAATCACC
1 TT-ATATGACCCATCAGG-CCCAAATCACA
30325225 TTATAT
1 TTATAT
30325231 TCATGCTCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 2 0.07
29 17 0.59
30 10 0.34
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (28 bp):
TTATATGACCCATCAGGCCCAAATCACA
Found at i:30345949 original size:40 final size:40
Alignment explanation
Indices: 30345893--30346062 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
30345883 GGACTAAGAT
* * *
30345893 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
30345933 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
30345973 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * * *
30346013 CCGAAGGCA-TGGTGTGAGTTACTAAAACTGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
30346052 CCGAAGGCATT
1 CCGAAGGCATT
30346063 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 31 0.28
40 80 0.72
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:30346082 original size:79 final size:80
Alignment explanation
Indices: 30345915--30346097 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
30345905 GTGCGAGATA
* * * *
30345915 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
30345980 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * * *
30345995 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACTGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30346059 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30346074 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30346098 TACGTGATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 46 0.55
80 24 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30348228 original size:39 final size:39
Alignment explanation
Indices: 30348174--30348253 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
30348164 ATAAAGTGAC
*
30348174 AAGTAAATGTCGAGTTATCGTACCCACAGAGACTATGAA
1 AAGTAAATGTCGAGTTATCGTACCCACAGAGACCATGAA
30348213 AAGTAAATGTCGAGTTATCGTACCCACAGAGACCATGAA
1 AAGTAAATGTCGAGTTATCGTACCCACAGAGACCATGAA
30348252 AA
1 AA
30348254 TAATTATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (39 bp):
AAGTAAATGTCGAGTTATCGTACCCACAGAGACCATGAA
Found at i:30353383 original size:47 final size:47
Alignment explanation
Indices: 30353329--30353642 Score: 484
Period size: 47 Copynumber: 6.6 Consensus size: 47
30353319 TATTTGAATA
*
30353329 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30353376 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30353423 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
30353472 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TG-TGATAAGGCCTAATGGCCAATGTGATG
*
30353522 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
30353569 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
30353616 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30353643 TCCCGAAGGG
Statistics
Matches: 248, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
47 154 0.62
48 2 0.01
49 47 0.19
50 45 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:30353518 original size:146 final size:144
Alignment explanation
Indices: 30353329--30353639 Score: 502
Period size: 146 Copynumber: 2.2 Consensus size: 144
30353319 TATTTGAATA
30353329 AATGTGAAAGTGTATATA--TG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
30353391 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTG--TATATATGTGATAAGGCCG
* *
30353456 AATGGCCGATGTGATG
129 AATGGCCAACGTGATG
30353472 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
30353537 ATATGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAG
66 ATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
30353602 TGGCCAACGTGATG
131 TGGCCAACGTGATG
* *
30353616 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
30353640 AAGTCCCGAA
Statistics
Matches: 156, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
143 18 0.12
144 52 0.33
145 2 0.01
146 84 0.54
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (144 bp):
AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
TGGCCAACGTGATG
Found at i:30353542 original size:25 final size:25
Alignment explanation
Indices: 30353514--30353592 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
30353504 CTAATGGCCG
30353514 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
30353539 ATGTGAT-AAGGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
*
30353561 ATGCGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
30353586 ATGTGAT
1 ATGTGAT
30353593 AGGGCCGAGT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 8 0.23
25 13 0.37
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:30358791 original size:12 final size:12
Alignment explanation
Indices: 30358774--30358798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30358764 CCCCACACGC
30358774 CTGTGTGCTAGG
1 CTGTGTGCTAGG
30358786 CTGTGTGCTAGG
1 CTGTGTGCTAGG
30358798 C
1 C
30358799 CATGTAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (12 bp):
CTGTGTGCTAGG
Done.