Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 166 of 425
Found at i:50310702 original size:28 final size:28
Alignment explanation
Indices: 50310613--50310743 Score: 166
Period size: 28 Copynumber: 4.8 Consensus size: 28
50310603 TTGTGCTATT
*
50310613 CTGGTGTGTTTTGGATGGATTATATTATT
1 CTGGTGTGTTTTGGA-GGATTATATTATA
50310642 CTGGTGTGTTTTGGATGGATTATATTAT-
1 CTGGTGTGTTTTGGA-GGATTATATTATA
* * *
50310670 TTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGAGGATTATATTATA
50310698 CTGGTGTGTTTTGGAGG-----ATTATA
1 CTGGTGTGTTTTGGAGGATTATATTATA
50310721 CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
50310744 CTAGTGTGTT
Statistics
Matches: 90, Mismatches: 6, Indels: 13
0.83 0.06 0.12
Matches are distributed among these distances:
23 22 0.24
27 11 0.12
28 29 0.32
29 28 0.31
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (28 bp):
CTGGTGTGTTTTGGAGGATTATATTATA
Found at i:50310721 original size:23 final size:24
Alignment explanation
Indices: 50310613--50310757 Score: 132
Period size: 23 Copynumber: 5.6 Consensus size: 24
50310603 TTGTGCTATT
50310613 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
50310640 TTCTGGTGTGTTTTGGATGGATTATATTA
1 --CTGGTGTGTTTTGGA-GGA-TATA-TA
* *
50310669 TTTGGTGTGTTTGGGAGGATTATATGATA
1 -CTGGTGTGTTTTGGAGG---ATAT-ATA
50310698 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
50310721 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
*
50310744 CTAGTGTGTTTTGG
1 CTGGTGTGTTTTGG
50310758 TTGGACATTT
Statistics
Matches: 107, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
23 39 0.36
24 1 0.01
25 2 0.02
27 2 0.02
28 29 0.27
29 32 0.30
30 2 0.02
ACGTcount: A:0.17, C:0.03, G:0.32, T:0.47
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:50310994 original size:21 final size:21
Alignment explanation
Indices: 50310946--50311074 Score: 118
Period size: 21 Copynumber: 6.1 Consensus size: 21
50310936 GGCTATACTG
* *
50310946 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
50310967 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTGTGTGTCGT
50310990 ATCAGGCA-CTTCGTGTGTCGT
1 ATCAGGCACCTT-GTGTGTCGT
* * * *
50311011 TTTAGGCACCTCGTGTGTCAT
1 ATCAGGCACCTTGTGTGTCGT
* * *
50311032 TTTAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
50311053 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
50311073 AT
1 AT
50311075 TCTGATCAGG
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
20 14 0.15
21 58 0.62
22 2 0.02
23 19 0.20
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:50311039 original size:42 final size:42
Alignment explanation
Indices: 50310946--50311061 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
50310936 GGCTATACTG
** * *
50310946 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTTGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT-TTT-AGGCACCTCGTGTGTCAT
50310990 ATCAGGCACTTCGTGTGTCGTTTTAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTCGTGTGTCGTTTTAGGCACCTCGTGTGTCAT
* * * *
50311032 TTTAGGCACCTCGTGTGTCGTTTCAGGCAC
1 ATCAGGCACTTCGTGTGTCGTTTTAGGCAC
50311062 TTATGTGTCG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 42 0.66
43 3 0.05
44 19 0.30
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACTTCGTGTGTCGTTTTAGGCACCTCGTGTGTCAT
Found at i:50311260 original size:18 final size:19
Alignment explanation
Indices: 50311234--50311272 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
50311224 GAAAGTGTGA
50311234 AAAAAAAATG-GAATTATG
1 AAAAAAAATGTGAATTATG
* *
50311252 AAAAGAAATGTGAATTGTG
1 AAAAAAAATGTGAATTATG
50311271 AA
1 AA
50311273 TTGAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (19 bp):
AAAAAAAATGTGAATTATG
Found at i:50312209 original size:46 final size:46
Alignment explanation
Indices: 50312159--50312307 Score: 142
Period size: 46 Copynumber: 3.1 Consensus size: 46
50312149 TGGTTGGACC
50312159 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * *
50312205 ATGGCATC-A-GAGATATGTGATTACGTGCTTCCGTATAAACCATATCTGGGAT
1 ATGGCATCAATGTGATATGTGA-T-C-TG--T--GTA-AGACCATAGCTGGGCT
* *
50312257 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
50312303 ATGGC
1 ATGGC
50312308 TACGGTGTGT
Statistics
Matches: 82, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
44 10 0.12
45 2 0.02
46 26 0.32
47 5 0.06
49 2 0.02
50 1 0.01
51 4 0.05
52 21 0.26
53 1 0.01
54 10 0.12
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:50317825 original size:46 final size:45
Alignment explanation
Indices: 50317654--50317819 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
50317644 TGTAACCCGC
* *
50317654 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGA-CATTCGCAT
* *
50317700 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG-GATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACATTCGC-A--T
* *** * *
50317746 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAG-CTCGACATTCGCAT
50317793 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
50317820 TGAGTTCGGA
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 58 0.60
47 28 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACATTCGCAT
Found at i:50317829 original size:93 final size:93
Alignment explanation
Indices: 50317662--50317833 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
50317652 GCCCATAAGT
* * *
50317662 GAACTCGGACTCAACTTAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50317727 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
50317755 GAACTCGGACTCAACTCAACGAGTTTAGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-CTAGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
50317819 ATGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
50317834 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 69 0.96
94 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTAGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:50322373 original size:47 final size:48
Alignment explanation
Indices: 50322302--50322519 Score: 211
Period size: 47 Copynumber: 4.6 Consensus size: 48
50322292 TAGGTATGGT
* *
50322302 GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
* * **
50322349 GTCGATGCCATGTCCCAGACATGGTCTTACA-TTGACT-ATCATCTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATC-TCAA
* * * * *
50322397 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTA-CGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-AA
* *
50322443 GCCGATG-CATGTCCCAGACAT-GTCTTTCACTAGCTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
*
50322488 TGTCGATGCCATGTCCCAGACATGGTCTTACA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACA
50322520 ATGCCTCTCA
Statistics
Matches: 141, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.01
46 61 0.43
47 63 0.45
48 15 0.11
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
Found at i:50322447 original size:46 final size:46
Alignment explanation
Indices: 50322302--50322572 Score: 189
Period size: 47 Copynumber: 5.8 Consensus size: 46
50322292 TAGGTATGGT
* * *
50322302 GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCAT-ATCTCAA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAAG
* * * * **
50322349 GTCGATGCCATGTCCCAGACATGGTCTTACA-TTGACTATCATCTTGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTC-TCAAG
* * *
50322397 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAG
* *
50322443 GCCGATGCATGTCCCAGACATGTCTTTCACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAG
* * *
50322489 GTCGATGCCATGTCCCAGACATGGTCTTACAAT-GC-CTC-TCATAATATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCA-A-G
* * *
50322537 GTCGATGCATGTCCTAGATATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
50322573 ACAAAAAAAT
Statistics
Matches: 184, Mismatches: 26, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
45 5 0.03
46 75 0.41
47 80 0.43
48 24 0.13
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAG
Found at i:50322562 original size:140 final size:141
Alignment explanation
Indices: 50322302--50322567 Score: 378
Period size: 140 Copynumber: 1.9 Consensus size: 141
50322292 TAGGTATGGT
50322302 GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
* ** *
50322367 ACATGGTCTTACATTGACTATCATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT
66 ACATGGTCTTACAATGACTATCATAATATAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT
50322432 TACGTCTCGAG
131 TACGTCTCGAG
* *
50322443 GCCGATG-CATGTCCCAGACAT-GTCTT-TCACTAGCTC-TCGTCTCAATGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTAT-ACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCC
* * * * *
50322504 CAGACATGGTCTTACAATGCCTCTCATAATATGGTCGATGCATGTCCTAGATATGTCTTACACT
63 CAGACATGGTCTTACAATGACTATCATAATATAGCCGATGCATGTCCTAGACATGTCTTACACT
50322568 AGCTCACAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
138 2 0.02
139 19 0.17
140 83 0.75
141 7 0.06
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
ACATGGTCTTACAATGACTATCATAATATAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT
TACGTCTCGAG
Found at i:50323645 original size:19 final size:19
Alignment explanation
Indices: 50323621--50323659 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
50323611 AGCTATGGAG
50323621 AATGGAGAAATCCCAAGAA
1 AATGGAGAAATCCCAAGAA
*
50323640 AATGGAGAAATCCTAAGAA
1 AATGGAGAAATCCCAAGAA
50323659 A
1 A
50323660 TGCCAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (19 bp):
AATGGAGAAATCCCAAGAA
Found at i:50323973 original size:5 final size:5
Alignment explanation
Indices: 50323965--50324003 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
50323955 AAGTGATGTG
*
50323965 AAAAT AAAAT AAAAT AAAAT AAAACT AAACT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAA
50324004 GAACACACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:50323998 original size:16 final size:15
Alignment explanation
Indices: 50323965--50324003 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
50323955 AAGTGATGTG
50323965 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
*
50323980 AAAATAAAACTAAACT
1 AAAATAAAA-TAAAAT
50323996 AAAATAAA
1 AAAATAAA
50324004 GAACACACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:50328396 original size:5 final size:5
Alignment explanation
Indices: 50328386--50328424 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
50328376 CATATTTATG
*
50328386 AAAAT AAAAT AAAAT AAAAT AAAACT AATAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAA
50328425 GAACATACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:50328420 original size:16 final size:15
Alignment explanation
Indices: 50328386--50328424 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
50328376 CATATTTATG
50328386 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
*
50328401 AAAATAAAACTAATAT
1 AAAATAAAA-TAAAAT
50328417 AAAATAAA
1 AAAATAAA
50328425 GAACATACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:50333363 original size:42 final size:43
Alignment explanation
Indices: 50333157--50333401 Score: 251
Period size: 43 Copynumber: 5.7 Consensus size: 43
50333147 ATTTATGTGA
* * *
50333157 ACAAACGCCGCTAAAGAACATGACCTTTAGTGACACTTTCCCC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
*
50333200 ACAAACG-CGCTAAAGAACATGACCTTTAGCGGTGCTTTCCCC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
** * * *
50333242 ACAATTGCCGCTAAAGAGCATGACCTTTAGCGGCACTTTCTCC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
* * * * *
50333285 ACAAACGCCGCTAAAGAACTTGACTTTTACCAGCGCTTT-CCT
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
* * * * * *
50333327 AAAAACACTGCTAAAGAACATGACCTTTAGCGGCGCTCTCTCT
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
* * * * *
50333370 ATAAACGTCGCTAAAAAACTTGACTTTTAGCG
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCG
50333402 ATGTTTTCCC
Statistics
Matches: 164, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 68 0.41
43 96 0.59
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
Found at i:50333416 original size:85 final size:84
Alignment explanation
Indices: 50333159--50333450 Score: 273
Period size: 85 Copynumber: 3.4 Consensus size: 84
50333149 TTATGTGAAC
* * * * * *
50333159 AAACGCCGCTAAAGAACATGACCTTTAGTGACACTTTCCCCACAAACGCGCTAAAGAACATGACC
1 AAACACCGCTAAAGAACATGACCTTTAGCGGCACTTTCTCCACAAACGCGCTAAAGAACTTGACT
* * *
50333224 TTTAGCGGTGCTTTCCCCAC
66 TTTAGCGATG-TTTTCCCAA
*** *
50333244 AATTGCCGCTAAAGAGCATGACCTTTAGCGGCACTTTCTCCACAAACGCCGCTAAAGAACTTGAC
1 AAACACCGCTAAAGAACATGACCTTTAGCGGCACTTTCTCCACAAACG-CGCTAAAGAACTTGAC
* * * *
50333309 TTTTA-CCAGCGCTTTCCTAA
65 TTTTAGCGA-TGTTTTCCCAA
* * * * * *
50333329 AAACACTGCTAAAGAACATGACCTTTAGCGGCGCTCTCTCTATAAACGTCGCTAAAAAACTTGAC
1 AAACACCGCTAAAGAACATGACCTTTAGCGGCACTTTCTCCACAAACG-CGCTAAAGAACTTGAC
50333394 TTTTAGCGATGTTTTCCCAA
65 TTTTAGCGATGTTTTCCCAA
* * * **
50333414 AAACGCCACTAAA-AGTCATGTTCTTTAGCGGCACTTT
1 AAACACCGCTAAAGA-ACATGACCTTTAGCGGCACTTT
50333451 TCTCAAAAAT
Statistics
Matches: 165, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
84 1 0.01
85 142 0.86
86 22 0.13
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (84 bp):
AAACACCGCTAAAGAACATGACCTTTAGCGGCACTTTCTCCACAAACGCGCTAAAGAACTTGACT
TTTAGCGATGTTTTCCCAA
Found at i:50334136 original size:23 final size:23
Alignment explanation
Indices: 50334103--50334668 Score: 305
Period size: 23 Copynumber: 24.7 Consensus size: 23
50334093 TTTCATCAAC
* *
50334103 TAAACAATTCAATTTGCAATACT
1 TAAACACTTCAATTTGCAACACT
* * *
50334126 TAAAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAACACT
* * *
50334149 TAAACACTTCAAATTGTAGCACT
1 TAAACACTTCAATTTGCAACACT
* * * *
50334172 TTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAACACT
*
50334195 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTGCAACACT
* ** *
50334218 TTAACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTGCAACACT
* * * * *
50334241 TATACACCTCAA-CTACAGCGA-T
1 TAAACACTTCAATTTGCAAC-ACT
* *
50334263 AAAACA-TCTCAATTT-CTAGCAGC-
1 TAAACACT-TCAATTTGC-AACA-CT
**
50334286 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTGCAACACT
* *
50334309 TAAACACTTTAATTTACAACA-T
1 TAAACACTTCAATTTGCAACACT
* *
50334331 ATAAACACTTCAATTTACAACATT
1 -TAAACACTTCAATTTGCAACACT
* * *
50334355 TAAGCACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAACACT
**
50334378 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTGCAACACT
* * * *
50334401 TTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAACACT
* *
50334424 TAAACACTTCAATTTACAGCACT
1 TAAACACTTCAATTTGCAACACT
* ** *
50334447 TTAACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTGCAACACT
* * * *
50334470 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTGCAAC-ACT
* * *
50334492 AAAACA-TCTCAATTTCCAGCAGC-
1 TAAACACT-TCAATTTGCAACA-CT
** *
50334515 TAAACACTTCAATTTGCAGTACG
1 TAAACACTTCAATTTGCAACACT
* *
50334538 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAACACT
* * *
50334561 TAAGCACTTCAATTTACATCA-T
1 TAAACACTTCAATTTGCAACACT
* *
50334583 ATAAACACTTCAATTTACAGCA-T
1 -TAAACACTTCAATTTGCAACACT
* *
50334606 TTAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTGCAACACT
* * ** *
50334629 TTAACACTTCAATTTACAGTATT
1 TAAACACTTCAATTTGCAACACT
*
50334652 TAAACACTTTAATTTGC
1 TAAACACTTCAATTTGC
50334669 TGCACTTTCA
Statistics
Matches: 433, Mismatches: 86, Indels: 48
0.76 0.15 0.08
Matches are distributed among these distances:
22 55 0.13
23 374 0.86
24 4 0.01
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (23 bp):
TAAACACTTCAATTTGCAACACT
Found at i:50334153 original size:46 final size:46
Alignment explanation
Indices: 50334103--50334675 Score: 547
Period size: 46 Copynumber: 12.5 Consensus size: 46
50334093 TTTCATCAAC
* ** *
50334103 TAAACAATTCAATTTGCAATACTTAAAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* * * *
50334149 TAAACACTTCAAATTGTAGCACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* *
50334195 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAACATT
* * * * * * **
50334241 TATACACCTCAA-CTACAGCGA-TAAAACA-TCTCAATTT-CTAGCAGC
1 TAAACACTTCAATTTGCAGC-ACTTAAACACT-TCAATTTAC-AACATT
* * *
50334286 TAAACACTTCAATTTGCAGTACTTAAACACTTTAATTTACAACATA
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* * * *
50334332 TAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* * *
50334378 TAAACACTTCAATTTGCAGTACTTTAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* * *
50334424 TAAACACTTCAATTTACAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAACATT
* * * * * * **
50334470 TATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAGC
1 TAAACACTTCAATTTGCAGC-ACTTAAACACT-TCAATTTACAACATT
* *
50334515 TAAACACTTCAATTTGCAGTACGTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* * * *
50334561 TAAGCACTTCAATTTACATCA-TATAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACT-TAAACACTTCAATTTACAACATT
* **
50334607 T-AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGTATT
1 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* *
50334652 TAAACACTTTAATTTGCTGCACTT
1 TAAACACTTCAATTTGCAGCACTT
50334676 TCATACCTTC
Statistics
Matches: 430, Mismatches: 82, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
44 1 0.00
45 107 0.25
46 319 0.74
47 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (46 bp):
TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
Found at i:50334515 original size:229 final size:229
Alignment explanation
Indices: 50334103--50334676 Score: 943
Period size: 229 Copynumber: 2.5 Consensus size: 229
50334093 TTTCATCAAC
* * * * * * *
50334103 TAAACAATTCAATTTGCAATACTTAAAAACTTCAATTTACAACATTTAAACACTTCAAATTGTAG
1 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
50334168 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
66 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
*
50334233 ACAACATTTATACACCTCAACTACAGCGATAAAACATCTCAATTTCTAGCAGCTAAACACTTCAA
131 ACAACATTTATACACCTCAACTACAGCGATAAAACATCTCAATTTCCAGCAGCTAAACACTTCAA
* *
50334298 TTTGCAGTACTTAAACACTTTAATTTACAACATA
196 TTTGCAGTACGTAAACACTTCAATTTACAACATA
*
50334332 TAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
* *
50334397 TACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACATCTCAATTA
66 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
*
50334462 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAGCTAAACACTTCAA
131 ACAACATTTATACACCTCAACTACAGCGATAAAACATCTCAATTTCCAGCAGCTAAACACTTCAA
*
50334527 TTTGCAGTACGTAAACACTTCAATTTACAACATT
196 TTTGCAGTACGTAAACACTTCAATTTACAACATA
* * * *
50334561 TAAGCACTTCAATTTACATCATATAAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAG
1 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
* * *
50334625 CACTTTAACACTTCAATTTACAGTATTTAAACACTTTAATTTGCTGCACTTT
66 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT
50334677 CATACCTTCA
Statistics
Matches: 320, Mismatches: 25, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
228 64 0.20
229 256 0.80
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (229 bp):
TAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
ACAACATTTATACACCTCAACTACAGCGATAAAACATCTCAATTTCCAGCAGCTAAACACTTCAA
TTTGCAGTACGTAAACACTTCAATTTACAACATA
Found at i:50334550 original size:91 final size:91
Alignment explanation
Indices: 50334126--50334642 Score: 369
Period size: 91 Copynumber: 5.6 Consensus size: 91
50334116 TTGCAATACT
* * * * * *
50334126 TAAAAACTTCAATTTACAACATTTAAACACTTCAAATTGTAGCACTTTAACACTTCAATTTACAG
1 TAAACACTTCAATTTACAGCA-TTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAA
* * *
50334191 CATTTAAACACTTCAATTTGCAGCACT-
65 CATTTAAGCACCTCAATTTACAGCA-TA
* * * * * * * ** *
50334218 TTAACA-TCTCAATTAACAACATTTATACACCTCAA-CTACAGCGA-TAAAACA-TCTCAATT-T
1 TAAACACT-TCAATTTACAGCA-TTAAACACTTCAATTTGCAGC-ACTTTAACACT-TCAATTAA
* ** * * * *
50334278 CTAGCAGCTAAACACTTCAATTTGCAGTACT-
62 C-AACATTTAAGCACCTCAATTTACAGCA-TA
* * * * *
50334309 TAAACACTTTAATTTACAACATATAAACACTTCAATTTACAACA-TTTAAGCACTTCAATTTACA
1 TAAACACTTCAATTTACAGCAT-TAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTAACA
* * * *
50334373 ACATTTAAACACTTCAATTTGCAGTACT-
64 ACATTTAAGCACCTCAATTTACAGCA-TA
* *
50334401 TTAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCACTTTAACA-TCTCAATTAACA
1 TAAACACTTCAATTTACAGCA-TTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTAACA
50334465 ACATTTATA-CACCTCAA-TTACAGCGATA
64 ACATTTA-AGCACCTCAATTTACAGC-ATA
* * * * * *
50334493 -AAACA-TCTCAATTTCCAGCAGCTAAACACTTCAATTTGCAGTACGTAAACACTTCAATTTACA
1 TAAACACT-TCAATTTACAGCA-TTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACA
* *
50334556 ACATTTAAGCACTTCAATTTACATCATA
64 ACATTTAAGCACCTCAATTTACAGCATA
*
50334584 TAAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATT
1 TAAACACTTCAATTTACAGCATTAAACACTTCAATTTGCAGCACTTTAACACTTCAATT
50334643 TACAGTATTT
Statistics
Matches: 351, Mismatches: 52, Indels: 45
0.78 0.12 0.10
Matches are distributed among these distances:
90 5 0.01
91 179 0.51
92 157 0.45
93 10 0.03
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (91 bp):
TAAACACTTCAATTTACAGCATTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAAC
ATTTAAGCACCTCAATTTACAGCATA
Found at i:50336726 original size:40 final size:40
Alignment explanation
Indices: 50336652--50336872 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
50336642 AACCCAAGTA
* *
50336652 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
50336691 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
50336731 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
50336771 CCTTCGGGACTTAGCCTGGGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
50336811 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
50336850 CCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
50336873 CATCCGAATA
Statistics
Matches: 157, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 119 0.76
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:50336784 original size:80 final size:80
Alignment explanation
Indices: 50336652--50336872 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
50336642 AACCCAAGTA
* * *
50336652 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAG
*
50336716 TCACTAGCACAAAAG
66 TCAATAGCACAAAAG
* *
50336731 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAACGCCTTCGGGACTTAGCCTGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAG
**
50336796 TCAATAGCACAACTG
66 TCAATAGCACAAAAG
* * *
50336811 CCTTTGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATAT
50336873 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 37 0.29
80 89 0.70
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAG
TCAATAGCACAAAAG
Found at i:50345171 original size:40 final size:40
Alignment explanation
Indices: 50345097--50345317 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
50345087 AACCCAAGTA
* *
50345097 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
50345136 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
50345176 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
50345216 CCTTCGGGACTTAGCCCGGGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
50345256 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
50345295 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
50345318 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.23
40 122 0.75
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:50349298 original size:7 final size:7
Alignment explanation
Indices: 50349288--50349477 Score: 88
Period size: 7 Copynumber: 26.9 Consensus size: 7
50349278 ATCCCATATC
50349288 CCCTAAA
1 CCCTAAA
50349295 CCCTAAA
1 CCCTAAA
50349302 CCCTAAA
1 CCCTAAA
* *
50349309 TCATAAA
1 CCCTAAA
* *
50349316 ACATAAA
1 CCCTAAA
50349323 CCCTAAA
1 CCCTAAA
50349330 CCCTAAA
1 CCCTAAA
50349337 CCC-ATAA
1 CCCTA-AA
50349344 CCC-ACAA
1 CCCTA-AA
50349351 CCCTTAACA
1 CCC-TAA-A
* *
50349360 CAC-AAC
1 CCCTAAA
*
50349366 CCCTAAC
1 CCCTAAA
*
50349373 CCCTAAC
1 CCCTAAA
50349380 CCCT-AA
1 CCCTAAA
50349386 CCCATAAA
1 CCC-TAAA
*
50349394 CCTTAAA
1 CCCTAAA
*
50349401 CCC-CAA
1 CCCTAAA
50349407 CCCTTAAA
1 CCC-TAAA
* *
50349415 CCATAAT
1 CCCTAAA
*
50349422 CCATAAA
1 CCCTAAA
*
50349429 CCTTAAA
1 CCCTAAA
*
50349436 --ATAGTAA
1 CCCTA--AA
*
50349443 CTCATAAA
1 C-CCTAAA
*
50349451 CCTTAAA
1 CCCTAAA
50349458 CCCTAAA
1 CCCTAAA
*
50349465 CCATAAA
1 CCCTAAA
50349472 CCCTAA
1 CCCTAA
50349478 GCTATAATGG
Statistics
Matches: 146, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
5 2 0.01
6 12 0.08
7 113 0.77
8 12 0.08
9 4 0.03
10 3 0.02
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:50349484 original size:14 final size:14
Alignment explanation
Indices: 50349255--50349477 Score: 80
Period size: 14 Copynumber: 15.7 Consensus size: 14
50349245 CTAATTAATC
*
50349255 TAAACCCTAAACTCG
1 TAAACCCTAAAC-CA
* **
50349270 TAATCCCTATCCCA
1 TAAACCCTAAACCA
** *
50349284 TATCCCCTAAACCC
1 TAAACCCTAAACCA
*
50349298 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* * *
50349312 TAAAACATAAACCC
1 TAAACCCTAAACCA
50349326 TAAACCCTAAACCCA
1 TAAACCCTAAA-CCA
*
50349341 T-AACCC-ACAACCCT
1 TAAACCCTA-AA-CCA
* * *
50349355 TAACACAC-AACCCC
1 TAA-ACCCTAAACCA
* * *
50349369 TAACCCCTAACCCC
1 TAAACCCTAAACCA
*
50349383 T-AACCCATAAACCT
1 TAAACCC-TAAACCA
* * *
50349397 TAAACCCCAACCCT
1 TAAACCCTAAACCA
* *
50349411 TAAACCATAATCCA
1 TAAACCCTAAACCA
*
50349425 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
50349437 TAGTAACTCATAAACCT
1 TA--AAC-CCTAAACCA
50349454 TAAACCCTAAACCA
1 TAAACCCTAAACCA
50349468 TAAACCCTAA
1 TAAACCCTAA
50349478 GCTATAATGG
Statistics
Matches: 155, Mismatches: 41, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
12 3 0.02
13 7 0.05
14 112 0.72
15 27 0.17
16 4 0.03
17 2 0.01
ACGTcount: A:0.43, C:0.38, G:0.01, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:50350044 original size:38 final size:40
Alignment explanation
Indices: 50349936--50350048 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
50349926 TTTTGCGGCC
* * * *
50349936 TTTTTCAAAAAGCGCCGCTAATGGTCGACCTCTAGCGGTG
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGTG
*
50349976 TTTTTTAAAAAGCGCCGCTAATGCTTGATCTATA-CGGTG
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGTG
50350015 -TTTTTAGAAAAGCGCCGCTAAT-CTCGATCTATAG
1 TTTTTTA-AAAAGCGCCGCTAATGCTCGATCTATAG
50350049 AGCACTGCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
38 16 0.25
39 20 0.31
40 29 0.45
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGGTG
Found at i:50350100 original size:64 final size:64
Alignment explanation
Indices: 50349992--50350113 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 64
50349982 AAAAAGCGCC
* * *
50349992 GCTAATGCTTGATCTATACGGTGTTTTTAGAAAAGCGCCGCTAAT-CTCGATCTATAGAGCACT
1 GCTAATGCTCGATCTATACGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAATCTATAGAGCACT
* *
50350055 GCTAATGCTCGATCTATAGCGGCGTTTTTAGAAAATCGCCTCTAATGCTCAATCTATAG
1 GCTAATGCTCGATCTATA-CGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAATCTATAG
50350114 CGGCGTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
63 17 0.33
64 24 0.46
65 11 0.21
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (64 bp):
GCTAATGCTCGATCTATACGGCGTTTTTAGAAAAGCGCCGCTAATGCTCAATCTATAGAGCACT
Found at i:50350111 original size:40 final size:40
Alignment explanation
Indices: 50350056--50350203 Score: 208
Period size: 40 Copynumber: 3.7 Consensus size: 40
50350046 TAGAGCACTG
*
50350056 CTAATGCTCGATCTATAGCGGCGTTTTTAGAAAATCGCCT
1 CTAATGCTCGATCTATAGCGGCGTTTTTAGAAAAGCGCCT
* *
50350096 CTAATGCTCAATCTATAGCGGCGTTTTTAGAAAAGCGCCG
1 CTAATGCTCGATCTATAGCGGCGTTTTTAGAAAAGCGCCT
* *
50350136 CTAATTCTCGATCTATAGCGGCATTTTTCA-AAAAGCGCCT
1 CTAATGCTCGATCTATAGCGGCGTTTTT-AGAAAAGCGCCT
* **
50350176 ATAATGCTCGATCTATAGCTACGTTTTT
1 CTAATGCTCGATCTATAGCGGCGTTTTT
50350204 TATCCAAACG
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 94 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (40 bp):
CTAATGCTCGATCTATAGCGGCGTTTTTAGAAAAGCGCCT
Found at i:50353580 original size:2 final size:2
Alignment explanation
Indices: 50353573--50353598 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50353563 TACATATGCT
50353573 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
50353599 AAGCTTGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50353799 original size:55 final size:55
Alignment explanation
Indices: 50353732--50353843 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
50353722 AAAAACTGAT
*
50353732 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGATAACATTATACAA
1 CATGCATTACTTTATAATGGCATATTTTGATCTTCTAGTGGATAACATTATACAA
*
50353787 CATGCATTACTTTATAATGGCATATTTTGATCTTCTAGTGGGTAACATTATACAA
1 CATGCATTACTTTATAATGGCATATTTTGATCTTCTAGTGGATAACATTATACAA
50353842 CA
1 CA
50353844 GATAGGTCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (55 bp):
CATGCATTACTTTATAATGGCATATTTTGATCTTCTAGTGGATAACATTATACAA
Found at i:50355396 original size:27 final size:28
Alignment explanation
Indices: 50355365--50355461 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
50355355 ATTTAAACCC
*
50355365 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
*
50355392 TAGGGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
* *
50355420 TAGGGGAAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50355448 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
50355462 TGATCTACGC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 9 0.15
28 52 0.85
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:50355414 original size:28 final size:29
Alignment explanation
Indices: 50355378--50355461 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 29
50355368 GGGTATATTG
*
50355378 GTAATTTTGCTATTTAGGGGTAATTTCGA
1 GTAATTTTGCTCTTTAGGGGTAATTTCGA
*
50355407 -TAATTTTGCTCTTTAGGGGAAATTTC-A
1 GTAATTTTGCTCTTTAGGGGTAATTTCGA
50355434 GTAATTTTGCTCTTTAGGGGTAATTTCG
1 GTAATTTTGCTCTTTAGGGGTAATTTCG
50355462 TGATCTACGC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.02
28 49 0.98
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (29 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCGA
Found at i:50357300 original size:30 final size:29
Alignment explanation
Indices: 50357206--50357307 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
50357196 TATAGTGAAT
* * *
50357206 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
50357235 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
50357263 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
50357293 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
50357308 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:50359199 original size:27 final size:27
Alignment explanation
Indices: 50359169--50359230 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
50359159 GGGCAAAATG
50359169 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
50359196 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
50359223 GTAATTTT
1 GTAATTTT
50359231 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:50359298 original size:53 final size:53
Alignment explanation
Indices: 50359213--50359327 Score: 185
Period size: 53 Copynumber: 2.2 Consensus size: 53
50359203 TACCCTACAG
* *
50359213 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTA-TTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
50359267 GGGTATTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
50359320 GGGTATTT
1 GGGTATTT
50359328 TGGTAATTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 52 0.91
54 5 0.09
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:50359301 original size:80 final size:81
Alignment explanation
Indices: 50359184--50359335 Score: 220
Period size: 80 Copynumber: 1.9 Consensus size: 81
50359174 TTTACCCCAC
** *
50359184 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
50359248 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* *
50359265 AAGGGTATTT-AGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
50359328 TGGTAATT
65 TGGTAATT
50359336 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 2 0.03
80 51 0.80
81 11 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:50359342 original size:27 final size:27
Alignment explanation
Indices: 50359213--50359335 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
50359203 TACCCTACAG
* *
50359213 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
50359240 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
50359267 GGGTA-TTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
50359293 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
50359320 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
50359336 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.27
27 59 0.72
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:50359349 original size:27 final size:27
Alignment explanation
Indices: 50359319--50359389 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
50359309 TTATAAACCA
* *
50359319 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
50359346 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
50359373 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
50359390 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:50362633 original size:27 final size:28
Alignment explanation
Indices: 50362602--50362698 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
50362592 ATTTAAACCC
*
50362602 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
*
50362629 TAGGGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
50362657 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50362685 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
50362699 TGATCTACGC
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.14
28 54 0.86
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:50362651 original size:28 final size:29
Alignment explanation
Indices: 50362615--50362698 Score: 145
Period size: 28 Copynumber: 3.0 Consensus size: 29
50362605 GGGTATATTG
*
50362615 GTAATTTTGCTATTTAGGGGTAATTTCGA
1 GTAATTTTGCTCTTTAGGGGTAATTTCGA
50362644 -TAATTTTGCTCTTTAGGGGTAATTTC-A
1 GTAATTTTGCTCTTTAGGGGTAATTTCGA
50362671 GTAATTTTGCTCTTTAGGGGTAATTTCG
1 GTAATTTTGCTCTTTAGGGGTAATTTCG
50362699 TGATCTACGC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
27 1 0.02
28 51 0.98
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (29 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCGA
Found at i:50362987 original size:27 final size:27
Alignment explanation
Indices: 50362957--50363018 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
50362947 GGGCAAAATG
50362957 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
50362984 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
50363011 GTAATTTT
1 GTAATTTT
50363019 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:50363032 original size:54 final size:54
Alignment explanation
Indices: 50362974--50363124 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
50362964 TACCCCACAA
** * * *
50362974 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
50363028 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
50363082 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
50363125 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:50363090 original size:81 final size:81
Alignment explanation
Indices: 50362972--50363124 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
50362962 TTTACCCCAC
** *
50362972 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
50363036 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
50363053 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
50363117 TGGTAATT
65 TGGTAATT
50363125 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:50363131 original size:27 final size:27
Alignment explanation
Indices: 50363001--50363124 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
50362991 TACCCTACAG
* *
50363001 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
50363028 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
50363055 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
50363082 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
50363109 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
50363125 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:50363140 original size:54 final size:54
Alignment explanation
Indices: 50363001--50363124 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
50362991 TACCCTACAG
* *
50363001 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
50363055 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
50363109 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
50363125 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:50368869 original size:7 final size:6
Alignment explanation
Indices: 50368833--50368868 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
50368823 TTAGAACATG
*
50368833 AAAAAT GAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
50368869 AGGGAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:50371186 original size:13 final size:13
Alignment explanation
Indices: 50371168--50371193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50371158 TTCAGGTTCC
50371168 CACACGGTCGTGT
1 CACACGGTCGTGT
50371181 CACACGGTCGTGT
1 CACACGGTCGTGT
50371194 TGATTTAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CACACGGTCGTGT
Found at i:50383819 original size:25 final size:25
Alignment explanation
Indices: 50383791--50383838 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50383781 TTATACCATG
* * *
50383791 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
50383816 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
50383839 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50383906 original size:20 final size:20
Alignment explanation
Indices: 50383881--50383921 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50383871 ATAAATATGG
50383881 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
50383901 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
50383921 T
1 T
50383922 GTAATCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:50383998 original size:24 final size:24
Alignment explanation
Indices: 50383971--50384113 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
50383961 GAGGAAGTGA
50383971 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
50383995 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
50384019 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
50384042 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
50384066 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
50384090 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50384114 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:50384064 original size:47 final size:47
Alignment explanation
Indices: 50383971--50384113 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
50383961 GAGGAAGTGA
50383971 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
50384019 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
50384066 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
50384114 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:50384087 original size:71 final size:72
Alignment explanation
Indices: 50383971--50384114 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
50383961 GAGGAAGTGA
*
50383971 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
50384034 CCAGTTAT
65 CCAGTTAT
** * *
50384042 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
50384107 CAGTTAT
66 CAGTTAT
50384114 A
1 A
50384115 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:50384365 original size:30 final size:31
Alignment explanation
Indices: 50384305--50384367 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50384295 CGTTTACAGT
50384305 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
50384336 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
50384366 AA
1 AA
50384368 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:50391852 original size:25 final size:25
Alignment explanation
Indices: 50391822--50391869 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50391812 CTTATACATG
* * *
50391822 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
50391847 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
50391870 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50391937 original size:20 final size:20
Alignment explanation
Indices: 50391912--50391952 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50391902 ATAAATATGG
50391912 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
50391932 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
50391952 T
1 T
50391953 GTAATCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:50392029 original size:24 final size:24
Alignment explanation
Indices: 50392002--50392120 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
50391992 GAGGAAGTGA
*
50392002 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
50392026 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
50392049 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
50392073 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50392097 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50392121 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50392071 original size:47 final size:48
Alignment explanation
Indices: 50392002--50392120 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
50391992 GAGGAAGTGA
50392002 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
50392049 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
50392097 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50392121 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:50392372 original size:30 final size:31
Alignment explanation
Indices: 50392312--50392374 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50392302 CGTTTACAGT
50392312 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
50392343 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
50392373 AA
1 AA
50392375 TGAAAAGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:50403194 original size:30 final size:30
Alignment explanation
Indices: 50403138--50403194 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
50403128 ATCCCGAGCC
*
50403138 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
50403168 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
50403195 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:50403665 original size:46 final size:46
Alignment explanation
Indices: 50403615--50403790 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
50403605 TGGTTGAGCA
50403615 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50403661 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50403706 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50403754 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50403791 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50403771 original size:93 final size:93
Alignment explanation
Indices: 50403612--50403783 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50403602 GGATGGTTGA
* *
50403612 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50403677 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50403705 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50403770 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
50403784 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50407974 original size:93 final size:93
Alignment explanation
Indices: 50407862--50408034 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
50407852 CGCCCATAAG
* *
50407862 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
50407927 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
50407955 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
50408020 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
50408035 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:50408030 original size:46 final size:46
Alignment explanation
Indices: 50407855--50408030 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
50407845 TGTAACCCGC
* *
50407855 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
50407901 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
50407951 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
50407994 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
50408031 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:50408049 original size:46 final size:45
Alignment explanation
Indices: 50407906--50408049 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
50407896 CGCATCCATA
* * * *
50407906 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
50407954 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
50407999 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
50408045 AGTGA
1 AGTGA
50408050 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.49
47 29 0.38
48 5 0.07
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:50418673 original size:28 final size:27
Alignment explanation
Indices: 50418610--50418679 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
50418600 ATAGTGAGTC
50418610 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
50418637 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50418665 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50418680 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50426459 original size:28 final size:27
Alignment explanation
Indices: 50426396--50426465 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
50426386 ATAGTGAGTC
50426396 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
50426423 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50426451 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50426466 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50428321 original size:28 final size:28
Alignment explanation
Indices: 50428275--50428343 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
50428265 TTTAAAACCC
*
50428275 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50428302 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50428330 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
50428344 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:50431940 original size:40 final size:39
Alignment explanation
Indices: 50431845--50432027 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 39
50431835 TGCTGGAAAT
* * * * **
50431845 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
50431884 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
50431924 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
50431962 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
50432003 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
50432028 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
38 3 0.03
39 52 0.45
40 58 0.50
41 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:50431968 original size:79 final size:80
Alignment explanation
Indices: 50431850--50432032 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 80
50431840 GAAATTATAA
* * * *
50431850 CCGGGTTAAGACCCGAAGGCA-ATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
*
50431914 TGCGAGTCATTC-TAT
66 TGCGAGTCA-CCATAT
* * * * *
50431929 CCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
* *
50431992 GTGCGGGTTACCATAT
65 GTGCGAGTCACCATAT
* * *
50432008 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGACCCGAAGGCATTTG
50432033 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 2 0.02
79 79 0.92
80 5 0.06
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCACCATAT
Found at i:50440053 original size:40 final size:40
Alignment explanation
Indices: 50439947--50440130 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
50439937 TGCTGGAAAT
* * * * * **
50439947 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
50439987 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
50440027 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
50440065 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
50440106 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
50440131 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:50444205 original size:30 final size:28
Alignment explanation
Indices: 50444169--50444269 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
50444159 GACAAGATTG
* *
50444169 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
*
50444199 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
50444227 GCACTAAGTGTGCGAGCTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
50444256 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50444270 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 26 0.41
29 19 0.30
30 18 0.29
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:50452262 original size:30 final size:28
Alignment explanation
Indices: 50452226--50452326 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
50452216 GACAAGATTG
* *
50452226 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
*
50452256 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
50452284 GCACTAAGTGTGCGAGCTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
50452313 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50452327 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 26 0.41
29 19 0.30
30 18 0.29
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:50455318 original size:40 final size:40
Alignment explanation
Indices: 50455273--50455401 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
50455263 CGGAATATAA
50455273 CCGGATATAGCCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCCATGTGCACAAATGCCTTCGGGTCTTAGC
* *
50455313 CCGG--ATAG-AATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCCATG--T-GCACAAATGCCTTCGGGTCTTAGC
* * *
50455353 CCGGATATAGCCACT-AGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCCA-TGTGCACAAATGCCTTCGGGTCTTAGC
50455393 CCGGATATA
1 CCGGATATA
50455402 ATTTCCAGCA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
37 3 0.04
38 4 0.05
39 1 0.01
40 61 0.81
42 4 0.05
43 1 0.01
44 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGCCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:50455417 original size:40 final size:40
Alignment explanation
Indices: 50455289--50455440 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
50455279 ATAGCCATGT
* * *
50455289 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
50455329 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
50455369 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
50455409 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
50455441 CATTCAATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 90 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:50455423 original size:80 final size:80
Alignment explanation
Indices: 50455273--50455440 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
50455263 CGGAATATAA
* *
50455273 CCGGATATAGCCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAGCCATGAGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
*
50455338 CCTTCGGGTCTTAGC
66 CCTTCGGGGCTTAGC
* * ** *
50455353 CCGGATATAGCCACT-AGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAGCCA-TGAGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
50455415 TTGTCTTCGGGGCTTAGC
64 -TGCCTTCGGGGCTTAGC
50455433 CCGGATAT
1 CCGGATAT
50455441 CATTCAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
79 3 0.04
80 72 0.95
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CCGGATATAGCCATGAGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGGCTTAGC
Found at i:50463576 original size:30 final size:28
Alignment explanation
Indices: 50463540--50463640 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
50463530 TGACAGATTG
* *
50463540 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
*
50463570 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * * *
50463598 GCACTAAGTGTGTGAGGTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
50463627 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50463641 GATTCACTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 25 0.41
29 18 0.30
30 18 0.30
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:50470390 original size:28 final size:28
Alignment explanation
Indices: 50470344--50470412 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
50470334 TTTAAAACCC
*
50470344 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50470371 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50470399 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
50470413 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:50480050 original size:2 final size:2
Alignment explanation
Indices: 50480043--50480067 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50480033 TCATGGATTG
50480043 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
50480068 TAAAGATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50493352 original size:40 final size:40
Alignment explanation
Indices: 50493259--50493516 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
50493249 AAGCCAAGTA
* * *
50493259 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
50493297 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50493337 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
50493377 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
50493417 CCTCCGGGACTTAGCCCGGATGTAATAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50493457 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
50493498 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50493517 TTATCATCCA
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 140 0.71
41 24 0.12
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50501464 original size:40 final size:40
Alignment explanation
Indices: 50501379--50501636 Score: 310
Period size: 40 Copynumber: 6.5 Consensus size: 40
50501369 AAGCCAAGTA
* * *
50501379 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
50501417 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50501457 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50501497 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
50501537 CCTTCGGGACTTAGCCCGGATGTAATAACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
50501577 TCTTCTGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
50501618 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50501637 TTATCATCCA
Statistics
Matches: 188, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
38 12 0.06
39 16 0.09
40 136 0.72
41 22 0.12
42 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50507216 original size:8 final size:8
Alignment explanation
Indices: 50507205--50507248 Score: 88
Period size: 8 Copynumber: 5.5 Consensus size: 8
50507195 CCAATTACAC
50507205 ATACATAT
1 ATACATAT
50507213 ATACATAT
1 ATACATAT
50507221 ATACATAT
1 ATACATAT
50507229 ATACATAT
1 ATACATAT
50507237 ATACATAT
1 ATACATAT
50507245 ATAC
1 ATAC
50507249 CACCCTTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (8 bp):
ATACATAT
Found at i:50511681 original size:55 final size:54
Alignment explanation
Indices: 50511541--50511748 Score: 224
Period size: 55 Copynumber: 3.8 Consensus size: 54
50511531 ATCCTTTTGA
* * * *
50511541 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGTTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * ** * *
50511594 AACTCAACAATGCCATGCCTTGGTATGGTCTTACATGGGA-CCTTTACCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * * *
50511648 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
*
50511702 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
50511749 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 41 0.33
54 8 0.06
55 73 0.58
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:50511685 original size:108 final size:110
Alignment explanation
Indices: 50511541--50511741 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
50511531 ATCCTTTTGA
* *
50511541 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGTTATCCTTGCCTTATG-AA-CTCAACAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCAACAA
*
50511604 -TGCCATGCCTTGGTATGGTCTTACATGGGACCTTTACCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
* * * *
50511649 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCAACAAT
50511714 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
50511742 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 6 0.07
110 27 0.33
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCAACAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
Found at i:50512239 original size:22 final size:22
Alignment explanation
Indices: 50512214--50512258 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50512204 TTTCCTTCTA
50512214 TGGAAACATCAAATTCTCACTC
1 TGGAAACATCAAATTCTCACTC
50512236 TGGAAACATCAAATTCTCACTC
1 TGGAAACATCAAATTCTCACTC
50512258 T
1 T
50512259 AACATGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.29
Consensus pattern (22 bp):
TGGAAACATCAAATTCTCACTC
Found at i:50518919 original size:24 final size:24
Alignment explanation
Indices: 50518887--50518933 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
50518877 CTGTCAGGAG
**
50518887 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
50518911 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
50518934 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:50520253 original size:27 final size:27
Alignment explanation
Indices: 50520213--50520324 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
50520203 AGGAAGCGTC
* *
50520213 CTGGTGGCTATGCCACAATTATCTGCT
1 CTGGTGGCTCTGCCACAATTATCTGTT
50520240 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGTT
* *
50520267 CTGGTGGCTCTGTCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
* * *
50520295 TTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
50520321 CTGG
1 CTGG
50520325 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.67
28 18 0.24
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:50521366 original size:17 final size:18
Alignment explanation
Indices: 50521346--50521383 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
50521336 TTTAAACTAG
50521346 AGAT-TTTTTTACTATCT
1 AGATATTTTTTACTATCT
50521363 AGATATTTTTTACTATCT
1 AGATATTTTTTACTATCT
50521381 AGA
1 AGA
50521384 CGAAAGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (18 bp):
AGATATTTTTTACTATCT
Found at i:50533041 original size:48 final size:48
Alignment explanation
Indices: 50532980--50533206 Score: 230
Period size: 48 Copynumber: 4.7 Consensus size: 48
50532970 CTACATGTGA
* * * *
50532980 GATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATTGAGATGA
1 GATCTCATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGT
* * * *
50533028 GATCTCATATAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGT
1 GATCTCATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGT
* *
50533076 G-TGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACG-TGT
1 GAT-CTCA-TGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GATGT
* * * *
50533124 GAGC-CAGTGTAAGACAATGTCTGGGACATGGCATCGACATCT-ATATGT
1 GATCTCA-TGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGATGT
* *
50533172 GATTTCGTGTAAGACCATGTCTGGGACATGGCATC
1 GATCTCATGTAAGACCATGTCTGGGACATGGCATC
50533207 ATTATGAGAC
Statistics
Matches: 148, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
47 2 0.01
48 145 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
GATCTCATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGT
Found at i:50533151 original size:96 final size:96
Alignment explanation
Indices: 50532987--50533206 Score: 261
Period size: 96 Copynumber: 2.3 Consensus size: 96
50532977 TGAGATCCCA
* * * * *
50532987 TGTAAGACCATGTCTGGGACATAGCATTGGCATTGAGATGAGATCTCATATAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGAGCTCATATAAGACAATGTCTGG
*
50533052 GACATGGCATC-AGCGT-TGATATGTG-TGCTAG
66 GACATGGCATCGA-CATCT-ATATGTGAT-CTAG
* * *
50533083 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACG-TGTGAGC-CAGTGTAAGACAATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GATGAGAGCTCA-TATAAGACAATGTCT
* *
50533146 GGGACATGGCATCGACATCTATATGTGATTTCG
64 GGGACATGGCATCGACATCTATATGTGATCTAG
50533179 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
50533207 ATTATGAGAC
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
95 2 0.02
96 102 0.94
97 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGAGCTCATATAAGACAATGTCTGG
GACATGGCATCGACATCTATATGTGATCTAG
Found at i:50537408 original size:31 final size:29
Alignment explanation
Indices: 50537353--50537410 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
50537343 TATGTGCATT
*
50537353 ATATATATGCTGAATTAAGTTGTAAAAGA
1 ATATAAATGCTGAATTAAGTTGTAAAAGA
50537382 ATATAAATG-TGAAGTTGAAGTATGTAAAA
1 ATATAAATGCTGAA-TT-AAGT-TGTAAAA
50537411 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (29 bp):
ATATAAATGCTGAATTAAGTTGTAAAAGA
Found at i:50540280 original size:40 final size:40
Alignment explanation
Indices: 50540205--50540412 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
50540195 TCTTCAGAAT
* ** *
50540205 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
50540244 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
50540284 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
50540324 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
50540364 TTAGCCCGGATATAATC-ACTAGCATAAGTGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
50540404 TTAGCCCGG
1 TTAGCCCGG
50540413 GTATCATTCA
Statistics
Matches: 153, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 149 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:50547224 original size:40 final size:40
Alignment explanation
Indices: 50547149--50547356 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
50547139 TCTTCAGAAT
* ** *
50547149 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
50547188 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
50547228 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
50547268 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
50547308 TTAGCCCGGATATAATC-ACTAGCATAAGTGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
50547348 TTAGCCCGG
1 TTAGCCCGG
50547357 GTATCATTCA
Statistics
Matches: 153, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 149 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:50554630 original size:49 final size:49
Alignment explanation
Indices: 50554567--50554802 Score: 289
Period size: 49 Copynumber: 4.8 Consensus size: 49
50554557 GGCATCCGAG
* * *
50554567 ATGTGTACCAGTGTAAGACCATGTCTAGACATGGCATCGGCACTGATAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGACATGGCATCGGCACTGATAT
* * * * *
50554616 ATTTGTGCCTGTGTAAGATCATGTCTGGGCATGGCATCAGCGCTGATAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGACATGGCATCGGCACTGATAT
* *
50554665 AAGTGTGCCTGTGAAAGACCATGTCTGGGACATGGCATCGGCACTGATAT
1 ATGTGTGCCTGTGTAAGACCATGTCT-GGACATGGCATCGGCACTGATAT
* *
50554715 ATGTATGCTTGTGTAAGACCATGTCTGGCACATGGCATC-G-A-TGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGG-ACATGGCATCGGCACTGAT-AT
* *
50554763 ATATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGTGTGCCTGTGTAAGACCATGTCT-GGACATGGCATCG
50554803 ATGATGATAT
Statistics
Matches: 159, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.03
48 35 0.22
49 68 0.43
50 52 0.33
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
ATGTGTGCCTGTGTAAGACCATGTCTGGACATGGCATCGGCACTGATAT
Found at i:50554733 original size:50 final size:49
Alignment explanation
Indices: 50554531--50554844 Score: 286
Period size: 49 Copynumber: 6.4 Consensus size: 49
50554521 AGATTCCATA
* * * * * * * *
50554531 TAAGACCATGTATGGGACATGACATTGGCATCCGAGATGTG-TACCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-CTGATATATGTTGCCTGTG
* *
50554580 TAAGACCATGTCT-AGACATGGCATCGGCACTGATATATTTGTGCCTGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGT-TGCCTGTG
* * * *
50554629 TAAGATCATGTCTGGG-CATGGCATCAGCGCTGATATAAGTGTGCCTGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGT-TGCCTGTG
* *
50554678 AAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGTATGCTTGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGT-TGCCTGTG
* *
50554728 TAAGACCATGTCTGGCACATGGCATCGATG-A-TGATATATG-TGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCG--GCACTGATATATGTTGCCTGTG
* ** *
50554776 TAAGACCATGTCTGGGACATGGCATC-G-A-TGATGATATGTGGATTAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTGAT-ATATGTTGCCT-GTG
*
50554824 TAAGACCACGTCTGGGACATG
1 TAAGACCATGTCTGGGACATG
50554845 CCATTGGTAC
Statistics
Matches: 222, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
45 6 0.03
46 5 0.02
47 7 0.03
48 66 0.30
49 73 0.33
50 63 0.28
51 1 0.00
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGTTGCCTGTG
Found at i:50554796 original size:48 final size:48
Alignment explanation
Indices: 50554574--50554844 Score: 250
Period size: 48 Copynumber: 5.6 Consensus size: 48
50554564 GAGATGTGTA
* *
50554574 CCAGTGTAAGACCATGTCT-AGACATGGCATCGGCACTGAT-ATATTTGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-G-A-TGATGATATATGTG
* * * *
50554623 CCTGTGTAAGATCATGTCTGGG-CATGGCATC-AGCGCTGATATAAGTGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGA-TGATGATAT-A-TGTG
* *
50554672 CCTGTGAAAGACCATGTCTGGGACATGGCATCG--GCACTGATATATGTATG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGATG-A-TGATATATG--TG
** *
50554722 CTTGTGTAAGACCATGTCTGGCACATGGCATCGATGATGATATATGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTG
*
50554770 CCAGTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATGTG-G
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTG
** * *
50554817 ATTAATGTAAGACCACGTCTGGGACATG
1 -CCAGTGTAAGACCATGTCTGGGACATG
50554845 CCATTGGTAC
Statistics
Matches: 188, Mismatches: 21, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
46 3 0.02
47 5 0.03
48 70 0.37
49 51 0.27
50 57 0.30
51 1 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTG
Found at i:50559088 original size:13 final size:14
Alignment explanation
Indices: 50559066--50559098 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50559056 CCTGTTAAAA
*
50559066 CGAACGCCCGT-GT
1 CGAACCCCCGTGGT
50559079 CGAACCCCCGTGGT
1 CGAACCCCCGTGGT
50559093 CGAACC
1 CGAACC
50559099 TATTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.18, C:0.42, G:0.27, T:0.12
Consensus pattern (14 bp):
CGAACCCCCGTGGT
Found at i:50563610 original size:34 final size:31
Alignment explanation
Indices: 50563566--50563641 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 31
50563556 GAGCCCATTG
*
50563566 GGCCTAAGCCCTATTCAG-ATAACAGTACACAGTA
1 GGCCTTAGCCCTATTCAGAAT-ACAGTA-ACA--A
* *
50563600 GGCCTTAGCCCTTTTCAGAATACAGTAGCAA
1 GGCCTTAGCCCTATTCAGAATACAGTAACAA
50563631 GGCCTTAGCCC
1 GGCCTTAGCCC
50563642 CTTTTTACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 12 0.32
33 2 0.05
34 22 0.58
35 2 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (31 bp):
GGCCTTAGCCCTATTCAGAATACAGTAACAA
Found at i:50564039 original size:28 final size:28
Alignment explanation
Indices: 50563993--50564061 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
50563983 TTTAAAACCC
*
50563993 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50564020 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50564048 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
50564062 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:50566951 original size:47 final size:47
Alignment explanation
Indices: 50566898--50567224 Score: 290
Period size: 47 Copynumber: 7.3 Consensus size: 47
50566888 ATAAGATATG
* * *
50566898 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATATGTA
*
50566945 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATATGTA
* * *
50566992 TATATGTGAT-AA--TG--TGACGAATGTGA--ATATGT--ATA--TA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGA-ATGTGAATATGTA
* * * * * *
50567029 TGTG----ATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATATGTA
* * * *
50567072 TATATGTGATAAGGCCGAATGGCCAATGTGACAAATGTGAATGTCTA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATATGTA
** * *
50567119 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATATGTA
* * * *
50567166 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAA-AGTGTA
1 TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATA-TGTA
*
50567213 TAAATGTGATAA
1 TATATGTGATAA
50567225 GTCCCGAAGG
Statistics
Matches: 232, Mismatches: 31, Indels: 34
0.78 0.10 0.11
Matches are distributed among these distances:
33 2 0.01
34 1 0.00
37 4 0.02
38 10 0.04
39 7 0.03
40 2 0.01
41 6 0.03
42 10 0.04
43 4 0.02
44 1 0.00
46 1 0.00
47 184 0.79
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (47 bp):
TATATGTGATAAAGCCGAATGGCCAATGTGACGAATGTGAATATGTA
Found at i:50567006 original size:8 final size:9
Alignment explanation
Indices: 50566979--50567035 Score: 54
Period size: 8 Copynumber: 6.9 Consensus size: 9
50566969 AATGTGACGA
50566979 ATGTGA-AT
1 ATGTGATAT
50566987 ATGT-ATAT
1 ATGTGATAT
50566995 ATGTGATA-
1 ATGTGATAT
*
50567003 ATGTGACGA-
1 ATGTGA-TAT
50567012 ATGTGA-AT
1 ATGTGATAT
50567020 ATGT-ATAT
1 ATGTGATAT
50567028 ATGTGATA
1 ATGTGATA
50567036 AGGCCAAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
7 3 0.07
8 26 0.62
9 13 0.31
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.39
Consensus pattern (9 bp):
ATGTGATAT
Found at i:50567007 original size:33 final size:33
Alignment explanation
Indices: 50566969--50567036 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
50566959 CCGAATGGCC
50566969 AATGTGACGAATGTGAATATGTATATATGTGAT
1 AATGTGACGAATGTGAATATGTATATATGTGAT
50567002 AATGTGACGAATGTGAATATGTATATATGTGAT
1 AATGTGACGAATGTGAATATGTATATATGTGAT
50567035 AA
1 AA
50567037 GGCCAAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (33 bp):
AATGTGACGAATGTGAATATGTATATATGTGAT
Found at i:50567032 original size:80 final size:80
Alignment explanation
Indices: 50566922--50567083 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 80
50566912 CCGAATGGCC
* * *
50566922 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAAT
1 AATGTGACGAATGTGAATATGTATATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAAT
50566987 ATGTATATATGTGAT
66 ATGTATATATGTGAT
*
50567002 AATGTGACGAATGTGAATATGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAT
1 AATGTGACGAATGTGAATATGTATATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAAT
*
50567067 GTGTATATATGTGAT
66 ATGTATATATGTGAT
50567082 AA
1 AA
50567084 GGCCGAATGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (80 bp):
AATGTGACGAATGTGAATATGTATATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAAT
ATGTATATATGTGAT
Found at i:50567078 original size:25 final size:24
Alignment explanation
Indices: 50567050--50567177 Score: 70
Period size: 25 Copynumber: 5.4 Consensus size: 24
50567040 CAAATGGCCA
50567050 ATGTGATGAATGTGAATGTGTATAT
1 ATGTGAT-AATGTGAATGTGTATAT
* * **
50567075 ATGTGATAAGGCCGAATG-G-CCA-
1 ATGTGATAATG-TGAATGTGTATAT
* *
50567097 ATGTGACAAATGTGAATGTCTATAT
1 ATGTGA-TAATGTGAATGTGTATAT
** * **
50567122 ATGTGATACGGCCGAATG-G-CCA-
1 ATGTGATAATG-TGAATGTGTATAT
50567144 ATGTGATGAATGTGAATGTGTATAT
1 ATGTGAT-AATGTGAATGTGTATAT
50567169 ATGTGATAA
1 ATGTGATAA
50567178 GGCCAAATGG
Statistics
Matches: 71, Mismatches: 22, Indels: 21
0.62 0.19 0.18
Matches are distributed among these distances:
22 23 0.32
23 8 0.11
24 10 0.14
25 30 0.42
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (24 bp):
ATGTGATAATGTGAATGTGTATAT
Found at i:50567225 original size:47 final size:47
Alignment explanation
Indices: 50567002--50567225 Score: 349
Period size: 47 Copynumber: 4.8 Consensus size: 47
50566992 TATATGTGAT
* *
50567002 AATGTGACGAATGTGAATATGTATATATGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCC
*
50567049 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCC
** * * *
50567096 AATGTGACAAATGTGAATGTCTATATATGTGATACGGCCGAATGGCC
1 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCC
50567143 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCC
* * *
50567190 AATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGATGAATGTGAATGTGTATATATGTGATAAG
50567226 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
AATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCC
Found at i:50579364 original size:40 final size:40
Alignment explanation
Indices: 50579309--50579415 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
50579299 TATTCGGATG
50579309 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
50579349 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* **
50579389 ATAACCGGGTTAAG-TCCCGAAGGCATT
1 ATATCCGGACTAAGAT-CCGAAGGCATT
50579416 CGTACGGGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.02
40 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:50579427 original size:40 final size:40
Alignment explanation
Indices: 50579325--50579544 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
50579315 GGACTAAGAT
* ** * * **
50579325 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAG-TC
**
50579365 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50579405 CCGAAGGCATTCGTACGGGTTATTATAACCGGGTTAAGT-
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50579444 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
* *
50579484 CCGAAGGTATTCGTGTGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50579524 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
50579545 GTTACATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 41 0.25
40 119 0.73
41 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:50579470 original size:79 final size:80
Alignment explanation
Indices: 50579365--50579544 Score: 274
Period size: 79 Copynumber: 2.3 Consensus size: 80
50579355 GGACTAAGAT
**
50579365 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTATT
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTATT
50579429 ATAACCGGGTTAAGT-
65 ATAACCGGGTTAAGTC
* * **
50579444 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGTATTCGTGTGGGTTATTA
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTATTA
50579509 TAACCGGGTTAAGTC
66 TAACCGGGTTAAGTC
*
50579524 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
50579545 GTTACATCCG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 3 0.03
79 69 0.76
80 19 0.21
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACGGGTTATTA
TAACCGGGTTAAGTC
Found at i:50586857 original size:40 final size:40
Alignment explanation
Indices: 50586802--50586908 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
50586792 TATTCGGATG
50586802 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
50586842 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* **
50586882 ATAACCGGGTTAAG-TCCCGAAGGCATT
1 ATATCCGGACTAAGAT-CCGAAGGCATT
50586909 CATGCGGGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.02
40 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:50586920 original size:40 final size:40
Alignment explanation
Indices: 50586818--50587078 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
50586808 GGACTAAGAT
* ** * * **
50586818 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAG-TC
**
50586858 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50586898 CCGAAGGCATTCATGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50586938 CTGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
* * **
50586978 CCGAAGGTATTCGCGAAGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50587018 CCGAAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
50587058 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
50587079 GTTACATCCG
Statistics
Matches: 199, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 4 0.02
40 192 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:50588580 original size:17 final size:18
Alignment explanation
Indices: 50588558--50588592 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50588548 GACATGATAC
*
50588558 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
50588575 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
50588593 CAGGGAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:50588890 original size:23 final size:22
Alignment explanation
Indices: 50588847--50588904 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
50588837 AAAAGGTATC
* *
50588847 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50588868 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
50588891 TGCATATCATATCT
1 TACAAATCATATCT
50588905 AAGATTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50588907 original size:19 final size:19
Alignment explanation
Indices: 50588883--50588973 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
50588873 AATCATATCT
50588883 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50588902 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
50588920 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
50588937 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
50588956 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
50588974 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50589130 original size:21 final size:20
Alignment explanation
Indices: 50589092--50589132 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
50589082 TTGGACTTCA
**
50589092 TTTTTTTTTTGGGTTTATTT
1 TTTTTTTTTTGGACTTATTT
50589112 TTTTTATTTTTGGACTTATTT
1 TTTTT-TTTTTGGACTTATTT
50589133 CTGGGCCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTT
Found at i:50590465 original size:40 final size:40
Alignment explanation
Indices: 50590393--50590469 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
50590383 TTAGTGCCAC
*
50590393 ATATAGCCGAAGCTATTCCAATTCGCACACTAAGTGCTTT
1 ATATAGCCGAAGCTATTCCAATACGCACACTAAGTGCTTT
* *
50590433 ATATAGCCGAAGCTATCTCGAA-ACGCATACTAAGTGC
1 ATATAGCCGAAGCTAT-TCCAATACGCACACTAAGTGC
50590470 CAAACATAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
ATATAGCCGAAGCTATTCCAATACGCACACTAAGTGCTTT
Found at i:50594405 original size:48 final size:49
Alignment explanation
Indices: 50594343--50594471 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 49
50594333 GCGAGTTATG
* * *
50594343 CCTTGATTTAGCTTCGGGCCATGGTATAGGCACTTCGGAGG-TAAATTT
1 CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGGATAAATTA
* *
50594391 CCTTGATTTGGCTTC-GGCCATGGT-TAGGTAC-TCTGAGGATAAGTTA
1 CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGGATAAATTA
* *
50594437 CCTTGATTTGCCTACGGGCCATGGTATAGGTACTT
1 CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTT
50594472 ATCTATTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
45 6 0.09
46 24 0.34
47 18 0.26
48 21 0.30
49 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (49 bp):
CCTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGGATAAATTA
Found at i:50595900 original size:38 final size:38
Alignment explanation
Indices: 50595810--50595996 Score: 189
Period size: 38 Copynumber: 4.8 Consensus size: 38
50595800 TCCAGTCACT
* * * *
50595810 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCC
* * * * *
50595850 AGCACTAGGCTTGCGGGATTTAACTCGGACATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
* *
50595888 AGCACGAAGCTTGCGGAATTTAACCCGGATAT-ATTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATT-CC
50595926 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
* *
50595964 AGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
50595997 CACATCAAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
37 4 0.03
38 87 0.68
39 13 0.10
40 24 0.19
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
Found at i:50603350 original size:38 final size:37
Alignment explanation
Indices: 50603260--50603445 Score: 194
Period size: 38 Copynumber: 4.8 Consensus size: 37
50603250 TCCAGTCACT
* * *
50603260 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCA-TAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCC
* *
50603300 AGCACTAGGCCTGCGGGATTTAACCCGGACATAATTCC
1 AGCA-TAAGCCTGCGGGATTTAACCCGGATATAATTCC
**
50603338 AGCATGAAGCCTGCGAAATTTAACCCGGATAT-ATTACC
1 AGCAT-AAGCCTGCGGGATTTAACCCGGATATAATT-CC
*
50603376 AGCATGAAGCCTACGGGATTTAACCCGGATATAATTCC
1 AGCAT-AAGCCTGCGGGATTTAACCCGGATATAATTCC
* *
50603414 AGCATATAGCCTGCGGGTCTTTAAGCCGGATA
1 AGCATA-AGCCTGCGGG-ATTTAACCCGGATA
50603446 CACATCAAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
37 5 0.04
38 84 0.67
39 20 0.16
40 17 0.13
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (37 bp):
AGCATAAGCCTGCGGGATTTAACCCGGATATAATTCC
Found at i:50609703 original size:40 final size:40
Alignment explanation
Indices: 50609610--50609746 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
50609600 AAGCCAAGTA
* * *
50609610 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGC-TCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACCAATG
*
50609648 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
*
50609688 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
50609728 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50609747 TTATCATCCA
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 12 0.13
39 16 0.18
40 62 0.69
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
Done.