Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 113 of 433
Found at i:34449183 original size:30 final size:31
Alignment explanation
Indices: 34449140--34449197 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
34449130 TTAATACAAA
* *
34449140 TTTTGGCAAAATTACATTTTTGTCCCTAAAC
1 TTTTGGCAAAATTACACTTTTGCCCCTAAAC
*
34449171 TTTT-GCATAATTACACTTTTGCCCCTA
1 TTTTGGCAAAATTACACTTTTGCCCCTA
34449198 GGCTCAGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (31 bp):
TTTTGGCAAAATTACACTTTTGCCCCTAAAC
Found at i:34460786 original size:20 final size:20
Alignment explanation
Indices: 34460761--34460802 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
34460751 GTAAAATTTT
34460761 ATAATTGTATTATGTCTTGA
1 ATAATTGTATTATGTCTTGA
34460781 ATAATTGTATTATGTCTTGA
1 ATAATTGTATTATGTCTTGA
34460801 AT
1 AT
34460803 GTTGTCATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (20 bp):
ATAATTGTATTATGTCTTGA
Found at i:34465302 original size:30 final size:30
Alignment explanation
Indices: 34465268--34465325 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34465258 ATTTTCAGGC
* *
34465268 CTAGGGGTAAAATGGTCATTTTATCAAAAT
1 CTAGGGGGAAAATGGTCATTTTACCAAAAT
*
34465298 CTAGGGGGAAAATGGTTATTTTACCAAA
1 CTAGGGGGAAAATGGTCATTTTACCAAA
34465326 GATGTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (30 bp):
CTAGGGGGAAAATGGTCATTTTACCAAAAT
Found at i:34465734 original size:47 final size:45
Alignment explanation
Indices: 34465667--34465835 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 45
34465657 ATTGAGGGCT
* *
34465667 AGTGTAAGACATGTCCGGGACATGCATCAGCCATATTATGA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCAT-TGA-GACGAAGCC
* * *
34465713 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAAGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCATTGAGACGAA-GCC
*
34465761 AGTGTAAGACATGTCTGGGACATGCATCGACC-TCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCATTGAGACG-AAGCC
34465807 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
34465836 GCTACGAGAT
Statistics
Matches: 107, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.02
46 55 0.51
47 35 0.33
48 15 0.14
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATTGAGACGAAGCC
Found at i:34465908 original size:47 final size:45
Alignment explanation
Indices: 34465664--34465929 Score: 198
Period size: 47 Copynumber: 5.7 Consensus size: 45
34465654 GTTATTGAGG
* * * * *
34465664 GCTAGTGTAAGACATGTCCGGGACATGCATCAGCCA-TATTATGAGA-
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACACGA-GACGA-AT
* * * * *
34465710 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAAG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACA-CGAGACGAAT
*
34465758 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACGTAA-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CACGAGACG-AAT
* * *
34465804 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-AT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGAGACGAAT
* * * *
34465849 AGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACAAGACGAGT
1 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACACGAGACGAAT
* *
34465897 GCTAGTATAAGATCGTGTCTGGGACATCGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
34465930 AGCACCTTAC
Statistics
Matches: 178, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 69 0.39
47 80 0.45
48 26 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACACGAGACGAAT
Found at i:34465919 original size:140 final size:141
Alignment explanation
Indices: 34465667--34465929 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 141
34465657 ATTGAGGGCT
* *
34465667 AGTGTAAGACATGTCCGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * ** *
34465732 GACATGGCATTGGCATTGAGACGAAGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATGGCATCGACATCAAGACGAAGGCTAGTATAAGACATGTCTGGGACATCGCATCGACCTCG
34465796 AGACGTAAGCC
131 AGACGTAAGCC
* * * * ** *
34465807 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTG
*
34465871 GGACATGGCATCGACA-CAAGACG-AGTGCTAGTATAAGATCGTGTCTGGGACATCGCATC
65 GGACATGGCATCGACATCAAGACGAAG-GCTAGTATAAGA-CATGTCTGGGACATCGCATC
34465930 AGCACCTTAC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
138 2 0.02
139 16 0.15
140 80 0.77
141 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCAAGACGAAGGCTAGTATAAGACATGTCTGGGACATCGCATCGACCTCG
AGACGTAAGCC
Found at i:34469944 original size:46 final size:46
Alignment explanation
Indices: 34469755--34469971 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 46
34469745 ATTGAAGGCT
* * * * * *
34469755 AGTGTAAGACATGTCCGGGACATGCATCATCCA-TATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGATAGCC
* * ** *
34469801 AGTGTAAGACTATGTCTGGGATATGGCATCAGC-ATCGAGACGAGGGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCTA-CGAGATGATAGCC
* * * * *
34469849 AGTGTAAGACATGTCCGGGACAAGCATCGGCCT-CGTGA-CATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATGAT-AGCC
* *
34469895 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATAGCC
*
34469941 AGTGTAAGACCATGTTTGGGACATGGCATCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCA
34469972 ACATAAGACG
Statistics
Matches: 136, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 66 0.49
47 38 0.28
48 28 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATAGCC
Found at i:34470010 original size:140 final size:141
Alignment explanation
Indices: 34469755--34470020 Score: 304
Period size: 140 Copynumber: 1.9 Consensus size: 141
34469745 ATTGAAGGCT
* * * *
34469755 AGTGTAAGACATGTCCGGGACATGCATCATCCATATTATGAGAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * * * *
34469820 GATATGGCATCAGCATCGAGACGAGGGCTAGTGTAAGACATGTCCGGGACA-AGCATCGGCCTCG
66 GACATGGCATCAACATCAAGACGAGGGCTAGTGGAAGACACGTCCAGGACATAGCATCGGCCTCG
34469884 TGACATAAGCC
131 TGACATAAGCC
* * * * * *
34469895 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCCGGGACATGCATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTG
* * * * *
34469959 GGACATGGCATCAACAT-AAGACGAGTGCTAGTGGCAGACCGCGTCTAGGACATGGCATCGGC
65 GGACATGGCATCAACATCAAGACGAGGGCTAGTGGAAGA-CACGTCCAGGACATAGCATCGGC
34470021 ACCTTACCCA
Statistics
Matches: 102, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
139 17 0.17
140 76 0.75
141 9 0.09
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (141 bp):
AGTGTAAGACATGTCCGGGACATGCATCAGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAACATCAAGACGAGGGCTAGTGGAAGACACGTCCAGGACATAGCATCGGCCTCG
TGACATAAGCC
Found at i:34472206 original size:32 final size:32
Alignment explanation
Indices: 34472170--34472235 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
34472160 CTTCATAACA
34472170 AAATCACAAATACATATTCAATTCATTAACTT
1 AAATCACAAATACATATTCAATTCATTAACTT
*
34472202 AAATCACAAATACATATTCAATTTATTAACTT
1 AAATCACAAATACATATTCAATTCATTAACTT
34472234 AA
1 AA
34472236 CTTTTCAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATCACAAATACATATTCAATTCATTAACTT
Found at i:34472486 original size:2 final size:2
Alignment explanation
Indices: 34472479--34472538 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
34472469 AAGCGCATTC
34472479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34472521 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
34472539 GCTCAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34479337 original size:10 final size:10
Alignment explanation
Indices: 34479324--34479372 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
34479314 CGTACATACA
34479324 TGTACCATAT
1 TGTACCATAT
*
34479334 TGTACCAATTT
1 TGTACC-ATAT
34479345 TCGTA-CATACT
1 T-GTACCATA-T
34479356 TGTACCATAT
1 TGTACCATAT
34479366 TGTACCA
1 TGTACCA
34479373 ATTTCCGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 19 0.58
11 11 0.33
12 3 0.09
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (10 bp):
TGTACCATAT
Found at i:34479350 original size:32 final size:32
Alignment explanation
Indices: 34479312--34479406 Score: 127
Period size: 32 Copynumber: 3.0 Consensus size: 32
34479302 CAATTGAATC
34479312 TCCGTACATACATGTACCATATTGTACCAATT
1 TCCGTACATACATGTACCATATTGTACCAATT
* *
34479344 TTCGTACATACTTGTACCATATTGTACCAATT
1 TCCGTACATACATGTACCATATTGTACCAATT
* * * * *
34479376 TCCGTAAATACCTGTATCATCTCGTACCAAT
1 TCCGTACATACATGTACCATATTGTACCAAT
34479407 CTCATACCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.36
Consensus pattern (32 bp):
TCCGTACATACATGTACCATATTGTACCAATT
Found at i:34479577 original size:28 final size:28
Alignment explanation
Indices: 34479509--34479582 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
34479499 TTCTGGATGT
*
34479509 TTCGCACACTAAGTGCCATCCTCATTAC
1 TTCGAACACTAAGTGCCATCCTCATTAC
* *
34479537 TTCGCACACTAAGTGCCATCCCTGA-TAC
1 TTCGAACACTAAGTGCCAT-CCTCATTAC
**
34479565 TTCGAACGTTAAGTGCCA
1 TTCGAACACTAAGTGCCA
34479583 CATATAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 37 0.90
29 4 0.10
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
TTCGAACACTAAGTGCCATCCTCATTAC
Found at i:34481397 original size:2 final size:2
Alignment explanation
Indices: 34481390--34481432 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
34481380 TTCATTCTGT
34481390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34481432 T
1 T
34481433 CATAGTCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34488737 original size:42 final size:43
Alignment explanation
Indices: 34488632--34488795 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
34488622 TCATACAACA
* * * * *
34488632 CCAACGTCCCAGACGTGGCCTTACATGTAA-TCACATATCGGTG
1 CCAACGTCCCAGACATGGTCTTACACG-AACTCACAAATCGATG
* * * * *
34488675 CC-ACTGTCCTAGATAGGGTCTTACACGAACTCATATA-CGATG
1 CCAAC-GTCCCAGACATGGTCTTACACGAACTCACAAATCGATG
* * *
34488717 CCGATGTCCCAGACATGGTCTTACACGTAAGTCACAAATCGATG
1 CCAACGTCCCAGACATGGTCTTACACG-AACTCACAAATCGATG
* * *
34488761 CCAACGTCCCAGACGTGGCCTTACACGAAATCACA
1 CCAACGTCCCAGACATGGTCTTACACGAACTCACA
34488796 TATTGGAATC
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.30
43 39 0.41
44 28 0.29
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (43 bp):
CCAACGTCCCAGACATGGTCTTACACGAACTCACAAATCGATG
Found at i:34507632 original size:28 final size:28
Alignment explanation
Indices: 34507600--34507656 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
34507590 TTCATATAAT
34507600 ATAGTTGACATCTTTTACTGTAAAGGCA
1 ATAGTTGACATCTTTTACTGTAAAGGCA
34507628 ATAGTTGACATCTTTTACTGTAAAGGCA
1 ATAGTTGACATCTTTTACTGTAAAGGCA
34507656 A
1 A
34507657 ATTACATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (28 bp):
ATAGTTGACATCTTTTACTGTAAAGGCA
Found at i:34513480 original size:13 final size:13
Alignment explanation
Indices: 34513462--34513486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34513452 TACGTGATAT
34513462 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34513475 GTGTGAAAATTT
1 GTGTGAAAATTT
34513487 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34514636 original size:44 final size:42
Alignment explanation
Indices: 34514577--34514691 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 42
34514567 CTCCGATATG
** *
34514577 TGATTTCGTGTAAGACCATGTCTGGGATGTTGACATCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATCGACATCGTATT
*
34514618 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATCGACATCGTATT
*
34514663 TGATTTCGTGTAAGACCCTGTCTGGGACA
1 TGATTTCGTGTAAGACCATGTCTGGGACA
34514692 CACGGGCATA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
41 1 0.02
42 22 0.34
43 10 0.15
44 28 0.43
45 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATCGACATCGTATT
Found at i:34515871 original size:620 final size:620
Alignment explanation
Indices: 34514691--34515913 Score: 2428
Period size: 620 Copynumber: 2.0 Consensus size: 620
34514681 TGTCTGGGAC
34514691 ACACGGGCATATCTGGTGGTCGTGTGAGGCACACAACCTCGGCATATGGGCGTGTGTGGCCATTT
1 ACACGGGCATATCTGGTGGTCGTGTGAGGCACACAACCTCGGCATATGGGCGTGTGTGGCCATTT
34514756 TGAAGGGTACACGGGCTAGACACATGGGCGTGTGGTTAGCCGTGTGACCCAAGTCAGTTTCGACC
66 TGAAGGGTACACGGGCTAGACACATGGGCGTGTGGTTAGCCGTGTGACCCAAGTCAGTTTCGACC
34514821 ACAGCCAAGGCATACAGCCATGTTTCCGACCCTGTGGTACAAGTCAGTATGTATGCCATGTTTTC
131 ACAGCCAAGGCATACAGCCATGTTTCCGACCCTGTGGTACAAGTCAGTATGTATGCCATGTTTTC
34514886 ATACAGCCTATGACACGGGCGTGTTTGATAACCTTATGAGTCACACGGCCTATTCAGACGAGTGT
196 ATACAGCCTATGACACGGGCGTGTTTGATAACCTTATGAGTCACACGGCCTATTCAGACGAGTGT
34514951 GTGACCTGTGATTGCATAATCTAAGTGTCCGGAAGCTTTTATACATGATCGGTTTAGTTTGGAAC
261 GTGACCTGTGATTGCATAATCTAAGTGTCCGGAAGCTTTTATACATGATCGGTTTAGTTTGGAAC
34515016 CACTCTTAAGCATGTTTTAAGGTTTCGTATAACCTTGTATGGGACAATTTGAATGTTTGTGAATA
326 CACTCTTAAGCATGTTTTAAGGTTTCGTATAACCTTGTATGGGACAATTTGAATGTTTGTGAATA
34515081 GTTAACAATAATGAATGCATAAATGTATACGAATGACGTGTAATATCCTGTAATGCCTCGTAACC
391 GTTAACAATAATGAATGCATAAATGTATACGAATGACGTGTAATATCCTGTAATGCCTCGTAACC
*
34515146 CTATTCTAGCGACAGATACAGGTTAGGGGTGTTACATAAGTAAAACCAACAGGAGATTGACTAGC
456 CTATTCTAGCGACAGATACAGGTTAGGGGTGTTACATAAGTAAAACCAACAGGAGACTGACTAGC
*
34515211 AAATAGTTTTATAAAATACTTCTTTGGGATCTCTAACATGGCGCCATTTCTATCCCAAATAAATT
521 AAATAGTTTTATAAAAAACTTCTTTGGGATCTCTAACATGGCGCCATTTCTATCCCAAATAAATT
34515276 TGTGATCATCCACTAGTCTCGAGCATGGCCTAGAA
586 TGTGATCATCCACTAGTCTCGAGCATGGCCTAGAA
34515311 ACACGGGCATATCTGGTGGTCGTGTGAGGCACACAACCTCGGCATATGGGCGTGTGTGGCCATTT
1 ACACGGGCATATCTGGTGGTCGTGTGAGGCACACAACCTCGGCATATGGGCGTGTGTGGCCATTT
34515376 TGAAGGGTACACGGGCTAGACACATGGGCGTGTGGTTAGCCGTGTGACCCAAGTCAGTTTCGACC
66 TGAAGGGTACACGGGCTAGACACATGGGCGTGTGGTTAGCCGTGTGACCCAAGTCAGTTTCGACC
34515441 ACAGCCAAGGCATACAGCCATGTTTCCGACCCTGTGGTACAAGTCAGTATGTATGCCATGTTTTC
131 ACAGCCAAGGCATACAGCCATGTTTCCGACCCTGTGGTACAAGTCAGTATGTATGCCATGTTTTC
34515506 ATACAGCCTATGACACGGGCGTGTTTGATAACCTTATGAGTCACACGGCCTATTCAGACGAGTGT
196 ATACAGCCTATGACACGGGCGTGTTTGATAACCTTATGAGTCACACGGCCTATTCAGACGAGTGT
34515571 GTGACCTGTGATTGCATAATCTAAGTGTCCGGAAGCTTTTATACATGATCGGTTTAGTTTGGAAC
261 GTGACCTGTGATTGCATAATCTAAGTGTCCGGAAGCTTTTATACATGATCGGTTTAGTTTGGAAC
34515636 CACTCTTAAGCATGTTTTAAGGTTTCGTATAACCTTGTATGGGACAATTTGAATGTTTGTGAATA
326 CACTCTTAAGCATGTTTTAAGGTTTCGTATAACCTTGTATGGGACAATTTGAATGTTTGTGAATA
34515701 GTTAACAATAATGAATGCATAAATGTATACGAATGACGTGTAATATCCTGTAATGCCTCGTAACC
391 GTTAACAATAATGAATGCATAAATGTATACGAATGACGTGTAATATCCTGTAATGCCTCGTAACC
34515766 CTATTCTAGCGACAGATACAGGTTAGGGGTGTTACATAAGTAAAACCAACAGGAGACTGACTAGC
456 CTATTCTAGCGACAGATACAGGTTAGGGGTGTTACATAAGTAAAACCAACAGGAGACTGACTAGC
34515831 AAATAGTTTTATAAAAAACTTCTTTGGGATCTCTAACATGGCGCCATTTCTATCCCAAATAAATT
521 AAATAGTTTTATAAAAAACTTCTTTGGGATCTCTAACATGGCGCCATTTCTATCCCAAATAAATT
34515896 TGTGATCATCCACTAGTC
586 TGTGATCATCCACTAGTC
34515914 CCCGTACCTT
Statistics
Matches: 601, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
620 601 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (620 bp):
ACACGGGCATATCTGGTGGTCGTGTGAGGCACACAACCTCGGCATATGGGCGTGTGTGGCCATTT
TGAAGGGTACACGGGCTAGACACATGGGCGTGTGGTTAGCCGTGTGACCCAAGTCAGTTTCGACC
ACAGCCAAGGCATACAGCCATGTTTCCGACCCTGTGGTACAAGTCAGTATGTATGCCATGTTTTC
ATACAGCCTATGACACGGGCGTGTTTGATAACCTTATGAGTCACACGGCCTATTCAGACGAGTGT
GTGACCTGTGATTGCATAATCTAAGTGTCCGGAAGCTTTTATACATGATCGGTTTAGTTTGGAAC
CACTCTTAAGCATGTTTTAAGGTTTCGTATAACCTTGTATGGGACAATTTGAATGTTTGTGAATA
GTTAACAATAATGAATGCATAAATGTATACGAATGACGTGTAATATCCTGTAATGCCTCGTAACC
CTATTCTAGCGACAGATACAGGTTAGGGGTGTTACATAAGTAAAACCAACAGGAGACTGACTAGC
AAATAGTTTTATAAAAAACTTCTTTGGGATCTCTAACATGGCGCCATTTCTATCCCAAATAAATT
TGTGATCATCCACTAGTCTCGAGCATGGCCTAGAA
Found at i:34520831 original size:50 final size:49
Alignment explanation
Indices: 34520752--34520942 Score: 194
Period size: 48 Copynumber: 3.9 Consensus size: 49
34520742 AAGGATAAGA
* * * *
34520752 TGCCGATGCGATGTCCCAGACATGGTCTTACACTAGTTCTTATATATCAG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAG-GCTCATATATCAG
* * *
34520802 TGCCGATGCCATGTTCCAAACATGCTCTTACACT-GGCTCACATATCGAG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGGCTCATATATC-AG
* * * *
34520851 -GCTGATGCTATGTCCCAAACATGGTCTTACATTAGCGCTCATA-A-CAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAG-GCTCATATATCAG
* * *
34520898 TGCCGAGGTCATGTTCCAAACATGGTCTTACACT-GGCTCATATAT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGGCTCATATAT
34520943 AACCCTAGTA
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
46 7 0.06
47 3 0.03
48 64 0.56
49 5 0.04
50 36 0.31
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGGCTCATATATCAG
Found at i:34520927 original size:96 final size:98
Alignment explanation
Indices: 34520756--34520942 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 98
34520746 ATAAGATGCC
* ** * * *
34520756 GATGCGATGTCCCAGACATGGTCTTACACTAGTTCTTATATATCAGTGCCGATGCCATGTTCCAA
1 GATGCGATGTCCCAAACATGGTCTTACACTAGCGCTCATATATCAATGCCGAGGCCATGTTCCAA
34520821 ACATGCTCTTACACTGGCTCACATATCGAGGCT
66 ACATGCTCTTACACTGGCTCACATATCGAGGCT
* * *
34520854 GATGCTATGTCCCAAACATGGTCTTACATTAGCGCTCATA-A-CAATGCCGAGGTCATGTTCCAA
1 GATGCGATGTCCCAAACATGGTCTTACACTAGCGCTCATATATCAATGCCGAGGCCATGTTCCAA
* *
34520917 ACATGGTCTTACACTGGCTCATATAT
66 ACATGCTCTTACACTGGCTCACATAT
34520943 AACCCTAGTA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 43 0.55
97 1 0.01
98 34 0.44
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (98 bp):
GATGCGATGTCCCAAACATGGTCTTACACTAGCGCTCATATATCAATGCCGAGGCCATGTTCCAA
ACATGCTCTTACACTGGCTCACATATCGAGGCT
Found at i:34522466 original size:29 final size:29
Alignment explanation
Indices: 34522432--34522493 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
34522422 GGACTAAATT
34522432 TTCCTTTCCTACCGAATATAAGGACTTTC
1 TTCCTTTCCTACCGAATATAAGGACTTTC
* * *
34522461 TTCCTTTCTTACCGAATCTGAGGACTTTC
1 TTCCTTTCCTACCGAATATAAGGACTTTC
34522490 TTCC
1 TTCC
34522494 AGGGAGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.40
Consensus pattern (29 bp):
TTCCTTTCCTACCGAATATAAGGACTTTC
Found at i:34532293 original size:50 final size:50
Alignment explanation
Indices: 34532235--34532410 Score: 172
Period size: 50 Copynumber: 3.6 Consensus size: 50
34532225 TATAGGTGTC
*
34532235 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGATATGTGAGAG-T
* * * *
34532285 AGTGTAAGACCATGTCTGGGACATAGCGTCGGC-CTCGAT-T-TCGATAGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGATATGT-GAGAGT
*
34532333 CAATGTAAGACCATGTCTGGGACATGGCATC-G-ACTGG--ATG-GATGAGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGATATGTGA-GAG-T
* *
34532381 AGCGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
34532411 AGCATTATAC
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
46 2 0.02
47 30 0.28
48 7 0.07
49 33 0.31
50 34 0.32
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGGATATGTGAGAGT
Found at i:34541345 original size:46 final size:45
Alignment explanation
Indices: 34541204--34541456 Score: 168
Period size: 46 Copynumber: 5.5 Consensus size: 45
34541194 TGTGCTAACA
* *
34541204 TAAGACATGTCTGGGACATGCATCAGCC-AC-ATTATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTACGA-GAT--GTGCCAGTG
* * * *
34541250 TAAGACTATGTCTGGGACATGGCAT-TG-GTATTGAGA---GCTAGTG
1 TAAGAC-ATGTCTGGGACAT-GCATCAGCCTA-CGAGATGTGCCAGTG
* *
34541293 TGAGACATGCCTGGGACATGCATCAGCCT-CGAGATGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTACGAGATGT--GCCAGTG
* * *
34541339 TAAGACATGTCTAGGACATGCATC-GGCTACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTACGAGATGTGCCAGTG
* * *
34541383 TAAAACCATGTCTGGGACATGGCATCAG-C-ACGTATATAGGTGTCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCCTACG-AGAT--GTGCCAGTG
34541431 TAAGACCATGTCTGGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
34541457 GGCATGGATA
Statistics
Matches: 168, Mismatches: 20, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
41 8 0.05
42 13 0.08
43 12 0.07
44 10 0.06
45 19 0.11
46 50 0.30
47 16 0.10
48 39 0.23
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCAGCCTACGAGATGTGCCAGTG
Found at i:34541439 original size:48 final size:47
Alignment explanation
Indices: 34541334--34541606 Score: 236
Period size: 48 Copynumber: 5.7 Consensus size: 47
34541324 AGATGTAAGC
* *
34541334 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGA-T-GTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATTGGTGT
* * *
34541378 CAGTGTAAAACCATGTCTGGGACATGGCATCAGCACGTATATAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATATTGGTGT
* *
34541426 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATCTGAGAGAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATAT-TG-GTG-T
* * * * *
34541477 -AGTGTAAGACCATGTCTAGGACATGGCTTCGGCCTCGATTTTGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATTGGT-GT
* ** * *
34541525 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGA-T-GAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT--ATTGGTGT
* *
34541572 CAGTGTAAGACCATGTCTAGAACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
34541607 TTATACCCCA
Statistics
Matches: 186, Mismatches: 29, Indels: 25
0.77 0.12 0.10
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 9 0.05
47 32 0.17
48 47 0.25
49 35 0.19
50 36 0.19
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATTGGTGT
Found at i:34541597 original size:47 final size:47
Alignment explanation
Indices: 34541242--34541603 Score: 189
Period size: 46 Copynumber: 7.7 Consensus size: 47
34541232 ACATTATGAG
* * * * *
34541242 AGCCAGTGTAAGACTATGTCTGGGACATGGCATTG-GT--ATT-GAG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATTGGAT
* * * * * * *
34541285 AGCTAGTGTGAGA-CATGCCTGGGACAT-GCATCAGCCTCGAGATGTA-
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTCGA-TTGGAT
*
34541331 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGA---GAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-CGATTGGAT
* * * * *
34541374 GTGTCAGTGTAAAACCATGTCTGGGACATGGCATC-AGCACGTATATAGG-T
1 -AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CTCG-AT-T-GGAT
* * * * * *
34541424 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATCTGAG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TCGAT-T-GGAT
** * * *
34541473 AGATAGTGTAAGACCATGTCTAGGACATGGCTTCGGCCTCGATTTTGAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTCGA-TTGGAT
* * *
34541522 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TGGAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATTGGAT
*
34541568 GAGCCAGTGTAAGACCATGTCTAGAACATGGCATCG
1 -AGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
34541604 GCATTATACC
Statistics
Matches: 250, Mismatches: 44, Indels: 46
0.74 0.13 0.14
Matches are distributed among these distances:
41 4 0.02
42 14 0.06
43 12 0.05
44 10 0.04
45 19 0.08
46 43 0.17
47 33 0.13
48 43 0.17
49 34 0.14
50 34 0.14
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATTGGAT
Found at i:34544028 original size:48 final size:47
Alignment explanation
Indices: 34543928--34544156 Score: 199
Period size: 48 Copynumber: 4.7 Consensus size: 47
34543918 ATTCTAATGT
* ****
34543928 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATATTGGTGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTAG--CTCATATAACAATG-CGATGC
* * *
34543978 CATGTCCCAAACATGGTCTTATACTGGCTCATACAACAATGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCATATAACAATG-CGATGC
* * * * * * * * * *
34544026 CATGTTCCAAATATAGTCTTACGCTGGCTCACATATCGAGGCCGATGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCATATAACAATG-CGATGC
* *
34544074 CATGTCCCAAACATGGTCTTACACTAGCTC-TCATAACAATGCTGAGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCAT-ATAACAATGC-GATGC
*
34544122 CATGTTCCAAACATGGTCTTACACTAGCTCATATA
1 CATGTCCCAAACATGGTCTTACACTAGCTCATATA
34544157 TAAACCTAGT
Statistics
Matches: 144, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
47 1 0.01
48 118 0.82
49 1 0.01
50 24 0.17
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCATATAACAATGCGATGC
Found at i:34544083 original size:96 final size:96
Alignment explanation
Indices: 34543928--34544157 Score: 250
Period size: 96 Copynumber: 2.4 Consensus size: 96
34543918 ATTCTAATGT
* * * * *
34543928 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATATTG-GTGCCGATGCCATGTCCCAAACAT
1 CATGTTCCAAACATAGTCTTACACTAG--CTCACATATCGAG-GCCGATGCCATGTCCCAAACAT
* * *
34543992 GGTCTTATACTGGCTCAT-ACAACAATG-TCGATGC
63 GGTCTTACACTAGCTC-TCACAACAATGCT-GAGGC
* * * *
34544026 CATGTTCCAAATATAGTCTTACGCTGGCTCACATATCGAGGCCGATGTCATGTCCCAAACATGGT
1 CATGTTCCAAACATAGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGT
* *
34544091 CTTACACTAGCTCTCATAACAATGCTGAGGT
66 CTTACACTAGCTCTCACAACAATGCTGAGGC
* *
34544122 CATGTTCCAAACATGGTCTTACACTAGCTCATATAT
1 CATGTTCCAAACATAGTCTTACACTAGCTCACATAT
34544158 AAACCTAGTA
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
95 1 0.01
96 86 0.78
97 2 0.02
98 21 0.19
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (96 bp):
CATGTTCCAAACATAGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGT
CTTACACTAGCTCTCACAACAATGCTGAGGC
Found at i:34548741 original size:24 final size:24
Alignment explanation
Indices: 34548692--34548751 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
34548682 ACATGTACCT
*
34548692 TATATTATAGTACATAATATAATAA
1 TATATAATA-TACATAATATAATAA
34548717 TATATAATATACAT-ATATAACTAA
1 TATATAATATACATAATATAA-TAA
* *
34548741 TAAATATTATA
1 TATATAATATA
34548752 TATTATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.19
24 17 0.55
25 8 0.26
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATAATATACATAATATAATAA
Found at i:34550349 original size:19 final size:19
Alignment explanation
Indices: 34550325--34550363 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34550315 AAGACCTAGT
34550325 TATTTTATGTTTTCTTATA
1 TATTTTATGTTTTCTTATA
34550344 TATTTTATGTTTTCTTATA
1 TATTTTATGTTTTCTTATA
34550363 T
1 T
34550364 CTTCCCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TATTTTATGTTTTCTTATA
Found at i:34565403 original size:18 final size:18
Alignment explanation
Indices: 34565380--34565529 Score: 77
Period size: 18 Copynumber: 7.9 Consensus size: 18
34565370 GAATAATTAT
34565380 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
34565398 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
34565416 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
34565434 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
34565460 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
34565478 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
34565495 ATATTCAGTAACTATTAAA
1 TTATTCAGTAAC-AGTCAG
34565514 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
34565530 GATCTTTCCA
Statistics
Matches: 96, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
17 14 0.15
18 51 0.53
19 15 0.16
21 2 0.02
22 1 0.01
23 2 0.02
26 11 0.11
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:34565754 original size:45 final size:45
Alignment explanation
Indices: 34565705--34565899 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
34565695 ATTCAAAATA
* * * *
34565705 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATTG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
34565750 GTAACGGTAACAGTAATAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
34565795 GTAACGGTAATAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* **
34565840 GTAACAATAGTAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
34565885 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
34565900 GCGGTAACGG
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:34566319 original size:5 final size:5
Alignment explanation
Indices: 34566308--34566349 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
34566298 AATTAATCAT
* *
34566308 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
34566350 CTTTTCCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:34567698 original size:9 final size:9
Alignment explanation
Indices: 34567680--34567714 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
34567670 TTTCTTTTTC
*
34567680 ATTTCTTTT
1 ATTTCATTT
34567689 ATTTCATTT
1 ATTTCATTT
34567698 ATTTC-TTT
1 ATTTCATTT
34567706 ATTTCATTT
1 ATTTCATTT
34567715 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:34567706 original size:17 final size:18
Alignment explanation
Indices: 34567680--34567726 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
34567670 TTTCTTTTTC
34567680 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
34567698 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
34567715 CTTTATTTTATT
1 ATTTCTTTTATT
34567727 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:34567716 original size:13 final size:13
Alignment explanation
Indices: 34567680--34567722 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
34567670 TTTCTTTTTC
* *
34567680 ATTTCTTTTATTT
1 ATTTCATTTCTTT
34567693 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
34567706 ATTTCATTTCTTT
1 ATTTCATTTCTTT
34567719 ATTT
1 ATTT
34567723 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:34570461 original size:48 final size:50
Alignment explanation
Indices: 34570343--34570466 Score: 164
Period size: 48 Copynumber: 2.5 Consensus size: 50
34570333 CGAGGTCGAC
* *
34570343 GCCATGTCCCAGACATGGTCTTACACTACCCCTCACATATCTGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTACACCTCACATATCTATGCCGAT
* * *
34570393 GCCATGCCCCAGACATGGTCTTACACTAACACCTC-TATA-C-ATGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-ACACCTCACATATCTATGCCGAT
*
34570441 GCCATGTCCCGGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
34570467 CGGACATAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 30 0.45
49 1 0.02
50 29 0.44
51 6 0.09
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTACACCTCACATATCTATGCCGAT
Found at i:34570471 original size:17 final size:17
Alignment explanation
Indices: 34570449--34570483 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34570439 ATGCCATGTC
*
34570449 CCGGACATGGTCTTACA
1 CCGGACATAGTCTTACA
34570466 CCGGACATAGTCTTACA
1 CCGGACATAGTCTTACA
34570483 C
1 C
34570484 TGACACCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (17 bp):
CCGGACATAGTCTTACA
Found at i:34576298 original size:28 final size:29
Alignment explanation
Indices: 34576231--34576331 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
34576221 ATAGTGAATC
*
34576231 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
34576260 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
34576288 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
34576318 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34576332 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:34584125 original size:28 final size:29
Alignment explanation
Indices: 34584058--34584158 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
34584048 ATAGTGAATC
*
34584058 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
34584087 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
34584115 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
34584145 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34584159 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:34586213 original size:64 final size:65
Alignment explanation
Indices: 34586123--34586252 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
34586113 AGTCCCATGC
* *
34586123 ATCAGATAATAATAACATGGCATGCAGCAAATAGTAACAGTCAAACATGCATTCA-GTCAACCTT
1 ATCAGATAATAATAACACGGCATGCAGCAAATAGTAACAGTCAAACATGCAATCAGGTCAACCTT
* *
34586187 ATCAGATAATAATAACACGGCATGCAGTAAATAGTAATAGTCAAACATGCAATCAGGTCAACCTT
1 ATCAGATAATAATAACACGGCATGCAGCAAATAGTAACAGTCAAACATGCAATCAGGTCAACCTT
34586252 A
1 A
34586253 ACCCTAGGGG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 51 0.84
65 10 0.16
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (65 bp):
ATCAGATAATAATAACACGGCATGCAGCAAATAGTAACAGTCAAACATGCAATCAGGTCAACCTT
Found at i:34586309 original size:26 final size:25
Alignment explanation
Indices: 34586255--34586309 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
34586245 CAACCTTAAC
* *
34586255 CCTAGGGGTATATCAGTATTTTGCT
1 CCTAGGGGTATATCAGTATTTTCCA
*
34586280 CCTAGGGGTA-ATCTGTAAATTTTCCA
1 CCTAGGGGTATATCAGT--ATTTTCCA
34586306 CCTA
1 CCTA
34586310 TAAAGGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 5 0.20
25 10 0.40
26 10 0.40
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (25 bp):
CCTAGGGGTATATCAGTATTTTCCA
Found at i:34587606 original size:28 final size:29
Alignment explanation
Indices: 34587539--34587639 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
34587529 ATAGTGAATC
*
34587539 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
34587568 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
34587596 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
34587626 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34587640 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:34599010 original size:28 final size:29
Alignment explanation
Indices: 34598943--34599043 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
34598933 ATAGTGAATC
*
34598943 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
34598972 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
34599000 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
34599030 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34599044 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:34606842 original size:28 final size:29
Alignment explanation
Indices: 34606775--34606875 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
34606765 ATAGTGAATC
*
34606775 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
34606804 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
34606832 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
34606862 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34606876 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:34610930 original size:53 final size:53
Alignment explanation
Indices: 34610851--34610966 Score: 146
Period size: 53 Copynumber: 2.2 Consensus size: 53
34610841 TATCCATGTT
* *
34610851 TAAAATA-CTTTGGTTTACAAAATTACCAAAATACCCTGC-TTTGTAAAATTAC
1 TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCT-CATTTGTAAAACTAC
* **
34610903 TAAAATACCCTTGGTTTATAAAATTACCGCAATACCCTCAATTTGTAAAACTAC
1 TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTC-ATTTGTAAAACTAC
*
34610957 CAAAATACCC
1 TAAAATACCC
34610967 CTGTATGGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
52 8 0.15
53 26 0.47
54 21 0.38
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.31
Consensus pattern (53 bp):
TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCATTTGTAAAACTAC
Found at i:34610936 original size:27 final size:27
Alignment explanation
Indices: 34610852--34610966 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
34610842 ATCCATGTTT
* *
34610852 AAAATA-CTTTGGTTTACAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
* * *
34610878 AAAATACCC-TGCTTTGTAAAATTACT
1 AAAATACCCTTGGTTTATAAAATTACC
34610904 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
** *** * *
34610931 GCAATACCCTCAATTTGTAAAACTACC
1 AAAATACCCTTGGTTTATAAAATTACC
34610958 AAAATACCC
1 AAAATACCC
34610967 CTGTATGGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
26 28 0.40
27 42 0.60
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATACCCTTGGTTTATAAAATTACC
Found at i:34612170 original size:25 final size:25
Alignment explanation
Indices: 34612140--34612187 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34612130 TTATAATATT
* *
34612140 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34612165 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34612188 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34612254 original size:20 final size:20
Alignment explanation
Indices: 34612231--34612314 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
34612221 TAAACATGGT
34612231 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34612251 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
34612271 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34612291 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
34612311 ATGT
1 ATGT
34612315 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:34612271 original size:11 final size:11
Alignment explanation
Indices: 34612235--34612309 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
34612225 CATGGTATGT
34612235 ATGATATGCAC
1 ATGATATGCAC
* *
34612246 ATGACATG--T
1 ATGATATGCAC
34612255 ATGATATGCAC
1 ATGATATGCAC
*
34612266 ATGATATG--T
1 ATGATATGCAC
34612275 ATGATATGCAC
1 ATGATATGCAC
* *
34612286 ATGACATG--T
1 ATGATATGCAC
34612295 ATGATATGCAC
1 ATGATATGCAC
34612306 ATGA
1 ATGA
34612310 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34612439 original size:24 final size:24
Alignment explanation
Indices: 34612360--34612524 Score: 223
Period size: 23 Copynumber: 7.0 Consensus size: 24
34612350 GAGGAAGTGA
34612360 AAAAGGGCTTATGCCCCAGTTATTC
1 AAAAGGGCTTATGCCCCAGTTA-TC
34612385 --AAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34612406 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34612430 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
34612454 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
34612477 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34612501 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34612525 ATGATAAAGC
Statistics
Matches: 128, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.01
23 63 0.49
24 53 0.41
25 11 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34612458 original size:47 final size:47
Alignment explanation
Indices: 34612361--34612499 Score: 228
Period size: 47 Copynumber: 3.0 Consensus size: 47
34612351 AGGAAGTGAA
*
34612361 AAAGGGCTTATGCCCCAGTTATTC--AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TCAAAAGGGCTTATGCCCCAGTTATC
34612407 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
* *
34612454 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
34612500 TAAAAGAGGC
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
45 2 0.02
46 21 0.24
47 65 0.74
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
Found at i:34615607 original size:26 final size:27
Alignment explanation
Indices: 34615578--34615675 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
34615568 TTTGGTTTAC
*
34615578 AAAATTACCAAAATA-CCTTACTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* ** *
34615604 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTTAATTTGT
** *
34615631 AAAATTACCGCAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
*
34615658 AAAACTACCAAAATACCC
1 AAAATTACCAAAATACCC
34615676 CTGTATGGTA
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
26 14 0.25
27 43 0.75
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:34615633 original size:27 final size:26
Alignment explanation
Indices: 34615560--34615638 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
34615550 TATCCATGTT
* *
34615560 TAAAATACTTTGGTTTACAAAATTAC
1 TAAAATACCTTGGTTTATAAAATTAC
* ** *
34615586 CAAAATACCTTACTTTGTAAAATTAC
1 TAAAATACCTTGGTTTATAAAATTAC
34615612 TAAAATACCCTTGGTTTATAAAATTAC
1 TAAAATA-CCTTGGTTTATAAAATTAC
34615639 CGCAATACCC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 26 0.62
27 16 0.38
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (26 bp):
TAAAATACCTTGGTTTATAAAATTAC
Found at i:34615639 original size:53 final size:54
Alignment explanation
Indices: 34615560--34615675 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
34615550 TATCCATGTT
* * * *
34615560 TAAAATA-CTTTGGTTTACAAAATTACCAAAATA-CCTTACTTTGTAAAATTAC
1 TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATTTGTAAAACTAC
* **
34615612 TAAAATACCCTTGGTTTATAAAATTACCGCAATACCCTCAATTTGTAAAACTAC
1 TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATTTGTAAAACTAC
*
34615666 CAAAATACCC
1 TAAAATACCC
34615676 CTGTATGGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 7 0.13
53 22 0.41
54 25 0.46
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (54 bp):
TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATTTGTAAAACTAC
Found at i:34615645 original size:27 final size:27
Alignment explanation
Indices: 34615561--34615675 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
34615551 ATCCATGTTT
* *
34615561 AAAATA-CTTTGGTTTACAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
** * *
34615587 AAAATA-CCTTACTTTGTAAAATTACT
1 AAAATACCCTTGGTTTATAAAATTACC
34615613 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTACC
** *** * *
34615640 GCAATACCCTCAATTTGTAAAACTACC
1 AAAATACCCTTGGTTTATAAAATTACC
34615667 AAAATACCC
1 AAAATACCC
34615676 CTGTATGGTA
Statistics
Matches: 69, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 26 0.38
27 43 0.62
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATACCCTTGGTTTATAAAATTACC
Found at i:34616967 original size:20 final size:20
Alignment explanation
Indices: 34616944--34617027 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
34616934 TAAACATGGT
34616944 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34616964 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
34616984 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34617004 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
34617024 ATGT
1 ATGT
34617028 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:34616984 original size:11 final size:11
Alignment explanation
Indices: 34616948--34617022 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
34616938 CATGGTATGT
34616948 ATGATATGCAC
1 ATGATATGCAC
* *
34616959 ATGACATG--T
1 ATGATATGCAC
34616968 ATGATATGCAC
1 ATGATATGCAC
*
34616979 ATGATATG--T
1 ATGATATGCAC
34616988 ATGATATGCAC
1 ATGATATGCAC
* *
34616999 ATGACATG--T
1 ATGATATGCAC
34617008 ATGATATGCAC
1 ATGATATGCAC
34617019 ATGA
1 ATGA
34617023 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34617129 original size:24 final size:24
Alignment explanation
Indices: 34617073--34617214 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
34617063 GAGGAAGTGA
34617073 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34617096 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34617120 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
34617144 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
34617167 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34617191 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34617215 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 44 0.41
24 53 0.49
25 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34617142 original size:47 final size:47
Alignment explanation
Indices: 34617072--34617215 Score: 218
Period size: 47 Copynumber: 3.0 Consensus size: 47
34617062 GGAGGAAGTG
34617072 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
34617119 CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
34617166 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
34617215 A
1 A
34617216 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 67 0.76
48 9 0.10
49 12 0.14
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:34617462 original size:31 final size:31
Alignment explanation
Indices: 34617408--34617471 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
34617398 CGTTTACAGT
*
34617408 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* ** *
34617439 AAAGGCTTCGGCCCAGTGTTATGAGATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
34617470 AA
1 AA
34617472 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:34618291 original size:49 final size:50
Alignment explanation
Indices: 34618218--34618389 Score: 165
Period size: 50 Copynumber: 3.5 Consensus size: 50
34618208 TAATATCGAT
* * * *
34618218 GCCATGTCTCGGACATGGTTTTACACTAACTATCA-AAATCAAG-GCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATC-AGTGCCAAC
* * * * * *
34618267 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCAGTGCCAAC
* * *
34618317 GCCATGTCCCAGACATGGTCTTACACTAAC-ACCTCTAAA-C-GTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCAC-AAATCAGTGCCAAC
*
34618365 GCCATGTCCCGGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
34618390 GTGACACCTC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
48 32 0.31
49 33 0.32
50 38 0.37
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCAGTGCCAAC
Found at i:34618576 original size:46 final size:48
Alignment explanation
Indices: 34618261--34618578 Score: 247
Period size: 46 Copynumber: 6.8 Consensus size: 48
34618251 CAAAATCAAG
* * * *
34618261 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATA-ACGT
* * *
34618311 GCCAATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTA-AACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCTATAACGT
* * * * *
34618359 GCCAATGCCATGTCCCGGACATGGTCTTACAGT-GACAC-CTCT--CGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCTATAACGT
* *
34618404 AGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCT-TGA-G-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-T-C-TCTATAACGT
* * *
34618451 GCCAATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCTCGTCTCAA--T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TAT-AACGT
* *
34618497 GCCGATGCCATGTCTCAAACATGGTCTTACACTAGCTCT-TATAACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATAACGT
34618544 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
34618579 ACACAAATAA
Statistics
Matches: 221, Mismatches: 27, Indels: 44
0.76 0.09 0.15
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 21 0.10
46 62 0.28
47 27 0.12
48 60 0.27
49 1 0.00
50 33 0.15
51 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATAACGT
Found at i:34618589 original size:48 final size:48
Alignment explanation
Indices: 34618261--34618582 Score: 212
Period size: 48 Copynumber: 6.8 Consensus size: 48
34618251 CAAAATCAAG
* * * *
34618261 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCAC-ATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CACACTATA-ACGT
* * *
34618311 GCCAATGCCATGTCCCAGACATGGTCTTACACTAACAC-CTCTAAACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACTAT-AACGT
* * * *
34618359 GCCAATGCCATGTCCCGGACATGGTCTTACAGT-G-ACACCTCT--CGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA-CTATAACGT
* *
34618404 AGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCT-TGA-G-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--ACA-CTATAACGT
* * * * *
34618451 GCCAATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCTCGTCTCAA--T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAC-TAT-AACGT
* * * *
34618497 GCCGATGCCATGTCTCAAACATGGTCTTACACTAGCTC-TTATAACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACTATAACGT
34618544 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACAC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAC
34618583 AAATAACCCG
Statistics
Matches: 221, Mismatches: 30, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 20 0.09
46 62 0.28
47 27 0.12
48 68 0.31
49 1 0.00
50 31 0.14
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACTATAACGT
Found at i:34621825 original size:10 final size:11
Alignment explanation
Indices: 34621810--34621891 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 11
34621800 TTTTAACAAT
34621810 ATATTATT-TC
1 ATATTATTATC
*
34621820 ATATTATTATT
1 ATATTATTATC
34621831 AT-TTATTAT-
1 ATATTATTATC
*
34621840 ATATTATTTTC
1 ATATTATTATC
34621851 ATAAATTATTAT-
1 AT--ATTATTATC
34621863 -TATT-TTA-C
1 ATATTATTATC
34621871 ATTATTATTTAT-
1 A-TATTA-TTATC
34621883 ATATTATTA
1 ATATTATTA
34621892 ATATATTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
8 3 0.05
9 5 0.09
10 28 0.48
11 11 0.19
12 4 0.07
13 7 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTATTATC
Found at i:34621843 original size:20 final size:20
Alignment explanation
Indices: 34621820--34621957 Score: 91
Period size: 20 Copynumber: 7.2 Consensus size: 20
34621810 ATATTATTTC
34621820 ATATTATTATTATTTATTAT
1 ATATTATTATTATTTATTAT
**
34621840 ATATTATT-TTCATAAATTAT
1 ATATTATTATT-ATTTATTAT
*
34621860 -TATTATT-TTACATTATTAT
1 ATATTATTATTA-TTTATTAT
*
34621879 TTA-TA-TATTA-TTA--AT
1 ATATTATTATTATTTATTAT
* * *
34621894 ATATTTTTACT-TGTATTAT
1 ATATTATTATTATTTATTAT
34621913 ATATTTATTAATTATTTA-TAT
1 ATA-TTATT-ATTATTTATTAT
34621934 ATATTATATATTATTT-TTAT
1 ATATTAT-TATTATTTATTAT
34621954 ATAT
1 ATAT
34621958 ATACACTTTC
Statistics
Matches: 92, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
15 4 0.04
16 1 0.01
17 8 0.09
18 2 0.02
19 26 0.28
20 39 0.42
21 9 0.10
22 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (20 bp):
ATATTATTATTATTTATTAT
Found at i:34621844 original size:30 final size:30
Alignment explanation
Indices: 34621808--34621940 Score: 105
Period size: 31 Copynumber: 4.3 Consensus size: 30
34621798 CATTTTAACA
34621808 ATATATTATTTCATATTATT-ATTATTTATT
1 ATATATTATTTCATATTATTAATTATTT-TT
34621838 ATATATTATTTTCATAAATTATT-ATTA-TTTT
1 ATATATTA-TTTCAT--ATTATTAATTATTTTT
* *
34621869 ACATTATTATTTATATATTATTAATATATTTTT
1 ATA-TATTATTT-CATATTATTAAT-TATTTTT
* * *
34621902 ACTTGTATTATAT-AT-TTATTAATTATTTAT
1 A--TATATTATTTCATATTATTAATTATTTTT
34621932 ATATATTAT
1 ATATATTAT
34621941 ATATTATTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
28 7 0.08
30 21 0.24
31 23 0.27
32 13 0.15
33 15 0.17
34 7 0.08
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (30 bp):
ATATATTATTTCATATTATTAATTATTTTT
Found at i:34621954 original size:13 final size:13
Alignment explanation
Indices: 34621808--34621957 Score: 61
Period size: 13 Copynumber: 10.5 Consensus size: 13
34621798 CATTTTAACA
*
34621808 ATATATTATTTCAT
1 ATATATTATTT-TT
34621822 ATTATTATTATTTATT
1 A-TA-TATTATTT-TT
34621838 ATATATTATTTTCAT
1 ATATATTATTTT--T
*
34621853 AAATTATTATTATTT
1 ATA-TATTATT-TTT
*
34621868 -TACATTATTATTT
1 ATATATTATT-TTT
**
34621881 ATATATTATTAAT
1 ATATATTATTTTT
*
34621894 ATATTTTTACTTGTATT
1 ATA-TATTA-TT-T-TT
*
34621911 ATATATTTATTAATT
1 ATATA-TTATT-TTT
* *
34621926 ATTTA-TATATATT
1 ATATATTAT-TTTT
34621939 ATATATTATTTTT
1 ATATATTATTTTT
34621952 ATATAT
1 ATATAT
34621958 ATACACTTTC
Statistics
Matches: 105, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
13 34 0.32
14 26 0.25
15 16 0.15
16 20 0.19
17 9 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (13 bp):
ATATATTATTTTT
Found at i:34622239 original size:8 final size:9
Alignment explanation
Indices: 34622205--34622254 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
34622195 ATTCTAAACT
34622205 TATACTTATA
1 TATA-TTATA
34622215 TATATATATA
1 TATAT-TATA
34622225 TATATTATA
1 TATATTATA
34622234 TA-ATTAT-
1 TATATTATA
*
34622241 TTTATTATA
1 TATATTATA
*
34622250 AATAT
1 TATAT
34622255 AAATTCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
7 1 0.03
8 10 0.29
9 10 0.29
10 13 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
TATATTATA
Found at i:34634506 original size:206 final size:206
Alignment explanation
Indices: 34634140--34634518 Score: 605
Period size: 206 Copynumber: 1.8 Consensus size: 206
34634130 TAGGCCACGG
** * *
34634140 CATAACAGATCTGGCCTTCAGATGCTTGTGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTA
1 CATAACAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTA
* * * * *
34634205 CTTACAGGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAACTGATTTGGCTTTCACATGCTTACGCTGAAACAAATCT
*
34634270 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTACATATTCGACG
131 AAGATGATTTGGCATCTCTGTATCGTCAGAGAACAAATCGAAGTTTGGCGTCTACATATTCGACG
34634335 GAGGGCAGACA
196 GAGGGCAGACA
* * * *
34634346 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAACAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTA
* *
34634411 CTTACAAGGAGCAAATCGAAGACATAACTGATTTGGTTTTCACATGCTTATGCTGAAACAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAACTGATTTGGCTTTCACATGCTTACGCTGAAACAAATCT
*
34634476 AAGATGATTTGGCATCTCTGTATCGTCAGAGAATAAATCGAAG
131 AAGATGATTTGGCATCTCTGTATCGTCAGAGAACAAATCGAAG
34634519 AAGCAGATTT
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
206 156 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
CATAACAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTA
CTTACAAGGAGCAAATCGAAGACATAACTGATTTGGCTTTCACATGCTTACGCTGAAACAAATCT
AAGATGATTTGGCATCTCTGTATCGTCAGAGAACAAATCGAAGTTTGGCGTCTACATATTCGACG
GAGGGCAGACA
Found at i:34636266 original size:30 final size:30
Alignment explanation
Indices: 34636231--34636371 Score: 109
Period size: 30 Copynumber: 4.7 Consensus size: 30
34636221 ATTTTAACAG
34636231 TATATTATTTCATATCATTATTATT-TATTA
1 TATATTATTTCATAT-ATTATTATTATATTA
* *
34636261 TATATTATTTTTCATAAATTATTATTATTTTA
1 TATATTA--TTTCATATATTATTATTATATTA
*
34636293 CATTATTATTT-ATATATTATTATTATATT-
1 TA-TATTATTTCATATATTATTATTATATTA
* *
34636322 TCTACTTGTATT-ATATATTTATTAATTAT-TTA
1 TATA-TTAT-TTCATATA-TTATT-ATTATATTA
34636354 TATA-TA-TT-ATATATTATT
1 TATATTATTTCATATATTATT
34636372 TTTCCATATA
Statistics
Matches: 92, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
27 5 0.05
28 9 0.10
29 3 0.03
30 31 0.34
31 19 0.21
32 20 0.22
33 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (30 bp):
TATATTATTTCATATATTATTATTATATTA
Found at i:34636269 original size:17 final size:17
Alignment explanation
Indices: 34636242--34636371 Score: 71
Period size: 17 Copynumber: 7.6 Consensus size: 17
34636232 ATATTATTTC
34636242 ATATCATTATTATTTATT
1 ATAT-ATTATTATTTATT
34636260 ATATATTATT-TTTCA-T
1 ATATATTATTATTT-ATT
34636276 A-A-ATTATTA-TTATT
1 ATATATTATTATTTATT
* *
34636290 TTACATTATTATTTA-T
1 ATATATTATTATTTATT
34636306 ATATTATTATTATATT-TCT
1 ATA-TATTATTAT-TTAT-T
*
34636325 ACTTGTATTATATATTTATT
1 A--TATATTAT-TATTTATT
*
34636345 A-ATTATT-TATATATATT
1 ATA-TATTAT-TATTTATT
34636362 ATATATTATT
1 ATATATTATT
34636372 TTTCCATATA
Statistics
Matches: 89, Mismatches: 6, Indels: 35
0.68 0.05 0.27
Matches are distributed among these distances:
13 1 0.01
14 9 0.10
15 2 0.02
16 15 0.17
17 33 0.37
18 12 0.13
19 2 0.02
20 10 0.11
21 5 0.06
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (17 bp):
ATATATTATTATTTATT
Found at i:34636317 original size:20 final size:20
Alignment explanation
Indices: 34636233--34636371 Score: 57
Period size: 20 Copynumber: 6.9 Consensus size: 20
34636223 TTTAACAGTA
34636233 TATTATTTCATATCATTATTA-
1 TATTATTT-ATAT-ATTATTAT
*
34636254 T-TTA-TTATATATTATTTT
1 TATTATTTATATATTATTAT
* *
34636272 TCATAAATTAT-TATTATTTTACAT
1 T-ATTATTTATATATTA--TT--AT
34636296 TATTATTTATATATTATTAT
1 TATTATTTATATATTATTAT
*
34636316 TA-TATTTCTACT-TGTATTA-
1 TATTATTTATA-TAT-TATTAT
34636335 TA-TATTTAT-TA--ATTATT
1 TATTATTTATATATTATTA-T
34636352 TATATATATTATATATTATT
1 TAT-TAT-TTATATATTATT
34636372 TTTCCATATA
Statistics
Matches: 91, Mismatches: 7, Indels: 38
0.67 0.05 0.28
Matches are distributed among these distances:
15 4 0.04
17 9 0.10
18 5 0.05
19 21 0.23
20 24 0.26
21 7 0.08
22 4 0.04
23 10 0.11
24 7 0.08
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (20 bp):
TATTATTTATATATTATTAT
Found at i:34636372 original size:20 final size:20
Alignment explanation
Indices: 34636256--34636372 Score: 75
Period size: 20 Copynumber: 5.8 Consensus size: 20
34636246 CATTATTATT
*
34636256 TATTATATATTATTTTTCATA
1 TATTATATATTATTTAT-ATA
* *
34636277 AATTAT-TATTATTTTACATTA
1 TATTATATATTA-TTTATA-TA
34636298 TTATTTATATATTA-TTAT-TA
1 -TA-TTATATATTATTTATATA
* *
34636318 TATT-TCTACTTGTATTATATA
1 TATTATATA-TTAT-TTATATA
34636339 T-TTAT-TAATTATTTATATA
1 TATTATAT-ATTATTTATATA
34636358 TATTATATATTATTT
1 TATTATATATTATTT
34636373 TTCCATATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 27
0.68 0.07 0.25
Matches are distributed among these distances:
17 3 0.04
18 4 0.05
19 10 0.13
20 29 0.39
21 16 0.21
22 4 0.05
23 4 0.05
24 5 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTATATATTATTTATATA
Found at i:34652619 original size:15 final size:14
Alignment explanation
Indices: 34652601--34652648 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
34652591 ATATTATAAT
34652601 TTTTATTAATTCATA
1 TTTTATTAATT-ATA
34652616 TTTTAATAATAATTATA
1 TTTT-AT--TAATTATA
34652633 TTTTATTAAATTATA
1 TTTTATT-AATTATA
34652648 T
1 T
34652649 ATTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 12 0.41
16 4 0.14
17 7 0.24
18 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATTAATTATA
Found at i:34652855 original size:44 final size:46
Alignment explanation
Indices: 34652807--34652899 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 46
34652797 TACAACATTT
* * *
34652807 ATTCCGTTAAACTAAACAAAAGAA-TACT-ATTATAGCTCTATTCC
1 ATTCCATTAAACCAAACAAAAGAATTACTGATTACAGCTCTATTCC
* **
34652851 ATTCCATTCAACCAAACAACTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTAAACCAAACAAAAGAATTACTGATTACAGCTCTATTCC
34652897 ATT
1 ATT
34652900 ACAATTCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 19 0.46
45 4 0.10
46 18 0.44
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
ATTCCATTAAACCAAACAAAAGAATTACTGATTACAGCTCTATTCC
Found at i:34652902 original size:16 final size:16
Alignment explanation
Indices: 34652881--34652944 Score: 92
Period size: 16 Copynumber: 4.0 Consensus size: 16
34652871 TGAATTACTG
*
34652881 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
* *
34652897 ATTACAATTCTATTAC
1 ATTACAACTCTATTCC
34652913 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
*
34652929 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
34652945 TTCCCCCCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.31, C:0.30, G:0.02, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:34654459 original size:12 final size:12
Alignment explanation
Indices: 34654442--34654472 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
34654432 TCAATACCCT
34654442 CATATGTTCTAA
1 CATATGTTCTAA
*
34654454 CATATGCTCTAA
1 CATATGTTCTAA
34654466 CATATGT
1 CATATGT
34654473 AATTTCGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (12 bp):
CATATGTTCTAA
Found at i:34655749 original size:42 final size:42
Alignment explanation
Indices: 34655624--34655750 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
34655614 AGAAATGGTT
* ** *
34655624 TTACAAGCTGTGTATCAATGAAGCTCCCCATGTGAGCTTAAA
1 TTACAAGTTGTGTATCAGCGAAGCTCCCCATGTGAGCTTAAG
* * * *
34655666 TGACAAGTTGTGTATAAGCGAAGCTCCCCACGTGATCTTAAG
1 TTACAAGTTGTGTATCAGCGAAGCTCCCCATGTGAGCTTAAG
* *
34655708 TTACAAGTTGTGTATCAGCAAAGCTCCCCATGCGAGCTTAAG
1 TTACAAGTTGTGTATCAGCGAAGCTCCCCATGTGAGCTTAAG
34655750 T
1 T
34655751 GATTGTGCTC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
TTACAAGTTGTGTATCAGCGAAGCTCCCCATGTGAGCTTAAG
Found at i:34656164 original size:15 final size:15
Alignment explanation
Indices: 34656141--34656170 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34656131 TAAAAAAAAC
*
34656141 ACATGTTATAATATA
1 ACATATTATAATATA
34656156 ACATATTATAATATA
1 ACATATTATAATATA
34656171 GTTAAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
ACATATTATAATATA
Found at i:34658526 original size:18 final size:19
Alignment explanation
Indices: 34658491--34658534 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
34658481 TGCATGGCAA
* *
34658491 TATAAATTCATTAGATATT
1 TATAAATTCATTAAATATG
34658510 TATAAATT-ATTAAATATG
1 TATAAATTCATTAAATATG
34658528 TATAAAT
1 TATAAAT
34658535 AAGTTGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (19 bp):
TATAAATTCATTAAATATG
Found at i:34663605 original size:48 final size:49
Alignment explanation
Indices: 34663503--34663634 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 49
34663493 TGAAATCTCG
*
34663503 TATAAGACCATATCTGGGATATGGCATTGGTATC-G-ACACGAGATCCCA
1 TATAAGACCATATCTGGGATATGGCATTGGCATCTGTACAC-AGATCCCA
* * * * **
34663551 TGTAAGACCATATCTGGGATATGCCATTGGCATCTGTATA-AGGTTTCA
1 TATAAGACCATATCTGGGATATGGCATTGGCATCTGTACACAGATCCCA
* * *
34663599 TATAAGACCATGTCTGGGACATGGCATCGGCA-CTGT
1 TATAAGACCATATCTGGGATATGGCATTGGCATCTGT
34663635 TATGAGACTT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
47 4 0.06
48 63 0.90
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
TATAAGACCATATCTGGGATATGGCATTGGCATCTGTACACAGATCCCA
Found at i:34667800 original size:16 final size:16
Alignment explanation
Indices: 34667779--34667819 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
34667769 AGAGTAAATC
*
34667779 GAAAGCTTGTTGGATT
1 GAAAGCTCGTTGGATT
34667795 GAAAGCTCGTTGGATT
1 GAAAGCTCGTTGGATT
34667811 GAAAGCTCG
1 GAAAGCTCG
34667820 ACAGAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (16 bp):
GAAAGCTCGTTGGATT
Found at i:34672031 original size:46 final size:47
Alignment explanation
Indices: 34671921--34672033 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 47
34671911 GCAATTTCTG
* * *
34671921 GTGGTTTAACCACAT-T-TCTGTTATGGCAACTTGGCTGCATTTATA
1 GTGGTTGAACCACATATATCTGTTATGGCAACTTGGCTACATATATA
* * * *
34671966 GTGGTTGAAGCACACATATCTGTTTTGGCATCTTGGCTACA-ATATA
1 GTGGTTGAACCACATATATCTGTTATGGCAACTTGGCTACATATATA
34672012 GTGGCTTG-ACCACATATATCTG
1 GTGG-TTGAACCACATATATCTG
34672034 ATCTGGCAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
45 12 0.21
46 21 0.38
47 23 0.41
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (47 bp):
GTGGTTGAACCACATATATCTGTTATGGCAACTTGGCTACATATATA
Found at i:34672041 original size:46 final size:47
Alignment explanation
Indices: 34671944--34672041 Score: 110
Period size: 46 Copynumber: 2.1 Consensus size: 47
34671934 ATTTCTGTTA
* * * * *
34671944 TGGCAACTTGGCTGCATTTATAGTGGTTGAAGCACACATATCTGTTT
1 TGGCAACTTGGCTACATATATAGTGGTTGAACCACACATATCTGATC
* *
34671991 TGGCATCTTGGCTACA-ATATAGTGGCTTG-ACCACATATATCTGATC
1 TGGCAACTTGGCTACATATATAGTGG-TTGAACCACACATATCTGATC
34672037 TGGCA
1 TGGCA
34672042 GTTTAAACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 26 0.60
47 17 0.40
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (47 bp):
TGGCAACTTGGCTACATATATAGTGGTTGAACCACACATATCTGATC
Found at i:34672190 original size:22 final size:23
Alignment explanation
Indices: 34672151--34672193 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
34672141 TGGGTAGGAA
34672151 GTTTTCTGAAAAATTTGCATTTT
1 GTTTTCTGAAAAATTTGCATTTT
34672174 GTTTTCT--AAAATATTGCATT
1 GTTTTCTGAAAAAT-TTGCATT
34672194 GGCATAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (23 bp):
GTTTTCTGAAAAATTTGCATTTT
Found at i:34674476 original size:21 final size:21
Alignment explanation
Indices: 34674451--34674519 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
34674441 TATAATGATT
34674451 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
34674472 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
34674492 ACT-TTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
34674512 ATTATTAT
1 ATTATTAT
34674520 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 9 0.24
20 5 0.14
21 17 0.46
22 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:34674532 original size:15 final size:14
Alignment explanation
Indices: 34674506--34674536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
34674496 TATGGTTTTA
34674506 TATTAGATTATTAT
1 TATTAGATTATTAT
34674520 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
34674535 TA
1 TA
34674537 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:34676966 original size:20 final size:21
Alignment explanation
Indices: 34676928--34676972 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
34676918 ACAATTAATT
34676928 TTTTTTAAAAATTGAAAAT-A
1 TTTTTTAAAAATTGAAAATAA
*
34676948 TTTTTT-AAAATTGTTAAATAA
1 TTTTTTAAAAATTG-AAAATAA
34676969 TTTT
1 TTTT
34676973 AATAACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTTTAAAAATTGAAAATAA
Found at i:34679329 original size:13 final size:13
Alignment explanation
Indices: 34679311--34679335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34679301 CTAAAAGTAC
34679311 AAAAATCATCAAG
1 AAAAATCATCAAG
34679324 AAAAATCATCAA
1 AAAAATCATCAA
34679336 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:34681483 original size:2 final size:2
Alignment explanation
Indices: 34681476--34681518 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
34681466 TATTTACTTT
*
34681476 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34681518 T
1 T
34681519 TGTGTTGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:34682657 original size:3 final size:3
Alignment explanation
Indices: 34682649--34682721 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
34682639 AAATCAAAAG
34682649 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34682697 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
34682722 AGATACCAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34683781 original size:13 final size:14
Alignment explanation
Indices: 34683753--34683786 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
34683743 ATGAGTTGCT
34683753 ATATAATATGATATA
1 ATATAATA-GATATA
34683768 ATATAATA-ATATA
1 ATATAATAGATATA
34683781 ATATAA
1 ATATAA
34683787 ATGGATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATAATAGATATA
Found at i:34685190 original size:26 final size:26
Alignment explanation
Indices: 34685137--34685192 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
34685127 TGTTATTTAT
* * *
34685137 TTTTCCTTTCTTTCTTTTTTATTTTA
1 TTTTCCTTTCTTTCTTTTTGAATCTA
34685163 TTTT-CTTTCTTTTCTTTTTGAATCTA
1 TTTTCCTTTC-TTTCTTTTTGAATCTA
34685189 TTTT
1 TTTT
34685193 ATACATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTCCTTTCTTTCTTTTTGAATCTA
Found at i:34685821 original size:3 final size:3
Alignment explanation
Indices: 34685813--34685965 Score: 175
Period size: 3 Copynumber: 50.3 Consensus size: 3
34685803 TTTGGCTACT
* * * * *
34685813 TTA TTA TTA -AA TTAA TTA TT- TTA ATA TTA TTA TTA CTA CTA TTT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
34685857 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA
* * *
34685904 CTG TTA TTC TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34685950 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
34685966 AATACTATTA
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
2 3 0.02
3 116 0.91
4 8 0.06
5 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:34690909 original size:30 final size:30
Alignment explanation
Indices: 34690854--34690984 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
34690844 ATAGTGAATC
*
34690854 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
34690883 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
34690913 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
34690941 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
34690971 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34690985 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:34690964 original size:58 final size:58
Alignment explanation
Indices: 34690853--34690984 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
34690843 TATAGTGAAT
* * * * *
34690853 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
34690912 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
34690970 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
34690985 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:34697096 original size:28 final size:28
Alignment explanation
Indices: 34697031--34697131 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34697021 ATAGTGAATC
*
34697031 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
34697060 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34697088 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
34697118 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34697132 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34705050 original size:28 final size:28
Alignment explanation
Indices: 34704985--34705085 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34704975 ATAGTGAATC
*
34704985 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
34705014 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34705042 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
34705072 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34705086 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34707027 original size:64 final size:64
Alignment explanation
Indices: 34706949--34707069 Score: 206
Period size: 64 Copynumber: 1.9 Consensus size: 64
34706939 TAACATATCT
*
34706949 AGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCACATCC
1 AGTTAGGAGAATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCACATCC
* * *
34707013 AGTTAGGAGAATTTGATTTATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 AGTTAGGAGAATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
34707070 AGATACATGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (64 bp):
AGTTAGGAGAATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCACATCC
Found at i:34707219 original size:44 final size:44
Alignment explanation
Indices: 34707148--34707413 Score: 123
Period size: 44 Copynumber: 6.0 Consensus size: 44
34707138 GCCTTGTCTC
* * * **
34707148 TCTGAGGTAGCAAGAAAGTAGGTTGAAGATTGAAGTCTTATCTT
1 TCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGTCTTATCTT
* * * *
34707192 TTTGAGGTAGTAAGGAAGCAGACTGAAGGTTGAAGATCTCATCTC
1 TCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAG-TCTTATCTT
* * *
34707237 TCTAAGCAATAGT--GG-AGCAGA-TCGAAGA-TGACGAATCTTATCTT
1 TCTGAG--GTAGTAAGGAAGCAGACT-GAAGATTGA--AGTCTTATCTT
* * * * * ** ***** * *
34707281 CCCGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGCCTTGTCTT
1 TCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGTCTTATCTT
* **
34707325 TCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGAAGTCTTATC-T
1 TCTGAGGTAGTAAGGA-AGCAGACTGAAGATTGAAGTCTTATCTT
* *
34707368 TCTTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTT
1 TC-TGAGGTAGTAAGGAAGCAGACTGAAGATTGAAG-TCTTATCTT
34707414 CCTAAGCAGT
Statistics
Matches: 159, Mismatches: 47, Indels: 30
0.67 0.20 0.13
Matches are distributed among these distances:
42 4 0.03
43 8 0.05
44 110 0.69
45 31 0.19
46 2 0.01
47 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGTCTTATCTT
Found at i:34707432 original size:177 final size:176
Alignment explanation
Indices: 34707136--34707665 Score: 740
Period size: 177 Copynumber: 3.0 Consensus size: 176
34707126 GGTGAATTCA
*
34707136 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGTAGGTTGAAGATTGAAGTCTTATCTTTTTGAGGTA
1 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATC-TTTTGAGGTA
* * * * *
34707201 GTAAGGAAGCAGACTGAAGGTTGAAGATCTCATC-TCTCTAAGCAATAGTGGAGCAGATCGAAGA
65 GCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTTC-CTAAGCAGTAGTGGAGCAGATCGAAGA
*
34707265 TGACGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCAC
129 TGGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCAC
* *
34707313 CAGCCTTGTCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCTTGAGGTA
1 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATCTT-TTGAGGTA
* *
34707378 GCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTTGTGGAGCAGATCAAAGAT
65 GCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * **
34707443 GGCGAATCTTATCTTCCCGAGGTAGCAAGGGAATAGATTTTAGCCAC
130 GGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCAC
* * *
34707490 CAGCCTTATCTCTCTGAGGTAGTAAGAAAGCAGGTTAAAGATTGAAGTCTTATCTTTCTGAGGTA
1 CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATCTTT-TGAGGTA
* * * * *
34707555 GCAAGGAAATAGATTGAATATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
65 GCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * *** * *
34707620 GGCGAATCTTGTC-TCCCTAAACAGTAGTGGAGCAGATTTAAGCCAC
130 GGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCAC
34707666 AATCCTATCT
Statistics
Matches: 312, Mismatches: 38, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
176 26 0.08
177 284 0.91
178 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (176 bp):
CAGCCTTGTCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAGTCTTATCTTTTGAGGTAG
CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGATG
GCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCAC
Found at i:34707542 original size:44 final size:45
Alignment explanation
Indices: 34707494--34707590 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
34707484 AGCCACCAGC
* *
34707494 CTTATCTCTCTGAGGTAGTAA-GAAAGCAGGTTAAAGATTGAAG-T
1 CTTATCTCTCTGAGGTAGCAAGGAAA-CAGATTAAAGATTGAAGAT
* * * *
34707538 CTTATCTTTCTGAGGTAGCAAGGAAATAGATTGAATATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGGAAACAGATTAAAGATTGAAGAT
34707583 CTTATCTC
1 CTTATCTC
34707591 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGGAAACAGATTAAAGATTGAAGAT
Found at i:34707645 original size:44 final size:43
Alignment explanation
Indices: 34707581--34708085 Score: 482
Period size: 44 Copynumber: 11.7 Consensus size: 43
34707571 AATATTGAAG
* **
34707581 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCAC-A
* * *
34707625 ATCTTGTCTCCCTAAACAGTAGTGGAGCAGATTTAAG-CCACA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
* * * **
34707667 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
* * * *
34707710 GATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGA-TAGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCA--CA
* * * *
34707755 ATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATTTAAG-CCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
* * * ** **
34707797 ATCCTATCTCCCTAAGCAGTAGTGGGGTAGGCTGAAGATTACA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
* *
34707840 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCAC-A
* * *
34707885 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
* * **
34707927 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGA-TGAAGATTACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATTGAAGACCAC-A
* * ***
34707971 ATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCAC-A
* * * *
34708015 ATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATTTAAG-CCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
*
34708057 ATCCTATCTCCCTAAGCAGTAGTGGAGCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA
34708086 TGTTGAAATC
Statistics
Matches: 372, Mismatches: 77, Indels: 26
0.78 0.16 0.05
Matches are distributed among these distances:
42 117 0.31
43 19 0.05
44 234 0.63
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCACA
Found at i:34707687 original size:86 final size:85
Alignment explanation
Indices: 34707585--34708085 Score: 459
Period size: 86 Copynumber: 5.8 Consensus size: 85
34707575 TTGAAGATCT
* * * *
34707585 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAACAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGAC-AATCTTATCTCCCTAAGCAGTAGTGG
*
34707650 AGCAGATTTAAGCCACAATCC
65 AGCAGATTGAAGCCACAATCC
* * ** *
34707671 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCTTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACA-ATCTTATCTCCCTAAGCAGTAGTGG
* ** * *
34707736 AGCAGATCGAAGATAGTGAATCT
65 AGCAGATTGAAGCCA--CAATCC
* * * * * * *
34707759 TGTCTCCCTAAGTAGTAGTGGAGCAGATTTAAG-CCACCATCCTATCTCCCTAAGCAGTAGTGGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAATCTTATCTCCCTAAGCAGTAGTGGA
* ** ** *
34707823 GTAGGCTGAAGATTACAGATCT
66 GCAGATTGAAG-CCACA-ATCC
* *
34707845 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACGAATCTTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGAC-AATCTTATCTCCCTAAGCAGTAGTGG
* *
34707910 AGCAGATTTAAGCCACCATCC
65 AGCAGATTGAAGCCACAATCC
* ** *
34707931 TATCTCCCTAAGCAGTAGTGGAGTAGGA-TGAAGATTACAAATCTTATCTCCCTAAGCAGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATTGAAGACGAC-AATCTTATCTCCCTAAGCAGTAGTG
* *** *
34707995 GAGCAGATCGAAGATGGCGAATCT
64 GAGCAGATTGAAG-CCAC-AATCC
* * * * * *
34708019 TGTCTCCCTAAGCAGTAGTAGAGCAGATTTAAG-CCACCATCCTATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAATCTTATCTCCCTAAGCAGTAGTGGA
34708083 GCA
66 GCA
34708086 TGTTGAAATC
Statistics
Matches: 333, Mismatches: 71, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
85 2 0.01
86 224 0.67
87 16 0.05
88 91 0.27
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (85 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATTGAAGCCACAATCC
Found at i:34707801 original size:130 final size:130
Alignment explanation
Indices: 34707579--34708092 Score: 857
Period size: 130 Copynumber: 4.0 Consensus size: 130
34707569 TGAATATTGA
* *
34707579 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGTCTCCCTAAACAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAG
*
34707644 TAGTGGAGCAGATTTAAGCCACAATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
* * * *
34707709 AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATAGTGAATCTTGTCTCCCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAG
* *
34707774 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGGGTAGGCTGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
** * *
34707839 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAG
*
34707904 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
* *
34707969 AAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAG
* * *
34708034 TAGTAGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGCATGTTGAA
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA
34708093 ATCCATAATT
Statistics
Matches: 355, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 355 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAG
TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTAC
Found at i:34708269 original size:88 final size:88
Alignment explanation
Indices: 34708099--34708735 Score: 767
Period size: 88 Copynumber: 7.2 Consensus size: 88
34708089 TGAAATCCAT
* * * * * * * * *
34708099 AATTCATATATCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATATTTTCTCCTTGAAATT
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
* **
34708164 GCACTAAAGCGGCTCGAAGCCAC
66 GCATTGGAGCGGCTCGAAGCCAC
* * * * *
34708187 AATTTGTATCAT-CTTGAAGTTTCAGCGAAGTATATCAAAGCTACAAATCTCTTCTCCCTAAAAT
1 AATTCGTATC-TCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAAT
*
34708251 GGTATTGGAGCGGCTCGAAGCCAC
65 GGCATTGGAGCGGCTCGAAGCCAC
* *
34708275 AATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAA-CTACAAATCTCTTCTCCCTGTAAT
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATC-AAAGCTACAAATCTCTTCTCCCTGAAAT
* * * *
34708339 GGAATTAGAGTGGCTCGAAGCCAT
65 GGCATTGGAGCGGCTCGAAGCCAC
* * * ** * *
34708363 AATTCATATCTCCTTAAAGTTCCAGCGGGGTAGATTGAAGTTACAAATCTCTTCTCCTTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
* *
34708428 GCATTGGAGTGGTTCGAAGCCAC
66 GCATTGGAGCGGCTCGAAGCCAC
* * *
34708451 AATTCATATCTCCTTGAAGCTCCAGCGGAGTAGATCGAAA-CTACAAATCTTTTCTCCCTGAAAT
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATC-AAAGCTACAAATCTCTTCTCCCTGAAAT
* *
34708515 GGCATTGGAGCAGCTCAAAGCCAC
65 GGCATTGGAGCGGCTCGAAGCCAC
* *
34708539 AATTCGTATCTCCTTGAAGTTTCAGCGGAGTATATCAAAGCTACAAATCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
* *
34708604 GCATTGGAGCAGCTCGAAGCCAT
66 GCATTGGAGCGGCTCGAAGCCAC
* * * * *
34708627 AATTCTTATCTCCTTAAAGTTCTAGTGGAGTAGATCAAAGCTACAAGTCTCTTCTCCCTGAAATG
1 AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
* *
34708692 GCATTGGAACGGCTCAAAGCCAC
66 GCATTGGAGCGGCTCGAAGCCAC
* *
34708715 AATTCTTATCTCCCTGAAGTT
1 AATTCGTATCTCCTTGAAGTT
34708736 GGAGTGGAGT
Statistics
Matches: 469, Mismatches: 74, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
87 6 0.01
88 457 0.97
89 6 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
AATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATG
GCATTGGAGCGGCTCGAAGCCAC
Found at i:34708463 original size:44 final size:44
Alignment explanation
Indices: 34708247--34708732 Score: 168
Period size: 44 Copynumber: 11.0 Consensus size: 44
34708237 CTTCTCCCTA
* ** * *
34708247 AAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTG
1 AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
* ** ** * * *
34708291 AAGTTCCAACGGAGTAGATCGAAACTACAAATCTC-T-TCTCCCTG
1 AAATGGCATTGGAGTAGATCGAAGCCAC-AAT-TCATATCTCCTTG
* * * * * *
34708335 TAATGGAATTAGAGTGGCTCGAAGCCATAATTCATATCTCCTT-
1 AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
** ** * * **
34708378 AAAGTTCCAGCGGGGTAGATTGAAGTTACAAATCTC-T-TCTCCTTG
1 AAA-TGGCATTGGAGTAGATCGAAGCCAC-AAT-TCATATCTCCTTG
* *
34708423 AAATGGCATTGGAGTGGTTCGAAGCCACAATTCATATCTCCTTG
1 AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
* * ** * * * * * *
34708467 AAGCT-CCAGCGGAGTAGATCGAAACTACAAATCTTTTCTCCCTG
1 AA-ATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
* * * *
34708511 AAATGGCATTGGAGCAGCTCAAAGCCACAATTCGTATCTCCTTG
1 AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
* ** ** * * * *
34708555 AAGTTTCAGCGGAGTATATCAAAGCTACAAATCTC-T-TCTCCCTG
1 AAATGGCATTGGAGTAGATCGAAGCCAC-AAT-TCATATCTCCTTG
* * * *
34708599 AAATGGCATTGGAGCAGCTCGAAGCCATAATTCTTATCTCCTT-
1 AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
* * * * *
34708642 AAA-GTTCTAGTGGAGTAGATCAAAGCTACAAGTCTC-T-TCTCCCTG
1 AAATG-GC-ATTGGAGTAGATCGAAGCCACAA-T-TCATATCTCCTTG
*** * * * *
34708687 AAATGGCATTGGAACGGCTCAAAGCCACAATTCTTATCTCCCTG
1 AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
34708731 AA
1 AA
34708733 GTTGGAGTGG
Statistics
Matches: 306, Mismatches: 112, Indels: 48
0.66 0.24 0.10
Matches are distributed among these distances:
42 9 0.03
43 21 0.07
44 245 0.80
45 22 0.07
46 9 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
AAATGGCATTGGAGTAGATCGAAGCCACAATTCATATCTCCTTG
Found at i:34708538 original size:264 final size:264
Alignment explanation
Indices: 34708095--34708733 Score: 861
Period size: 264 Copynumber: 2.4 Consensus size: 264
34708085 ATGTTGAAAT
* * *
34708095 CCATAATTCATATATCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATATTTTCTCCTTGA
1 CCATAATTCATATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGA
* * ** ** * * *
34708160 AATTGCACTAAAGCGGCTCGAAGCCACAATTTGTATCAT-CTTGAAGTTTCAGCGAAGTATATCA
66 AATGGCATTGGAGCGGCTCGAAGCCACAATTCATATC-TCCTTGAAGCTCCAGCGAAGTAGATCA
* * *
34708224 AAGCTACAAATCTCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCT
130 AAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCAAAGCCACAATTCGTATCTCCT
* **
34708289 TGAAGTTCCAACGGAGTAGATCGAAA-CTACAAATCTCTTCTCCCTGTAATGGAATTAGAGTGGC
195 TGAAGTTCCAACGGAGTAGATC-AAAGCTACAAATCTCTTCTCCCTGAAATGGAATTAGAGCAGC
34708353 TCGAAG
259 TCGAAG
* * * *
34708359 CCATAATTCATATCTCCTTAAAGTTCCAGCGGGGTAGATTGAAGTTACAAATCTCTTCTCCTTGA
1 CCATAATTCATATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGA
* * *
34708424 AATGGCATTGGAGTGGTTCGAAGCCACAATTCATATCTCCTTGAAGCTCCAGCGGAGTAGATCGA
66 AATGGCATTGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAGCTCCAGCGAAGTAGATC-A
* *
34708489 AA-CTACAAATCTTTTCTCCCTGAAATGGCATTGGAGCAGCTCAAAGCCACAATTCGTATCTCCT
130 AAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCAAAGCCACAATTCGTATCTCCT
* * * * *
34708553 TGAAGTTTCAGCGGAGTATATCAAAGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCAGCT
195 TGAAGTTCCAACGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATGGAATTAGAGCAGCT
34708618 CGAAG
260 CGAAG
* * * * *
34708623 CCATAATTCTTATCTCCTTAAAGTTCTAGTGGAGTAGATCAAAGCTACAAGTCTCTTCTCCCTGA
1 CCATAATTCATATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGA
* * * *
34708688 AATGGCATTGGAACGGCTCAAAGCCACAATTCTTATCTCCCTGAAG
66 AATGGCATTGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAG
34708734 TTGGAGTGGA
Statistics
Matches: 325, Mismatches: 47, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
263 4 0.01
264 318 0.98
265 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (264 bp):
CCATAATTCATATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGA
AATGGCATTGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAGCTCCAGCGAAGTAGATCAA
AGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTCAAAGCCACAATTCGTATCTCCTT
GAAGTTCCAACGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATGGAATTAGAGCAGCTC
GAAG
Found at i:34708804 original size:51 final size:48
Alignment explanation
Indices: 34708719--34708989 Score: 197
Period size: 44 Copynumber: 5.8 Consensus size: 48
34708709 AGCCACAATT
* * * * *
34708719 CTTATCTCCCTGAAGTTGGAGTGGAGTATATTGAATCTAGAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTAG---TCACAAAC
* ** **
34708770 CTTATCTCGCTGAAGTTGCAGTGGAGCAGGTTGAAG-T--T-ACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTAGTCACAAAC
* * *
34708814 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGT---GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTAGTCACAAAC
* **
34708859 CTTATCTCCTTGAAGTTGCAGTGGAGTGGACTGAAGCTAGAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTAG---TCACAAAC
* * * * **
34708910 CTTATCTCCCTGAAGTTGTAGTGGGGTA-AGTTGAAG-T--T-ACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGCTAGTCACAAAC
34708954 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
34708990 AAAGTAGATC
Statistics
Matches: 179, Mismatches: 30, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
44 71 0.40
45 42 0.23
47 1 0.01
48 1 0.01
50 3 0.02
51 61 0.34
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (48 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTAGTCACAAAC
Found at i:34708877 original size:45 final size:45
Alignment explanation
Indices: 34708770--34709028 Score: 215
Period size: 44 Copynumber: 5.7 Consensus size: 45
34708760 AATCACAAAC
* ** *
34708770 CTTATCTCGCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA--CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTCAA-T
*
34708814 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTCAAT
* ** * *
34708859 CTTATCTCCTTGAAGTTGCAGTGGAGTGGACTGAAGCTAGAAATCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG---T--C-AAT
* * * * *
34708910 CTTATCTCCCTGAAGTTGTAGTGGGGTA-AGTTGAAGTTA--CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGTCAA-T
*
34708954 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGT-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTCA-AT
* * *
34708999 CTCATCTCCTTGAAGTTGCAATGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
34709029 TTAAGCTACA
Statistics
Matches: 174, Mismatches: 27, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 67 0.39
45 67 0.39
46 3 0.02
48 1 0.01
50 1 0.01
51 33 0.19
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTCAAT
Found at i:34708907 original size:140 final size:140
Alignment explanation
Indices: 34708718--34709024 Score: 472
Period size: 140 Copynumber: 2.2 Consensus size: 140
34708708 AAGCCACAAT
* * * * * *
34708718 TCTTATCTCCCTGAAGTTGGAGTGGAGTATATTGAATCTAGAAATCACAAACCTTATCTCGCTGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGCTAGAAATCACAAACCTTATCTCCCTGA
*
34708783 AGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
66 AGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
*
34708848 AGATAGT-GAA
131 AGAAAGTAG-A
*
34708858 TCTTATCTCCTTGAAGTTGCAGTGGAGTGGACTGAAGCTAGAAATCACAAACCTTATCTCCCTGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGCTAGAAATCACAAACCTTATCTCCCTGA
* * *
34708923 AGTTGTAGTGGGGTAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
66 AGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
34708988 AGAAAGTAGA
131 AGAAAGTAGA
* *
34708998 TCTCATCTCCTTGAAGTTGCAATGGAG
1 TCTTATCTCCTTGAAGTTGCAGTGGAG
34709025 CAGATTAAGC
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
140 151 0.99
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (140 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGCTAGAAATCACAAACCTTATCTCCCTGA
AGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
AGAAAGTAGA
Found at i:34709550 original size:25 final size:25
Alignment explanation
Indices: 34709517--34709569 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
34709507 AAGGTTACTA
*
34709517 TTTTTTTTTCTTTTCTTTC-TTTCT
1 TTTTTTTTTATTTTCTTTCTTTTCT
34709541 TTTTTATTTTATTTTCTTTCTTTTCT
1 TTTTT-TTTTATTTTCTTTCTTTTCT
34709567 TTT
1 TTT
34709570 CGAATCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 5 0.19
25 13 0.50
26 8 0.31
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTTTTTTATTTTCTTTCTTTTCT
Found at i:34710237 original size:3 final size:3
Alignment explanation
Indices: 34710229--34710485 Score: 265
Period size: 3 Copynumber: 85.3 Consensus size: 3
34710219 TTTGGCTACT
* * * *
34710229 TTA TTA TTA -AA TTAA TTA TT- TTA ATA TTA TTA TTA TTA CTA TTT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
34710273 TTA TTA TTA CTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
34710321 TTAA CTTA TTA TTA TTC TTA TTA GTA -TA TTA TTA TTTC TTA TT- TT-
1 TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* ** * *
34710366 TTA -TA TTA TTA TTG TTA TTA ACA TATA TTA TTA TTA TTAA TGTA CTG
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A T-TA TTA
* *
34710413 TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34710461 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
34710486 ACTATTAAAC
Statistics
Matches: 213, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
2 11 0.05
3 187 0.88
4 12 0.06
5 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34710771 original size:21 final size:21
Alignment explanation
Indices: 34710745--34710794 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
34710735 TATTACTATT
34710745 ATTAATATCATCGCCATTATG
1 ATTAATATCATCGCCATTATG
*
34710766 ATTAATATCATCGTCATTATG
1 ATTAATATCATCGCCATTATG
34710787 ATTAATAT
1 ATTAATAT
34710795 TATTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (21 bp):
ATTAATATCATCGCCATTATG
Found at i:34726807 original size:29 final size:29
Alignment explanation
Indices: 34726774--34726905 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
34726764 GTGACGAGAT
*
34726774 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
34726803 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
34726832 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
34726861 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
34726890 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34726906 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:34734669 original size:29 final size:29
Alignment explanation
Indices: 34734636--34734767 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
34734626 GTGACGAGAT
*
34734636 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
34734665 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
34734694 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
34734723 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
34734752 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34734768 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:34742035 original size:23 final size:23
Alignment explanation
Indices: 34741978--34742035 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
34741968 ACGTTTACCG
*
34741978 CTATTAGCAGCATTGCTGAGTTA
1 CTATTAGCAGCTTTGCTGAGTTA
34742001 CTATTAGCAGCTTTGCTGCA-TTA
1 CTATTAGCAGCTTTGCTG-AGTTA
34742024 CTATTAGCAGCT
1 CTATTAGCAGCT
34742036 ACGCTGCGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGAGTTA
Found at i:34742041 original size:23 final size:23
Alignment explanation
Indices: 34741998--34742042 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34741988 CATTGCTGAG
**
34741998 TTACTATTAGCAGCTTTGCTGCA
1 TTACTATTAGCAGCTACGCTGCA
34742021 TTACTATTAGCAGCTACGCTGC
1 TTACTATTAGCAGCTACGCTGC
34742043 GATATTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (23 bp):
TTACTATTAGCAGCTACGCTGCA
Found at i:34750380 original size:29 final size:29
Alignment explanation
Indices: 34750347--34750420 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
34750337 GTGACGAGAT
34750347 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34750376 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
34750405 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34750421 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Done.