Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 675 of 770
Found at i:212547798 original size:15 final size:15
Alignment explanation
Indices: 212547750--212547829 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
212547740 CAAAGATAAC
*
212547750 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
212547764 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
212547779 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
212547794 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
212547809 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
212547824 AAGAAA
1 AAGAAA
212547830 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:212547838 original size:15 final size:15
Alignment explanation
Indices: 212547761--212547838 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
212547751 AGAAAACCGA
212547761 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
212547776 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
212547790 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
212547805 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
212547821 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
212547836 ATA
1 ATA
212547839 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:212550903 original size:93 final size:93
Alignment explanation
Indices: 212550791--212550962 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
212550781 GCCCATAAGT
* *
212550791 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
212550856 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
212550884 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
212550949 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
212550963 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:212550958 original size:46 final size:46
Alignment explanation
Indices: 212550783--212550958 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
212550773 TGTAACCCGC
* * *
212550783 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
212550829 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
212550879 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
212550922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
212550959 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:212553999 original size:91 final size:91
Alignment explanation
Indices: 212553937--212554131 Score: 248
Period size: 91 Copynumber: 2.1 Consensus size: 91
212553927 GTATTAGTAG
* * * * *
212553937 CTTTTATATGCACTAATGGATGGTTCATCCATCAATATTTTATTCTG-CAGTTTACCTACTCGAC
1 CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTC-GCCAGTTTACCTACTCGAC
*
212554001 CAATGGTTCATCCACAATGTTCAACAA
65 CAATGGTTCATCCACAACGTTCAACAA
**
212554028 CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTCGCCAGTTTACCTACTTAACC
1 CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTCGCCAGTTTACCTACTCGACC
* * * *
212554093 AATGGTTCATCTACAAAGTATTAGCAA
66 AATGGTTCATCCACAACGT-TCAACAA
*
212554120 CTTTTATCTGCA
1 CTTTTATATGCA
212554132 TAGACAGTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
90 1 0.01
91 73 0.81
92 16 0.18
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (91 bp):
CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTCGCCAGTTTACCTACTCGACC
AATGGTTCATCCACAACGTTCAACAA
Found at i:212556360 original size:10 final size:10
Alignment explanation
Indices: 212556345--212556369 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
212556335 ATTGATGAAT
212556345 AAAATATAAA
1 AAAATATAAA
212556355 AAAATATAAA
1 AAAATATAAA
212556365 AAAAT
1 AAAAT
212556370 GCTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATATAAA
Found at i:212556963 original size:29 final size:27
Alignment explanation
Indices: 212556889--212556964 Score: 64
Period size: 31 Copynumber: 2.6 Consensus size: 27
212556879 TTATTTATAG
* *
212556889 TAAAATTATATTTTAACTCCTTAAAATA
1 TAAAAATATAATTTAA-TCCTTAAAATA
*
212556917 TAAAAA-AAATATGGTTAATGCCTTAAAAATA
1 TAAAAATATA-AT--TTAAT-CCTT-AAAATA
212556948 TAAAAATATAATTTAAT
1 TAAAAATATAATTTAAT
212556965 ACATAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
27 2 0.05
28 6 0.16
29 6 0.16
30 8 0.21
31 14 0.37
32 2 0.05
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.37
Consensus pattern (27 bp):
TAAAAATATAATTTAATCCTTAAAATA
Found at i:212562737 original size:29 final size:29
Alignment explanation
Indices: 212562702--212562775 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
212562692 GTTGTGAGAT
* *
212562702 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
212562731 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
212562760 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212562776 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:212570485 original size:29 final size:29
Alignment explanation
Indices: 212570450--212570523 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
212570440 GTTGTGAGAT
* *
212570450 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
212570479 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
212570508 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212570524 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:212570676 original size:29 final size:29
Alignment explanation
Indices: 212570641--212570714 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
212570631 GTTGTGAGAT
* *
212570641 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
212570670 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
212570699 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212570715 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:212570688 original size:191 final size:191
Alignment explanation
Indices: 212570364--212570739 Score: 734
Period size: 191 Copynumber: 2.0 Consensus size: 191
212570354 GATGAAATTG
212570364 TCGAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTAAGTGTACGGGCAAT
1 TCGAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTAAGTGTACGGGCAAT
212570429 AAGTGTTCATGGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCATGGCACTAAGTGTGC
66 AAGTGTTCATGGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCATGGCACTAAGTGTGC
*
212570494 GAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAGGCACTAAGTGTGCGTTT
131 GAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAAGTGTGCGTTT
212570555 TCGAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTAAGTGTACGGGCAAT
1 TCGAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTAAGTGTACGGGCAAT
212570620 AAGTGTTCATGGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCATGGCACTAAGTGTGC
66 AAGTGTTCATGGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCATGGCACTAAGTGTGC
*
212570685 GAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGT
131 GAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAAGTGT
212570740 ACGAACCCAC
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 183 1.00
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (191 bp):
TCGAATGTAAAAAGGAAGTGAAGCGTATAGAGTGGCTGGTTTTCGGCACTAAGTGTACGGGCAAT
AAGTGTTCATGGTTGTGAGATTGGCACTAAGTGTGCGGGCTTGAAATGCATGGCACTAAGTGTGC
GAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTAAGTGTGCGTTT
Found at i:212574805 original size:40 final size:39
Alignment explanation
Indices: 212574604--212574805 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 39
212574594 CGGAGTTTAA
** *
212574604 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGC
* *
212574644 CCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTA-A
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
* *
212574682 CC-GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* * *
212574721 CCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* *
212574761 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGC
212574801 CCGGA
1 CCGGA
212574806 CATCATTCGA
Statistics
Matches: 142, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
37 28 0.20
38 6 0.04
39 9 0.06
40 89 0.63
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
Found at i:212582124 original size:40 final size:39
Alignment explanation
Indices: 212581959--212582142 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
212581949 AAATTGAATG
* * *
212581959 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
212581999 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
212582039 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
212582079 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
212582118 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
212582143 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:212582167 original size:80 final size:81
Alignment explanation
Indices: 212581999--212582187 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
212581989 GCTGGAAATT
* * * *
212581999 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
212582064 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
212582080 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
212582143 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
212582159 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
212582188 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:212590242 original size:38 final size:34
Alignment explanation
Indices: 212590162--212590250 Score: 115
Period size: 34 Copynumber: 2.5 Consensus size: 34
212590152 TCAATCATGC
* *
212590162 ACTGGGCCGTAGCCCTTTCATATCATATTTCAAT
1 ACTGGGCCGAAGCCTTTTCATATCATATTTCAAT
*
212590196 ACTGGGCCGAAGCCTTTTCATTTTCATATTTCATAATT
1 ACTGGGCCGAAGCCTTTTCA-TATCATATTTC--AA-T
212590234 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
212590251 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 18 0.38
35 10 0.21
37 2 0.04
38 18 0.38
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (34 bp):
ACTGGGCCGAAGCCTTTTCATATCATATTTCAAT
Found at i:212590536 original size:23 final size:24
Alignment explanation
Indices: 212590442--212590535 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
212590432 GCTTTATCAT
*
212590442 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
212590467 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
212590491 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
212590514 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
212590536 TCACTTCCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
22 16 0.25
23 8 0.13
24 26 0.41
25 13 0.21
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:212590611 original size:20 final size:20
Alignment explanation
Indices: 212590586--212590645 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
212590576 TATGATTACC
212590586 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
212590606 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
212590626 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
212590646 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:212590720 original size:25 final size:25
Alignment explanation
Indices: 212590688--212590735 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
212590678 ATACATAAAC
* * *
212590688 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
212590713 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
212590736 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:212598500 original size:38 final size:38
Alignment explanation
Indices: 212598435--212598528 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
212598425 TCAATCATGC
* *
212598435 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
212598474 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
212598512 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
212598529 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:212598766 original size:24 final size:24
Alignment explanation
Indices: 212598720--212598814 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
212598710 GCTTTATCAT
*
212598720 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
212598745 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
212598769 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
212598792 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
212598815 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:212598799 original size:47 final size:49
Alignment explanation
Indices: 212598720--212598813 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
212598710 GCTTTATCAT
*
212598720 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
212598769 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
212598814 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:212598890 original size:20 final size:20
Alignment explanation
Indices: 212598865--212598924 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
212598855 TATGATTACC
212598865 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
212598885 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
212598905 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
212598925 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:212598999 original size:25 final size:25
Alignment explanation
Indices: 212598967--212599014 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
212598957 ATACATAAAC
* * *
212598967 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
212598992 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
212599015 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:212604531 original size:43 final size:42
Alignment explanation
Indices: 212604470--212604637 Score: 221
Period size: 43 Copynumber: 4.0 Consensus size: 42
212604460 AGGATTTCCA
* *
212604470 ATATGTGTTCTCGTGTAAGACCACGTCTAGGACATTGGCATCG
1 ATATGTGAT-TCGTGTAAGACCACGTCTGGGACATTGGCATCG
*
212604513 ATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGACATTGGCATCG
* ** *
212604556 -TATTTGATTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG
1 ATATGTGATTCGTGTAAGACCACGTCTGGGACATTGGCATCG
* *
212604597 ATATGTGATTGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGACATTGGCAT
212604638 TGTATGATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
41 30 0.27
42 17 0.15
43 63 0.57
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCACGTCTGGGACATTGGCATCG
Found at i:212604625 original size:84 final size:84
Alignment explanation
Indices: 212604480--212604642 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
212604470 ATATGTGTTC
* * *
212604480 TCGTGTAAGACCACGTCTAGGACATTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
212604545 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
** * *
212604564 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTGCATGTAAGACCACGTCTGGGA
1 TCGTGTAAGACCACGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
* *
212604629 CGTTGGCATTGTAT
66 CATTGGCATCGTAT
212604643 GATATACGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTAGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:212607805 original size:47 final size:47
Alignment explanation
Indices: 212607746--212607867 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
212607736 GCATTGGCAC
*
212607746 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAACATTTAG
* **
212607793 TAAGACAAGGATACTATGTAAGACCATGTTTGGAACATGGCATTTAG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAACATTTAG
* *
212607840 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
212607868 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAACATTTAG
Found at i:212607921 original size:54 final size:54
Alignment explanation
Indices: 212607846--212608246 Score: 320
Period size: 54 Copynumber: 7.6 Consensus size: 54
212607836 TTAGTAAGAT
* * *
212607846 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* *
212607900 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* *
212607956 AAGG-T-CCTATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC-AT-----
1 AAGGATATC-ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* * *** *
212608003 AAGGATACCATGTAAGACCATATTTGGAACGTGGCATT--TG-G-----TAA-GA
1 AAGGATATCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGA
* * * *
212608049 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 -AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* * * *
212608104 AAGGAAATCATGCAAGACCATGTTAAGACATGGCATTGATGAGTTATTATAAGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * * *
212608160 AAGG-TCA-CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-AGAAGGC
1 AAGGAT-ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
* * * *
212608212 AAGTATACCACGTAAAACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCA
212608247 ATGGTAAGTT
Statistics
Matches: 276, Mismatches: 46, Indels: 51
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
46 9 0.03
47 27 0.10
48 16 0.06
49 12 0.04
52 4 0.01
53 31 0.11
54 84 0.30
55 82 0.30
56 10 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:212607975 original size:55 final size:52
Alignment explanation
Indices: 212607854--212608246 Score: 290
Period size: 55 Copynumber: 7.5 Consensus size: 52
212607844 ATAAGGATAT
* * *
212607854 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAAT-
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGAAAGG---TC
*
212607908 CATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-AAAGGTC
* *
212607962 CTATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTC-ATAAGGATA---C
1 C-ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGTC
* *** * *** *
212608011 CATGTAAGACCATATTTGGAACGTGGCATT--TG-GTAAGATAAGGATA--T-
1 CATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGAAAGGTC
* * * *
212608058 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT-
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGAAAGG---TC
* * *
212608112 CATGCAAGACCATGTTAAGACATGGCATTGATGAGTTATTATAAGGCAAAGGTC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-AAAGGTC
* * * * * *
212608166 ACATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-AGAAGGCAAGTATAC
1 -CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGAAAG-GT-C
* *
212608220 CACGTAAAACCATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
212608247 ATGGTAAGTT
Statistics
Matches: 271, Mismatches: 47, Indels: 43
0.75 0.13 0.12
Matches are distributed among these distances:
46 10 0.04
47 25 0.09
48 15 0.06
49 20 0.07
52 5 0.02
53 37 0.14
54 69 0.25
55 81 0.30
56 9 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (52 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGTC
Found at i:212608054 original size:204 final size:204
Alignment explanation
Indices: 212607799--212608210 Score: 718
Period size: 204 Copynumber: 2.0 Consensus size: 204
212607789 TTGGTAAGAC
* *
212607799 AAGGATACTATGTAAGACCATGTTTGGAACATGGCATTTAGTAAGATAAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGACCATATTTGGAACATGGCATTTAGTAAGATAAGGATATCATGTAAGAC
*
212607864 CATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCATGTTAAGAC
66 CATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGCAAGACCATGTTAAGAC
*
212607929 ATGGCATTGATGAGTTACTATAAGGCAAAGGTC-CTATGTAAGACCATGTCAAGACATGGCATTG
131 ATGGCATTGATGAGTTACTATAAGGCAAAGGTCAC-ATGTAAGACCATGCCAAGACATGGCATTG
*
212607993 GTGAGTTCAT
195 GTGAGTTCAG
* *
212608003 AAGGATACCATGTAAGACCATATTTGGAACGTGGCATTTGGTAAGATAAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGACCATATTTGGAACATGGCATTTAGTAAGATAAGGATATCATGTAAGAC
*
212608068 CATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGCAAGACCATGTTAAGAC
66 CATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGCAAGACCATGTTAAGAC
* *
212608133 ATGGCATTGATGAGTTATTATAAGGCAAAGGTCACATGTAAGACCATGCCAAGGCATGGCATTGG
131 ATGGCATTGATGAGTTACTATAAGGCAAAGGTCACATGTAAGACCATGCCAAGACATGGCATTGG
212608198 TGAGTTCAG
196 TGAGTTCAG
212608207 AAGG
1 AAGG
212608211 CAAGTATACC
Statistics
Matches: 197, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
204 196 0.99
205 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (204 bp):
AAGGATACCATGTAAGACCATATTTGGAACATGGCATTTAGTAAGATAAGGATATCATGTAAGAC
CATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATCATGCAAGACCATGTTAAGAC
ATGGCATTGATGAGTTACTATAAGGCAAAGGTCACATGTAAGACCATGCCAAGACATGGCATTGG
TGAGTTCAG
Found at i:212612669 original size:28 final size:28
Alignment explanation
Indices: 212612608--212612705 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
212612598 TCACAAATTG
** * *
212612608 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
212612637 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
212612665 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
212612693 GCACTAAGTGTGC
1 GCACTAAGTGTGC
212612706 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:212620081 original size:40 final size:39
Alignment explanation
Indices: 212619995--212620168 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 39
212619985 AAATTGAATG
* * * * *
212619995 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
212620035 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
212620075 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * * *
212620115 AAATCCGGGCTAAGACCCGAAGGTATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
*
212620154 GATATCCGGGTTAAG
1 -ATATCCGGGCTAAG
212620169 CCTGTAGGCC
Statistics
Matches: 107, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 99 0.93
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:212625472 original size:99 final size:99
Alignment explanation
Indices: 212625293--212625531 Score: 320
Period size: 99 Copynumber: 2.4 Consensus size: 99
212625283 AAAGCTATCT
* * * ** *
212625293 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCC
212625358 TGCACTTAGTACTACACACGTGA-C-CAATTATCC
66 TGCACTTAGTACTACACACGTGATCACAATT-TCC
** * *
212625391 GGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAGC
* *
212625456 CTGCACTTAGTACTACACACGTGATCACAGTTTTC
65 CTGCACTTAGTACTACACACGTGATCACAATTTCC
* *
212625491 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
212625532 TCACAATAGA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 35 0.29
99 43 0.36
100 39 0.32
101 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAATTTCC
Found at i:212625473 original size:50 final size:49
Alignment explanation
Indices: 212625301--212625524 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
212625291 CTGGTACGCA
* * *
212625301 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
212625350 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
212625399 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
212625449 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTCGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
212625499 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
212625525 TGCGACCTCA
Statistics
Matches: 155, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
49 78 0.50
50 74 0.48
51 2 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:212627407 original size:205 final size:206
Alignment explanation
Indices: 212627038--212627830 Score: 1178
Period size: 205 Copynumber: 3.9 Consensus size: 206
212627028 CGGATATTAC
* ** * * * *
212627038 ACACATAGCAAAATCTGGCCTTCATATGTTTATACTGAAGTAGAGCCAAGGTGATTTGGCATCCT
1 ACACATAGC-AGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
212627103 TGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAA
65 TGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAA
212627168 ATCTAAGATGATTT-GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTC
130 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTC
212627232 GACGGAGAGCAG
195 GACGGAGAGCAG
** ** * * * *
212627244 ACACATAGTTGATCTGGCCTTCATATGTTTATACTAAAGCAGATCTAAGGTGATTTGGCATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
* *
212627309 GTGCTTACAAGG-ATAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
* * * *
212627373 TCTAAGATGATTTGGTATCTCTGTATTTTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTTG
131 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
* *
212627438 ACAGAGAGAAG
196 ACGGAGAGCAG
*
212627449 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTC-T
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
* *
212627513 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
* * *
212627578 TCTAAGATGATTTGGCATATCTGTATTGTCAGGGAACAAATCGAAGTTTGGCGTCTCCATATTCA
131 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
*
212627643 ACGGAGGGCAG
196 ACGGAGAGCAG
* * * * *
212627654 ACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGGTTTGGTATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
* * * *
212627719 GTGCTTACAAGGAGCAAATCGAAGAACATAGTTGATTTGGTTTTCGCGTGCTTACGATGAAGCAA
66 GTGCTTACAAGGAACAAATCGAAG-ACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAA
* *
212627784 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
130 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
212627831 ATAAAAGATT
Statistics
Matches: 529, Mismatches: 54, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
204 75 0.14
205 344 0.65
206 31 0.06
207 79 0.15
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTT
GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
ACGGAGAGCAG
Found at i:212628238 original size:19 final size:19
Alignment explanation
Indices: 212628214--212628292 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
212628204 AATCTTTAAG
212628214 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
212628233 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
212628252 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
212628269 GATATGCAATCTTTAAGATAT
1 GATATGCAATC-TT-AGATAT
212628290 GAT
1 GAT
212628293 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 28 0.50
20 2 0.04
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:212628244 original size:36 final size:36
Alignment explanation
Indices: 212628204--212628291 Score: 128
Period size: 36 Copynumber: 2.4 Consensus size: 36
212628194 ATGGAAATAT
212628204 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
212628240 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
212628276 AATCTTTAAGATATGA
1 AATCTTTAAGATATGA
212628292 TCTTGTAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.62
37 2 0.04
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:212631374 original size:20 final size:21
Alignment explanation
Indices: 212631336--212631375 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
212631326 AATGATTGAC
**
212631336 ATTTTCATGAATGTTTGGTTA
1 ATTTTCATGAATGACTGGTTA
212631357 ATTTT-ATGAATGACTGGTT
1 ATTTTCATGAATGACTGGTT
212631376 GTATGTATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (21 bp):
ATTTTCATGAATGACTGGTTA
Found at i:212634174 original size:18 final size:18
Alignment explanation
Indices: 212634140--212634177 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
212634130 TAATATATAT
*
212634140 AAAAAATAATAAGTAATA
1 AAAAAATAATAACTAATA
212634158 AAAAAATAA-AACCTAATA
1 AAAAAATAATAA-CTAATA
212634176 AA
1 AA
212634178 TGCTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAAATAATAACTAATA
Found at i:212634295 original size:24 final size:23
Alignment explanation
Indices: 212634258--212634303 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
212634248 ATAAATGGTA
212634258 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
212634282 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
212634304 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:212636086 original size:119 final size:119
Alignment explanation
Indices: 212635875--212636189 Score: 468
Period size: 119 Copynumber: 2.6 Consensus size: 119
212635865 TTGAGTCTGT
* * * * * * *
212635875 TTTGAGAACATTCGAGAGTCATATCTGCTACGTCCTCGATTTTTTCTTTGTAAGTACAAGGATGC
1 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
* *
212635940 CAAATCATTTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
66 CAAACCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
*
212635994 TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
* * *
212636059 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAACCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
* * * *
212636113 TCTGAGAACGTATGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
*
212636178 CAAACCCTCTTG
66 CAAACCATCTTG
212636190 AGTTTGTTTA
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 178 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
CAAACCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
Found at i:212636350 original size:202 final size:202
Alignment explanation
Indices: 212635998--212636383 Score: 583
Period size: 202 Copynumber: 1.9 Consensus size: 202
212635988 GCTACATTTG
* * * * *
212635998 AGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
* * *
212636063 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATATCTGAGAACGTATGA
66 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTATGA
* * *
212636128 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCCTCTTGAGT
131 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAGT
212636193 TTGTTTA
196 TTGTTTA
* *
212636200 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
* * * * *
212636265 TCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACATTTAAGAACTTTTGA
66 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTATGA
* * *
212636330 GAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
131 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
212636384 TCATCTTGGA
Statistics
Matches: 163, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
202 163 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (202 bp):
AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTATGA
GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAGT
TTGTTTA
Found at i:212636407 original size:119 final size:119
Alignment explanation
Indices: 212636196--212636549 Score: 593
Period size: 119 Copynumber: 3.0 Consensus size: 119
212636186 CTTGAGTTTG
*
212636196 TTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
212636261 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
*
212636315 TTTAAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
212636380 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
* * * * *
212636434 TTTGAGAACATCTGATAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
212636499 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGT-TAGATCTGCT
212636550 GTCTTCAATT
Statistics
Matches: 221, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
118 2 0.01
119 219 0.99
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (119 bp):
TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACA
Found at i:212636461 original size:321 final size:322
Alignment explanation
Indices: 212635865--212636493 Score: 990
Period size: 321 Copynumber: 2.0 Consensus size: 322
212635855 CCAAATCAGT
* * * * **
212635865 TTGAGTCTGTTTTGAGAACATTCGAGAGTCATATCTGCTACGTCCTCGATTTTTTCTTTGTAAGT
1 TTGAGTCTGTTTTAAGAACATTCGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAAC
* * *
212635930 ACAAGGATGCCAAATCATTTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACAT
66 ACAAGAATACCAAATCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACAT
* * * *
212635995 TTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCC
131 TTAAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACC
* *
212636060 AAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATATCTGAGAACGTA
196 AAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATA
*
212636125 TGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCCTC
261 TGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGGATGCCAAACCCTC
* * *
212636187 TTGAGTTTG-TTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAAC
1 TTGAGTCTGTTTTAAGAACATTCGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAAC
* *
212636251 ACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGCTACAT
66 ACAAGAATACCAAATCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACAT
* *
212636316 TTAAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACC
131 TTAAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACC
* * *
212636381 AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACATC
196 AAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATA
* * *
212636446 TGATAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAG
261 TGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAG
212636494 AAAACCAAAT
Statistics
Matches: 278, Mismatches: 29, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
321 270 0.97
322 8 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (322 bp):
TTGAGTCTGTTTTAAGAACATTCGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAAC
ACAAGAATACCAAATCATCTTGGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACAT
TTAAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACC
AAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACATA
TGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGGATGCCAAACCCTC
Found at i:212647515 original size:19 final size:19
Alignment explanation
Indices: 212647480--212647517 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
212647470 AGAGGTATTG
*
212647480 TAATATTCTTTAGATTTTT
1 TAATATTCTTTACATTTTT
212647499 TAATATT-TTTATCATTTTT
1 TAATATTCTTTA-CATTTTT
212647518 AAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (19 bp):
TAATATTCTTTACATTTTT
Found at i:212647562 original size:20 final size:18
Alignment explanation
Indices: 212647523--212647569 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
212647513 TTTTTAAAAA
212647523 TATAAATTTTAGAATTTT
1 TATAAATTTTAGAATTTT
*
212647541 TATAAATATTTTGAATTATT
1 TATAAAT-TTTAGAATT-TT
212647561 TAT-AATTTT
1 TATAAATTTT
212647570 TGTTAAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TATAAATTTTAGAATTTT
Found at i:212649759 original size:28 final size:27
Alignment explanation
Indices: 212649696--212649765 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
212649686 ATAGTGAGTC
212649696 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
212649723 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
212649751 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
212649766 GTACAAGTTT
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:212657735 original size:28 final size:27
Alignment explanation
Indices: 212657672--212657741 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
212657662 ATAGTGAGTC
212657672 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
212657699 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
212657727 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
212657742 GTACAAGTTT
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:212665763 original size:28 final size:27
Alignment explanation
Indices: 212665700--212665769 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
212665690 ATAGTGAGTC
212665700 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
212665727 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
212665755 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
212665770 GTACAAGTTT
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:212673786 original size:28 final size:27
Alignment explanation
Indices: 212673723--212673792 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
212673713 ATAGTGAGTC
212673723 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
212673750 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
212673778 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
212673793 GTACAAGTTT
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:212678120 original size:40 final size:40
Alignment explanation
Indices: 212677993--212678122 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
212677983 ATGCTGGAAA
* *
212677993 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
212678033 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
212678073 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
212678113 TTATATCCGG
1 TTATATCCGG
212678123 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:212686229 original size:40 final size:40
Alignment explanation
Indices: 212686102--212686231 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
212686092 ATGCTGGAAA
* *
212686102 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
212686142 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
212686182 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
212686222 TTATATCCGG
1 TTATATCCGG
212686232 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:212693655 original size:22 final size:22
Alignment explanation
Indices: 212693629--212693684 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
212693619 TTTTATGTTT
212693629 TTACTTTTATTCTAT-TTTAAGAC
1 TTACTTTTATT-TATCTTTAAG-C
*
212693652 -TACTTTTTATTTTTCTTTAAGC
1 TTAC-TTTTATTTATCTTTAAGC
212693674 TTACTTTTATT
1 TTACTTTTATT
212693685 AGGTTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.62
Consensus pattern (22 bp):
TTACTTTTATTTATCTTTAAGC
Found at i:212697879 original size:22 final size:22
Alignment explanation
Indices: 212697854--212697903 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
212697844 GTTGGAATGG
*
212697854 CCACATGGGCGTGTTGCCCCTC
1 CCACACGGGCGTGTTGCCCCTC
212697876 CCACACGGGCGTGTTGCCCCTC
1 CCACACGGGCGTGTTGCCCCTC
*
212697898 CTACAC
1 CCACAC
212697904 AGGTGTGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.44, G:0.24, T:0.20
Consensus pattern (22 bp):
CCACACGGGCGTGTTGCCCCTC
Found at i:212697911 original size:22 final size:22
Alignment explanation
Indices: 212697861--212697911 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
212697851 TGGCCACATG
*
212697861 GGCGTGTTGCCCCTCCCACACG
1 GGCGTGTTGCCCCTCCCACACA
*
212697883 GGCGTGTTGCCCCTCCTACACA
1 GGCGTGTTGCCCCTCCCACACA
*
212697905 GGTGTGT
1 GGCGTGT
212697912 GCCACTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (22 bp):
GGCGTGTTGCCCCTCCCACACA
Found at i:212699209 original size:20 final size:19
Alignment explanation
Indices: 212699173--212699223 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
212699163 AAAGGGTTTT
*
212699173 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
212699192 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
212699212 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
212699224 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:212700646 original size:19 final size:19
Alignment explanation
Indices: 212700622--212700659 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
212700612 GCTTAATGAG
212700622 TCTAGTTTCACATAGAAGA
1 TCTAGTTTCACATAGAAGA
212700641 TCTAGTTTCACATAGAAGA
1 TCTAGTTTCACATAGAAGA
212700660 AACGGTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TCTAGTTTCACATAGAAGA
Found at i:212706545 original size:29 final size:29
Alignment explanation
Indices: 212706483--212706584 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
212706473 GTGACGAGAT
* * *
212706483 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
212706512 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
212706541 TGGCACTATGTGTG-GGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
212706569 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212706585 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 3 0.05
28 20 0.34
29 36 0.61
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:212714532 original size:29 final size:29
Alignment explanation
Indices: 212714470--212714572 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
212714460 GTGACGAGAT
* * *
212714470 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
212714499 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
212714528 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
212714557 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212714573 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:212719712 original size:81 final size:82
Alignment explanation
Indices: 212719598--212719774 Score: 277
Period size: 81 Copynumber: 2.2 Consensus size: 82
212719588 CGTTCCAAAA
* *
212719598 AAAACGCCGGT-AAAACCAGAGCATTAGCAGCGCTTTATGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCA
212719662 TTAGCGACGCTTTAGGT
66 TTAGCGACGCTTTAGGT
* * *
212719679 AAAACGCCGCTAAAAACTAGAGCATT-GCGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCA
*
212719743 TTAGCGGCGCTTTAGGT
66 TTAGCGACGCTTTAGGT
*
212719760 AAAACACCGCTAAAA
1 AAAACGCCGCTAAAA
212719775 CCCCATAACC
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 75 0.85
82 13 0.15
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGACGCTTTAGGT
Found at i:212719776 original size:40 final size:41
Alignment explanation
Indices: 212719598--212719774 Score: 277
Period size: 41 Copynumber: 4.4 Consensus size: 41
212719588 CGTTCCAAAA
* * *
212719598 AAAACGCCGGT-AAAACCAGAGCATTAGCAGCGCTTTATGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
212719638 AAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* *
212719679 AAAACGCCGCTAAAAACTAGAGCATT-GCGGCGCTTTGGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
212719719 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
*
212719760 AAAACACCGCTAAAA
1 AAAACGCCGCTAAAA
212719775 CCCCATAACC
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 47 0.38
41 78 0.62
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:212719955 original size:14 final size:15
Alignment explanation
Indices: 212719938--212719971 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
212719928 ATCATTATAT
212719938 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
212719952 TTTAA-GATATATGG
1 TTTAAGGATATATGG
212719966 TTTAAG
1 TTTAAG
212719972 CAAGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:212720588 original size:2 final size:2
Alignment explanation
Indices: 212720583--212720607 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
212720573 TATATATATA
212720583 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
212720608 TTTAATAATT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:212720896 original size:15 final size:15
Alignment explanation
Indices: 212720876--212720907 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
212720866 TTTATTTTAG
*
212720876 AAGATAAATGTATAT
1 AAGATAAATATATAT
212720891 AAGATAAATATATAT
1 AAGATAAATATATAT
212720906 AA
1 AA
212720908 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:212721573 original size:198 final size:199
Alignment explanation
Indices: 212721234--212721645 Score: 790
Period size: 198 Copynumber: 2.1 Consensus size: 199
212721224 GTTTATACAT
212721234 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
1 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
*
212721299 ATTACAGTAAAACGACGTCGTTTCCTCAGAATAGTAGTGGCTTTAGTGGCGTTTCTATAATAAAC
66 ATTACAGTAAAACGACGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
212721364 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
131 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
212721429 GCTG
196 GCTG
212721433 AAAACGCCGCAAAAGATAGAAAATAGCGGCG-TTTTTTAGAAAACGCCACAAAATTTCATTATAC
1 AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
*
212721497 ATTACAGTAAAACGGCGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
66 ATTACAGTAAAACGACGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
212721562 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
131 GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
212721627 GCTG
196 GCTG
*
212721631 AAAACGCTGCAAAAG
1 AAAACGCCGCAAAAG
212721646 GTCTTATTAG
Statistics
Matches: 210, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
198 179 0.85
199 31 0.15
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (199 bp):
AAAACGCCGCAAAAGATAGAAAATAGCGGCGTTTTTTTAGAAAACGCCACAAAATTTCATTATAC
ATTACAGTAAAACGACGTCGTTTCCTCAGAATAGTAGTGGCTTTAGCGGCGTTTCTATAATAAAC
GCCACAACGCGTATTAGAACGGCGTCGTTTTATTGTGTATATAAAATAGGTATTAGTGGCGCTTT
GCTG
Found at i:212724102 original size:134 final size:133
Alignment explanation
Indices: 212723882--212724131 Score: 464
Period size: 134 Copynumber: 1.9 Consensus size: 133
212723872 TGATTCCATC
*
212723882 TTGGTTATTTAGACGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGG
1 TTGGTTATTCAGACGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGG
212723947 ACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTTAT
66 ACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTTAT
212724012 ATT
131 ATT
* *
212724015 TTGGTTATTCAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTG
1 TTGGTTATTCAGACGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTG
212724080 GACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
212724132 TGTTGAATTC
Statistics
Matches: 113, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
133 25 0.22
134 88 0.78
ACGTcount: A:0.20, C:0.11, G:0.19, T:0.51
Consensus pattern (133 bp):
TTGGTTATTCAGACGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGTGG
ACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTTAT
ATT
Found at i:212726218 original size:21 final size:21
Alignment explanation
Indices: 212726189--212726228 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
212726179 GTTTTTATAT
*
212726189 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
212726210 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
212726229 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:212727882 original size:15 final size:15
Alignment explanation
Indices: 212727830--212727884 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
212727820 ACAAATATGT
212727830 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
212727846 ATATT-TTT-A-TAA
1 ATATTATTTAATTAA
212727858 ATATTATTTAATTAA
1 ATATTATTTAATTAA
212727873 ATATTATTTAAT
1 ATATTATTTAAT
212727885 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
14 2 0.06
15 18 0.50
16 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:212727999 original size:9 final size:9
Alignment explanation
Indices: 212727987--212728239 Score: 170
Period size: 9 Copynumber: 27.6 Consensus size: 9
212727977 TATTTGATAT
*
212727987 CATAATTTA
1 CATAACTTA
212727996 CATAACTTA
1 CATAACTTA
* *
212728005 TATAACATA
1 CATAACTTA
*
212728014 TATAACTTA
1 CATAACTTA
212728023 CATAACTTA
1 CATAACTTA
* *
212728032 TATAACATA
1 CATAACTTA
*
212728041 TATAACTTA
1 CATAACTTA
212728050 CATAACTTA
1 CATAACTTA
* *
212728059 TATAACCTA
1 CATAACTTA
212728068 CATAACTTA
1 CATAACTTA
*
212728077 TATAACTTA
1 CATAACTTA
*
212728086 TATAACTTA
1 CATAACTTA
* *
212728095 GATAA-ATA
1 CATAACTTA
*
212728103 TATAACTTA
1 CATAACTTA
212728112 CATAACTTA
1 CATAACTTA
212728121 CATAATACTTA
1 CAT-A-ACTTA
* *
212728132 AATATATTTTATA
1 CATA-A--CT-TA
*
212728145 TCATAATTTA
1 -CATAACTTA
212728155 CATAACTTA
1 CATAACTTA
212728164 CATAACTTA
1 CATAACTTA
*
212728173 TATAACTTA
1 CATAACTTA
* *
212728182 GATAA-ATA
1 CATAACTTA
* *
212728190 TATAATTTA
1 CATAACTTA
*
212728199 CATAA-ATA
1 CATAACTTA
* * *
212728207 TATATCATA
1 CATAACTTA
*
212728216 TCATAAATTA
1 -CATAACTTA
212728226 CATAACTTA
1 CATAACTTA
212728235 CATAA
1 CATAA
212728240 TACTTAAATA
Statistics
Matches: 197, Mismatches: 37, Indels: 20
0.78 0.15 0.08
Matches are distributed among these distances:
8 17 0.09
9 153 0.78
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:212728009 original size:18 final size:18
Alignment explanation
Indices: 212727988--212728239 Score: 195
Period size: 18 Copynumber: 13.7 Consensus size: 18
212727978 ATTTGATATC
*
212727988 ATAATTTACATAACTTAT
1 ATAACTTACATAACTTAT
* * *
212728006 ATAACATATATAACTTAC
1 ATAACTTACATAACTTAT
* *
212728024 ATAACTTATATAACATAT
1 ATAACTTACATAACTTAT
212728042 ATAACTTACATAACTTAT
1 ATAACTTACATAACTTAT
*
212728060 ATAACCTACATAACTTAT
1 ATAACTTACATAACTTAT
* *
212728078 ATAACTTATATAACTTAG
1 ATAACTTACATAACTTAT
* * *
212728096 ATAA-ATATATAACTTAC
1 ATAACTTACATAACTTAT
212728113 ATAACTTACATAATACTTAAAT
1 ATAACTTACAT-A-ACTT--AT
** * *
212728135 ATATTTTATATCATAATTTAC
1 ATA-ACT-TA-CATAACTTAT
212728156 ATAACTTACATAACTTAT
1 ATAACTTACATAACTTAT
* *
212728174 ATAACTTAGATAA-ATAT
1 ATAACTTACATAACTTAT
* *
212728191 ATAATTTACATAA-ATAT
1 ATAACTTACATAACTTAT
* * * *
212728208 ATATCATATCATAAATTAC
1 ATAACTTA-CATAACTTAT
212728227 ATAACTTACATAA
1 ATAACTTACATAA
212728240 TACTTAAATA
Statistics
Matches: 187, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
17 38 0.20
18 115 0.61
19 11 0.06
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
ATAACTTACATAACTTAT
Found at i:212728171 original size:114 final size:114
Alignment explanation
Indices: 212728042--212728263 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
212728032 TATAACATAT
* * *
212728042 ATAACTTACATAACTTATATAACCTACATAACTTATATAACTTATATAACTTAGATA-AATAT-A
1 ATAACTTACATAACTTATATAACCTACATAA-ATATATAACTTACATAA-ATAGATATAATATCA
* * *
212728105 TAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
212728156 ATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATATCATATCATA
1 ATAACTTACATAACTTATATAACCTACATAAATATATAACTTACATAAATAGATATAATATCATA
212728221 AATTACATAACTTACATAATACTTAAATATATATCATATCATA
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATA
212728264 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACCTACATAAATATATAACTTACATAAATAGATATAATATCATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:212735376 original size:39 final size:38
Alignment explanation
Indices: 212735254--212735382 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 38
212735244 CGGAATATAA
*
212735254 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCA-CTGCAC-AATGCCTTCGGGTCTTAGC
* **
212735294 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTCTTAGC
* *
212735334 CCGGATATAGCCACTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTGCACAA-TGCCTTCGGGTCTTAGC
212735373 CCGGATATAA
1 CCGGATATAA
212735383 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 30 0.39
40 44 0.58
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTTAGC
Found at i:212735403 original size:79 final size:79
Alignment explanation
Indices: 212735254--212735419 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
212735244 CGGAATATAA
* *
212735254 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
212735319 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
212735334 CCGGATATAGCCA-CTGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
212735396 TGTCTTCGGGCTTAGC
64 TGCCTTCGGGCTTAGC
212735412 CCGGATAT
1 CCGGATAT
212735420 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 17 0.23
79 46 0.61
80 12 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:212735415 original size:39 final size:38
Alignment explanation
Indices: 212735270--212735419 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 38
212735260 ATAACCATGT
* * * *
212735270 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-TA-GCCAC
212735310 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCAC
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
* *
212735348 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA-
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A--GCCAC
* *
212735389 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
212735420 CATTCAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.05
39 42 0.44
40 44 0.46
41 2 0.02
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
Found at i:212742058 original size:46 final size:46
Alignment explanation
Indices: 212742005--212742180 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
212741995 TATTTGGGCA
212742005 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
212742051 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
212742098 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
212742144 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
212742181 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:212742160 original size:93 final size:93
Alignment explanation
Indices: 212742001--212742172 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
212741991 GGGATATTTG
* *
212742001 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
212742066 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
212742094 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
212742159 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
212742173 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:212746103 original size:40 final size:40
Alignment explanation
Indices: 212746058--212746187 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
212746048 CGGAATATAA
212746058 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
212746098 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
212746138 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
212746178 CCGGATATAA
1 CCGGATATAA
212746188 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:212746202 original size:40 final size:39
Alignment explanation
Indices: 212746074--212746224 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
212746064 ATAACCATGT
* * *
212746074 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
212746114 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
212746154 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
212746193 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
212746225 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:212746208 original size:80 final size:79
Alignment explanation
Indices: 212746058--212746224 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
212746048 CGGAATATAA
*
212746058 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
212746123 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
212746138 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
212746200 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
212746217 CCGGATAT
1 CCGGATAT
212746225 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:212756165 original size:40 final size:40
Alignment explanation
Indices: 212756085--212756249 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
212756075 GGATTTAGCC
* * * * *
212756085 GATATAACCACACGCCCAATTGCCTTCGGGTCTTAACCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* *
212756125 GACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
212756165 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
*
212756205 GATATAACAACTCGCACAAATGCCTTCGGGGCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
212756245 GATAT
1 GATAT
212756250 CATTCAAATG
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:212760102 original size:40 final size:40
Alignment explanation
Indices: 212759975--212760104 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
212759965 ATGCTGGAAA
* *
212759975 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
212760015 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
212760055 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
212760095 TTATATCCGG
1 TTATATCCGG
212760105 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:212760103 original size:80 final size:80
Alignment explanation
Indices: 212759937--212760104 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
212759927 CAATTGAATG
* * *
212759937 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
212760002 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
212760017 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
212760081 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
212760097 ATATCCGG
1 ATATCCGG
212760105 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:212761522 original size:2 final size:2
Alignment explanation
Indices: 212761515--212761544 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
212761505 GATCGGAGAT
212761515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
212761545 GAGTACGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:212761612 original size:29 final size:29
Alignment explanation
Indices: 212761578--212761682 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
212761568 TACTCGATTT
* * *
212761578 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
212761607 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
212761636 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
212761665 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
212761683 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:212761683 original size:29 final size:29
Alignment explanation
Indices: 212761637--212761707 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
212761627 CTTCGAGCTC
212761637 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
212761666 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
212761695 GCACACTTAGTGC
1 GCACACTTAGTGC
212761708 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:212766908 original size:22 final size:24
Alignment explanation
Indices: 212766854--212766908 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
212766844 ATTTTTAATT
*
212766854 AAATATTTTATTCTTTAAATTTTA
1 AAATATTTTATTCTGTAAATTTTA
* *
212766878 AAAGAATTTT-TT-TGTAATTTTTA
1 AAA-TATTTTATTCTGTAAATTTTA
212766901 AAATATTT
1 AAATATTT
212766909 CTCTTCTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 5 0.19
25 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATATTTTATTCTGTAAATTTTA
Found at i:212768705 original size:4 final size:4
Alignment explanation
Indices: 212768696--212768726 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
212768686 CATTTCATAT
212768696 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACA
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACA
212768727 TGCATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.26, G:0.23, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:212782707 original size:49 final size:49
Alignment explanation
Indices: 212782641--212782819 Score: 214
Period size: 50 Copynumber: 3.6 Consensus size: 49
212782631 TAGCCAAAGC
* * *
212782641 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
212782690 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * ** *
212782740 CATCTGATACACGCAGTAGCCTGCACTTAGTACTACACACGTGATCACATT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
212782791 TTTCGGGTACGCATAGTAGCCTGCACTTA
1 TATCTGGTACACATAGTAGCCTGCACTTA
212782820 TGATATGACC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 42 0.38
50 43 0.39
51 24 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:212783344 original size:17 final size:18
Alignment explanation
Indices: 212783312--212783346 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
212783302 ATAATTTTTA
212783312 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
212783330 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
212783347 TGTGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:212783447 original size:24 final size:24
Alignment explanation
Indices: 212783420--212783474 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
212783410 GCCTAGACAG
* * *
212783420 ATTTAATGAGCTGCTGGTTGATGA
1 ATTTAATGAGCAGCTGGTGGACGA
212783444 ATTTAATGAGCAGCTGGTGGACGA
1 ATTTAATGAGCAGCTGGTGGACGA
212783468 ATTTAAT
1 ATTTAAT
212783475 ATGTCCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.35
Consensus pattern (24 bp):
ATTTAATGAGCAGCTGGTGGACGA
Found at i:212784425 original size:20 final size:21
Alignment explanation
Indices: 212784402--212784449 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
212784392 AGCTCCGTCC
212784402 AGCTCAACT-CAGCTCATTTG
1 AGCTCAACTCCAGCTCATTTG
** *
212784422 AGCTC-GTTCCAGCTCGTTTG
1 AGCTCAACTCCAGCTCATTTG
212784442 AGCTCAAC
1 AGCTCAAC
212784450 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (21 bp):
AGCTCAACTCCAGCTCATTTG
Found at i:212784455 original size:20 final size:19
Alignment explanation
Indices: 212784402--212784455 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
212784392 AGCTCCGTCC
212784402 AGCTCAACTCAGCTCATTTG
1 AGCTCAAC-CAGCTCATTTG
** *
212784422 AGCTCGTTCCAGCTCGTTTG
1 AGCTC-AACCAGCTCATTTG
212784442 AGCTCAACCGAGCT
1 AGCTCAACC-AGCT
212784456 TACTTTCAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (19 bp):
AGCTCAACCAGCTCATTTG
Found at i:212786981 original size:18 final size:18
Alignment explanation
Indices: 212786933--212786982 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
212786923 GAAAGAAAAA
* *
212786933 GAAAAAGAGATTAAGAGT
1 GAAAAAGAGAATGAGAGT
* *
212786951 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
212786969 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
212786983 AAAAGAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:212787019 original size:18 final size:17
Alignment explanation
Indices: 212786998--212787037 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
212786988 AGTTTGAGAG
*
212786998 AGAAAAAGAATGTGAACA
1 AGAAAAAGAATG-GAAAA
*
212787016 AGAAAAAGAGTGGAAAA
1 AGAAAAAGAATGGAAAA
212787033 AGAAA
1 AGAAA
212787038 TTGAGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (17 bp):
AGAAAAAGAATGGAAAA
Found at i:212802540 original size:108 final size:106
Alignment explanation
Indices: 212802428--212802737 Score: 268
Period size: 108 Copynumber: 2.8 Consensus size: 106
212802418 TGTAAATGGG
* * *
212802428 TCTATCCCAACATTTTTAACGTTGTCTTAGATAGGTCAATCTCAACCTTTTCTAAAAGTTGCTTT
1 TCTATCCCAACATTTTTAACGTTG-CTTAGAAAGGTCTATCTCAACCTTTT-TAAAAGTTGCCTT
* * * *
212802493 AGACAAGATCTATTCCAACCTTTTGGAGGTTACCTTAGACGA-A
64 AGACAAG-TCTATTCCAACCTTTTGAAGGATACCTTAAACAAGA
* * * *
212802536 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAA-GTCTATCGT-AACCTTTTTTTAAGGTTGCC
1 TCTATCCCAACATTTTTAACGTTGC-TTAGA-AAGGTCTATC-TCAACC-TTTTTAAAAGTTGCC
* * *
212802599 TTAAACAAGTCTA-TCTCAACCCTTTTTTAAGGATGCCTTAAACAAGA
62 TTAGACAAGTCTATTC-CAA-CC-TTTTGAAGGATACCTTAAACAAGA
* * * *
212802646 TCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTGC
1 TCTATCCCAA-CATTTTT-AACGTTG-CTTAGA-AAGGTCTATCTCAACCTTTTTAAAA-GTTGC
* *
212802711 CTTAGATAAGGTCTATCCCAACCTTTT
61 CTTAGACAA-GTCTATTCCAACCTTTT
212802738 TTAAAGGTTG
Statistics
Matches: 163, Mismatches: 23, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
106 2 0.01
107 8 0.05
108 55 0.34
109 22 0.13
110 11 0.07
111 6 0.04
112 25 0.15
113 25 0.15
114 8 0.05
115 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (106 bp):
TCTATCCCAACATTTTTAACGTTGCTTAGAAAGGTCTATCTCAACCTTTTTAAAAGTTGCCTTAG
ACAAGTCTATTCCAACCTTTTGAAGGATACCTTAAACAAGA
Found at i:212802607 original size:37 final size:37
Alignment explanation
Indices: 212802287--212803004 Score: 476
Period size: 38 Copynumber: 19.6 Consensus size: 37
212802277 GAGACAAATA
* * **
212802287 TCTATCCCGACC--TTTTTAAGTTTGCCTTAGACGGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* * * **
212802322 TTTATCCTAA-C-TTTTTTAAGGTTGCCTTAAACGGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* * *
212802357 TTTATCCCAA-CTTTTTTTAA-GTTGCCTTGGAAAAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAA-G
* * * ***
212802393 TCTATCTCAA-C-TTTTTTAAGGTTG-TTGTAAATGGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCT-TAGACAAG
* * * * *
212802428 TCTATCCCAA-C-ATTTTTAACGTTGTCTTAGATAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* * * * * *
212802463 TCAATCTCAACCTTTTCTAAAAGTTGCTTTAGACAAG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* ** *
212802500 ATCTATTCCAACC--TTTTGGAGGTTACCTTAGACGAA-
1 -TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGAC-AAG
*
212802536 TCTATCCCAACC--TTTTTAAGGTTGCTTTAGACAAG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
** *
212802571 TCTATCGTAACCTTTTTTTAAGGTTGCCTTAAACAAG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* * * *
212802608 TCTATCTCAACCCTTTTTTAAGGATGCCTTAAACAAG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* *
212802645 ATCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGG
1 -TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAA-G
* ** *
212802684 TCTATCCCAACATTTTTAAAAGGTTGCCTTAGATAAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAA-G
* *
212802722 TCTATCCCAACCTTTTTTAAAGGTTGCCCTAGACAAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAA-G
* * * *
212802760 TCTA-CACCAACC--TATTTAAGGTTGCTTTAGACGAT
1 TCTATC-CCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* *
212802795 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAA-G
* * * * *
212802833 TTTATCGCAA-CTTTTTTTAAATGTTGCCTTAGATATGG
1 TCTATCCCAACCTTTTTTT-AAGGTTGCCTTAGACA-AG
** **
212802871 TCTATCCCAA-CTTTTTTTAAAGGTTATCTTAGACTGG
1 TCTATCCCAACCTTTTTTT-AAGGTTGCCTTAGACAAG
* * *
212802908 TCTATCCCAA-C-ATTTTTAAGGTTGCCTTAAACAGG
1 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
* ** *
212802943 TCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
1 TCTATCCCAACCTTTTTTTAAGGTT-GCCTTAGAC-AAG
* *
212802981 TCTATCGCAACCTTTTTTAAAGGT
1 TCTATCCCAACCTTTTTTTAAGGT
212803005 CGGCATTGAC
Statistics
Matches: 549, Mismatches: 108, Indels: 49
0.78 0.15 0.07
Matches are distributed among these distances:
34 3 0.01
35 161 0.29
36 64 0.12
37 122 0.22
38 198 0.36
39 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAAG
Found at i:212802824 original size:149 final size:148
Alignment explanation
Indices: 212802287--212803004 Score: 609
Period size: 149 Copynumber: 4.9 Consensus size: 148
212802277 GAGACAAATA
* * * * * *
212802287 TCTATCCCGACC-TTTTT-AAGTTTGCCTTAGAC-GGGTTTATCCTAACTTTTTTAAGGTTGCCT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
* * * * * *
212802349 TAAACGGGTTTATCCCAA-CTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCTCAA-CTTTTTT-
66 TAAAC-GATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTA
* * *
212802410 AAGGTTG-TTGTAAAT-GGG
130 AAGGTTGCCT-TAGATAAGG
* * * * * * *
212802428 TCTATCCCAA-CATTTTT-AACGTTGTCTTAGA-TAGGTCAATCTCAACCTTTTCTAAAAGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT-T-AAGGTTGC
* * * ** *
212802490 TTTAGACAAGATCTATTCCAACC--TTTTGGAGGTTACCTTAGACGAA--TCTATCCCAACC-TT
64 CTTA-A-ACGATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-AAGGTCTATCCCAACCTTT
* *
212802550 TTT-AAGGTTGCTTTAGACAA-G
126 TTTAAAGGTTGCCTTAGATAAGG
** * * * *
212802571 TCTATCGTAACCTTTTTTTAAGGTTGCCTTAAACAA-GTCTATCTCAACCCTTTTTTAAGGATGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAA-CC-TTTTTAAGGTTGC
* *
212802635 CTTAAACAAGATCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTTT
64 CTTAAAC--GATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT
*
212802700 TAAAAGGTTGCCTTAGATAAGG
127 TTAAAGGTTGCCTTAGATAAGG
* * *
212802722 TCTATCCCAACCTTTTTTAAAGGTTGCCCTAGACAAGGTCTA-CACCAACCTATTTAAGGTTGCT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATC-CCAACCTTTTTAAGGTTGCC
* * * * *
212802786 TTAGACGATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCGCAACTTTTTTT
65 TTAAACGA-TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTT
* *
212802851 AAATGTTGCCTTAGATATGG
129 AAAGGTTGCCTTAGATAAGG
* ** * *
212802871 TCTATCCCAACTTTTTTTAAAGGTTATCTTAGAC-TGGTCTATCCCAACATTTTTAAGGTTGCCT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
* * * * *
212802935 TAAACAGGTCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTATCGCAACCTTTTTT
66 TAAAC-GATCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACCTTTTTT
212802999 AAAGGT
129 AAAGGT
212803005 CGGCATTGAC
Statistics
Matches: 464, Mismatches: 81, Indels: 57
0.77 0.13 0.09
Matches are distributed among these distances:
140 1 0.00
141 38 0.08
142 1 0.00
143 49 0.11
144 29 0.06
145 47 0.10
146 6 0.01
147 20 0.04
148 90 0.19
149 109 0.23
150 31 0.07
151 35 0.08
152 8 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (148 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
TAAACGATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAA
AGGTTGCCTTAGATAAGG
Found at i:212803034 original size:39 final size:38
Alignment explanation
Indices: 212802944--212803047 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
212802934 TTAAACAGGT
* * * * * *
212802944 CTATCACAACCTTTTTCAAAGGTTGGCCTTGACTAGGT
1 CTATCGCAACCTTTTTTAAAGGTCGGCATTGACTAAGC
212802982 CTATCGCAACCTTTTTTAAAGGTCGGCATTGACTAAGC
1 CTATCGCAACCTTTTTTAAAGGTCGGCATTGACTAAGC
* **
212803020 CTTTCGCAACCCTTTAATAAAGGTCGGC
1 CTATCGCAA-CCTTTTTTAAAGGTCGGC
212803048 TTATGTTGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 40 0.71
39 16 0.29
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (38 bp):
CTATCGCAACCTTTTTTAAAGGTCGGCATTGACTAAGC
Found at i:212804985 original size:16 final size:16
Alignment explanation
Indices: 212804938--212804986 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 16
212804928 AAAGTCATAC
212804938 ATGGTATGTTTTGTATA
1 ATGG-ATGTTTTGTATA
*
212804955 ATGG-T-TTTT-TTTA
1 ATGGATGTTTTGTATA
212804968 ATGGATGTTTTGTATA
1 ATGGATGTTTTGTATA
212804984 ATG
1 ATG
212804987 TTAAAGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 5 0.19
16 6 0.22
17 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.55
Consensus pattern (16 bp):
ATGGATGTTTTGTATA
Found at i:212805100 original size:13 final size:13
Alignment explanation
Indices: 212805082--212805108 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
212805072 AACTTTATTA
212805082 TATTTTAATTGAG
1 TATTTTAATTGAG
212805095 TATTTTAATTGAG
1 TATTTTAATTGAG
212805108 T
1 T
212805109 CCTTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTTTAATTGAG
Found at i:212807996 original size:23 final size:23
Alignment explanation
Indices: 212807970--212808032 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
212807960 AGAGCTCCCT
*
212807970 CCTCTCCCCTCTCTCTTTTCTTC
1 CCTCTCCCCTCTCTCCTTTCTTC
*
212807993 CCTCTCCCTTCTCTCCTTTCTTC
1 CCTCTCCCCTCTCTCCTTTCTTC
212808016 CCTCTCCCCTTCTCTCC
1 CCTCTCCCC-TCTCTCC
212808033 CTCTTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 29 0.81
24 7 0.19
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (23 bp):
CCTCTCCCCTCTCTCCTTTCTTC
Found at i:212808008 original size:9 final size:9
Alignment explanation
Indices: 212807994--212808034 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
212807984 CTTTTCTTCC
212807994 CTCTCCCTT
1 CTCTCCCTT
*
212808003 CTCTCCTTT
1 CTCTCCCTT
212808012 CT-TCCC-T
1 CTCTCCCTT
212808019 CTC-CCCTT
1 CTCTCCCTT
212808027 CTCTCCCT
1 CTCTCCCT
212808035 CTTTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 6 0.22
8 7 0.26
9 14 0.52
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCTCCCTT
Found at i:212808026 original size:16 final size:16
Alignment explanation
Indices: 212807994--212808036 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
212807984 CTTTTCTTCC
*
212807994 CTCTCCCTTCTCTCCTT
1 CTCTCCC-TCTCCCCTT
212808011 -TCTTCCCTCTCCCCTT
1 CTC-TCCCTCTCCCCTT
212808027 CTCTCCCTCT
1 CTCTCCCTCT
212808037 TTTTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (16 bp):
CTCTCCCTCTCCCCTT
Found at i:212808544 original size:3 final size:3
Alignment explanation
Indices: 212808507--212808583 Score: 91
Period size: 3 Copynumber: 24.7 Consensus size: 3
212808497 TCCTATTAAA
* * * *
212808507 TAT TCT TAT TATT TAT ATAA TAT TAG TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
212808554 TAT TAT TAT TAT TAT TAT TAT TAT GTAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
212808584 GTTTATGTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
3 56 0.88
4 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:212822102 original size:28 final size:28
Alignment explanation
Indices: 212822033--212822133 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
212822023 GACAAGATTG
* * * *
212822033 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
212822063 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
212822091 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
212822120 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
212822134 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:212831312 original size:28 final size:27
Alignment explanation
Indices: 212831249--212831318 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
212831239 ATAGTGAGTC
212831249 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
212831276 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
212831304 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
212831319 GTACAAGTTT
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:212839115 original size:29 final size:28
Alignment explanation
Indices: 212839082--212839173 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
212839072 TGACGAGATT
*
212839082 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
212839111 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * * * *
212839139 GACACTATGTGTGCAAGCTGAAAAAATAC
1 GGCACTAAGTGTGCATGCTG-GAAAATAA
212839168 GGCACT
1 GGCACT
212839174 GGGTGTGCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 20 0.37
29 34 0.63
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:212839153 original size:28 final size:28
Alignment explanation
Indices: 212839084--212839163 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
212839074 ACGAGATTGG
* *
212839084 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
212839113 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* * *
212839141 CACTATGTGTGCAAGCTGAAAAA
1 CACTAAGTGTGCATGCTGGAAAA
212839164 ATACGGCACT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:212847191 original size:29 final size:29
Alignment explanation
Indices: 212847158--212847251 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
212847148 TGACGAGATT
* *
212847158 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
212847187 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
212847216 GACACTATGTGTGCAAGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAA
212847246 GGCACT
1 GGCACT
212847252 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 44 0.79
30 12 0.21
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:212847258 original size:30 final size:30
Alignment explanation
Indices: 212847189--212847269 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
212847179 AAATATAAGG
* * *
212847189 CACTAAGTGTGCATGCTGG-AAAAATATGA
1 CACTAGGTGTGCAAGCTGGAAAAAATACGA
* *
212847218 CACTATGTGTGCAAGCTGGAAAAAATACGG
1 CACTAGGTGTGCAAGCTGGAAAAAATACGA
* *
212847248 CACTGGGTGTGCGAGCTCGGAA
1 CACTAGGTGTGCAAGCT-GGAA
212847270 GGTATGGCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 17 0.40
30 22 0.51
31 4 0.09
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (30 bp):
CACTAGGTGTGCAAGCTGGAAAAAATACGA
Found at i:212850230 original size:19 final size:20
Alignment explanation
Indices: 212850206--212850243 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
212850196 GGTATCACCA
212850206 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
212850225 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
212850244 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:212850629 original size:92 final size:92
Alignment explanation
Indices: 212850472--212850640 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
212850462 GCCCCTAAGT
* *
212850472 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
212850537 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
212850564 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
212850628 CGAGTTCGGATGC
65 CGAGTTCGGATGC
212850641 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 10 0.14
92 63 0.86
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:212850637 original size:45 final size:44
Alignment explanation
Indices: 212850471--212850637 Score: 203
Period size: 45 Copynumber: 3.7 Consensus size: 44
212850461 CGCCCCTAAG
* * *
212850471 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAA
* *
212850516 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCATCCATAA
*
212850563 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
212850607 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGA
212850638 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 57 0.54
47 31 0.30
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
Found at i:212857847 original size:46 final size:48
Alignment explanation
Indices: 212857746--212857914 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 48
212857736 GCCCCTAAGT
* * * *
212857746 GAACTCGGACTCAACTCAAAGAGCTCGG--G--AGTTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCAT-AAC
*
212857792 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCATAAC
* * *
212857839 GAAC-CGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCATAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATAAC
212857883 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
212857915 TCAACCATCC
Statistics
Matches: 103, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 6 0.06
45 24 0.23
46 50 0.49
47 5 0.05
48 2 0.02
49 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (48 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATAAC
Found at i:212857907 original size:91 final size:93
Alignment explanation
Indices: 212857746--212857914 Score: 272
Period size: 91 Copynumber: 1.8 Consensus size: 93
212857736 GCCCCTAAGT
*
212857746 GAACTCGGACTCAACTCAAAGAGCTCGGGAGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGGAATTCGCATCCATAAATGAACTCGGACTCAACTCAA
212857811 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
212857839 GAAC-CGGACTCAACTCAACGAGTTC-GGACATTTGCATCCAT-AATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAAAGAGCTCGGGA-ATTCGCATCCATAAATGAACTCGGACTCAACTCA
212857901 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
212857915 TCAACCATCC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
91 38 0.54
92 29 0.41
93 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCGGGAATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:212859886 original size:21 final size:20
Alignment explanation
Indices: 212859856--212859896 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
212859846 AATTCCCAGC
212859856 CCAGTCCAACCAACACACCA
1 CCAGTCCAACCAACACACCA
212859876 CCAGTACCAACCAACACACCA
1 CCAGT-CCAACCAACACACCA
212859897 TGTGGGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.41, C:0.49, G:0.05, T:0.05
Consensus pattern (20 bp):
CCAGTCCAACCAACACACCA
Found at i:212867842 original size:15 final size:14
Alignment explanation
Indices: 212867821--212867875 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
212867811 CTTAACATAA
212867821 AATT-TTTAATTCT
1 AATTATTTAATTCT
*
212867834 AATTATTTTAATATTT
1 AATTA-TTTAAT-TCT
*
212867850 AA-TAATTAATTCCT
1 AATTATTTAATT-CT
212867864 AATTATTTAATT
1 AATTATTTAATT
212867876 ATCGAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 5 0.15
14 8 0.24
15 16 0.48
16 4 0.12
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTATTTAATTCT
Found at i:212869857 original size:40 final size:40
Alignment explanation
Indices: 212869812--212869941 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
212869802 CGGAATACAA
212869812 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
212869852 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
212869892 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
212869932 CCGGATATAA
1 CCGGATATAA
212869942 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:212869956 original size:40 final size:40
Alignment explanation
Indices: 212869812--212869975 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
212869802 CGGAATACAA
* **
212869812 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
212869852 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
212869892 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
212869932 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
212869972 CCGG
1 CCGG
212869976 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:212883887 original size:28 final size:29
Alignment explanation
Indices: 212883856--212883930 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 29
212883846 ACTCAAAATT
*
212883856 TCACACACTAAGTGCCATACTT-GATGTC
1 TCACACACTAAGTGCCATACTTCAATGTC
* *
212883884 TCACACACTAAATGCCAT-TTTCAATGTC
1 TCACACACTAAGTGCCATACTTCAATGTC
*
212883912 TCGCACACTAAGTGCCATA
1 TCACACACTAAGTGCCATA
212883931 TTTAGCTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 2 0.05
28 38 0.95
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
TCACACACTAAGTGCCATACTTCAATGTC
Found at i:212891733 original size:40 final size:39
Alignment explanation
Indices: 212891689--212891871 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
212891679 GTTCAAAACA
* * ** * *
212891689 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGGTATCATAACTCGCACAATTG
* * * *
212891729 CCTTCGGGACTTAACTCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGGTATCATAACTCGCACAATTG
*
212891769 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
*
212891808 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
*
212891847 CCTTCGGGCTTAGCCCGGATATCAT
1 CCTTCGGGCTTAGCCCGGGTATCAT
212891872 TCGAACATTC
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 89 0.70
40 39 0.30
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
Done.