Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 151 of 444
Found at i:40902907 original size:46 final size:46
Alignment explanation
Indices: 40902854--40903029 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
40902844 TATTTGGGCA
40902854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
40902900 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
40902947 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
40902993 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40903030 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:40903009 original size:93 final size:93
Alignment explanation
Indices: 40902850--40903021 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
40902840 GGGATATTTG
* *
40902850 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40902915 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
40902943 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40903008 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
40903022 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:40906000 original size:15 final size:15
Alignment explanation
Indices: 40905980--40906048 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
40905970 GTATCTTGGG
40905980 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
40905995 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
40906010 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
40906025 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
40906040 TTTCTTTAT
1 TTTCTTTAT
40906049 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:40906049 original size:30 final size:30
Alignment explanation
Indices: 40905971--40906058 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
40905961 CATAGTATCG
* * * *
40905971 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
40906001 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
40906031 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
40906059 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:40908488 original size:46 final size:46
Alignment explanation
Indices: 40908438--40908613 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
40908428 TATTTGGGCA
40908438 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
40908484 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
40908531 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
40908577 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40908614 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:40908593 original size:93 final size:93
Alignment explanation
Indices: 40908434--40908605 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
40908424 TGGATATTTG
* *
40908434 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40908499 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
40908527 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
40908592 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
40908606 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:40914724 original size:40 final size:39
Alignment explanation
Indices: 40914679--40914886 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
40914669 CGGAATACAA
*
40914679 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40914719 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40914759 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
40914799 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
40914839 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
40914879 CCGGATAT
1 CCGGATAT
40914887 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40914819 original size:80 final size:80
Alignment explanation
Indices: 40914679--40914885 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
40914669 CGGAATACAA
* * *
40914679 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
40914743 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
40914759 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
40914823 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
40914839 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
40914886 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40917333 original size:32 final size:33
Alignment explanation
Indices: 40917295--40917358 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
40917285 AACAGCGGGT
40917295 ACTGGGTCAAAG-CCCTTTTCAGAATA-CAGTAA
1 ACTGGGTCAAAGCCCCTTTTCAG-ATAGCAGTAA
**
40917327 ACTGGGTCTTAGCCCCTTTTCAGATAGCAGTA
1 ACTGGGTCAAAGCCCCTTTTCAGATAGCAGTA
40917359 TAGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (33 bp):
ACTGGGTCAAAGCCCCTTTTCAGATAGCAGTAA
Found at i:40919005 original size:15 final size:14
Alignment explanation
Indices: 40918949--40919016 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 14
40918939 CGGCTATGGG
*
40918949 GAAAAGAAGA-AGA
1 GAAAAGAAGAGAAA
*
40918962 G-AAAGTAGATGAAGA
1 GAAAAGAAGA-GAA-A
*
40918977 GAAAAGAAAAGAAAA
1 GAAAAGAAGAG-AAA
*
40918992 GAAAAGAAGGGAAA
1 GAAAAGAAGAGAAA
40919006 GAATAAGAAGA
1 GAA-AAGAAGA
40919017 AAGGAAGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
12 7 0.17
13 1 0.02
14 7 0.17
15 19 0.45
16 8 0.19
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
GAAAAGAAGAGAAA
Found at i:40920085 original size:25 final size:26
Alignment explanation
Indices: 40920030--40920091 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
40920020 CTAATAATAA
* *
40920030 TAATAATAATAATTTTATAGATATATC
1 TAATAATAA-AAATTTATAAATATATC
* *
40920057 TAATAATAAAAATTTA-AAATATCTG
1 TAATAATAAAAATTTATAAATATATC
40920082 TAATAATAAA
1 TAATAATAAA
40920092 TACAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 16 0.52
26 6 0.19
27 9 0.29
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (26 bp):
TAATAATAAAAATTTATAAATATATC
Found at i:40923781 original size:15 final size:14
Alignment explanation
Indices: 40923725--40923792 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 14
40923715 GGCTATGGGG
*
40923725 GAAAAGAAGA-AGA
1 GAAAAGAAGAGAAA
*
40923738 G-AAAGTAGATGAAGA
1 GAAAAGAAGA-GAA-A
*
40923753 GAAAAGAAAAGAAAA
1 GAAAAGAAGAG-AAA
*
40923768 GAAAAGAAGGGAAA
1 GAAAAGAAGAGAAA
40923782 GAATAAGAAGA
1 GAA-AAGAAGA
40923793 AAGGAAGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
12 7 0.17
13 1 0.02
14 7 0.17
15 19 0.45
16 8 0.19
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
GAAAAGAAGAGAAA
Found at i:40924831 original size:15 final size:15
Alignment explanation
Indices: 40924794--40924822 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
40924784 ATTTCCTATC
40924794 TAATAATAATAATTA
1 TAATAATAATAATTA
40924809 TAATAATAATAATT
1 TAATAATAATAATT
40924823 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:40924864 original size:25 final size:26
Alignment explanation
Indices: 40924809--40924870 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
40924799 ATAATAATTA
*
40924809 TAATAATAATAATTTTATAAATATATC
1 TAATAATAA-AAATTTATAAATATATC
* *
40924836 TAATAATAAAAATTTA-AAATATCTG
1 TAATAATAAAAATTTATAAATATATC
40924861 TAATAATAAA
1 TAATAATAAA
40924871 TACAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 17 0.53
26 6 0.19
27 9 0.28
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (26 bp):
TAATAATAAAAATTTATAAATATATC
Found at i:40930108 original size:48 final size:48
Alignment explanation
Indices: 40930037--40930303 Score: 385
Period size: 48 Copynumber: 5.6 Consensus size: 48
40930027 AAATGAGATT
*
40930037 CTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
* **
40930085 CTGTGTAAGACCATGTCTGGGACATGGCAT-GAGCGATAATATATGTTT
1 CTGTGTAAGACCATGTCTGGGACATGGCATCG-GCGATGATATATGTGC
* * * *
40930133 ATGTGTAAGACCATGTCTGGGACATGGCATTGACGATGTTATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
* *
40930181 TTGTGTAAAACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
* * *
40930229 CTGTGTAAGACTATGTCTGGGACATGGCATCGGCGATTATATATATGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
40930277 CAT-TGTAAGACCATGTCTGGGACATGG
1 C-TGTGTAAGACCATGTCTGGGACATGG
40930304 AATTTGTACT
Statistics
Matches: 195, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 192 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
Found at i:40930202 original size:96 final size:95
Alignment explanation
Indices: 40930038--40930354 Score: 376
Period size: 96 Copynumber: 3.3 Consensus size: 95
40930028 AATGAGATTC
* * *
40930038 TGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGTTATATGTGCATGTGTAAGACCATGTCT
*
40930103 GGGACATGGCATGAGCGATAATATATGTTTA
66 GGGACATGGCATGAGCGAT-ATATATGTTCA
* * * *
40930134 TGTGTAAGACCATGTCTGGGACATGGCATTGACGATGTTATATGTGCTTGTGTAAAACCATGTCT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGTTATATGTGCATGTGTAAGACCATGTCT
* *
40930199 GGGACATGGCATCG-GCGATGATATATGTGCC
66 GGGACATGGCAT-GAGCGAT-ATATATGTTCA
* *
40930230 TGTGTAAGACTATGTCTGGGACATGGCATCGGCGAT-TATATATATGCCAT-TGTAAGACCATGT
1 TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGT-TATATGTG-CATGTGTAAGACCATGT
* * *
40930293 CTGGGACATGGAATTTGTA-CTGATATGTATATTCA
64 CTGGGACATGGCA--TG-AGC-GATATATATGTTCA
40930328 --TGTAAGACCATGTCTGGGACATGGCAT
1 TGTGTAAGACCATGTCTGGGACATGGCAT
40930355 TGGTACATTA
Statistics
Matches: 191, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
95 1 0.01
96 174 0.91
97 4 0.02
98 9 0.05
99 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (95 bp):
TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGTTATATGTGCATGTGTAAGACCATGTCT
GGGACATGGCATGAGCGATATATATGTTCA
Found at i:40930298 original size:144 final size:145
Alignment explanation
Indices: 40930034--40930354 Score: 460
Period size: 144 Copynumber: 2.2 Consensus size: 145
40930024 GCTAAATGAG
*
40930034 ATTCTGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCAT
1 ATTCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCAT
** *
40930099 GTCTGGGACATGGCATGAGCGATAATATATGTTTATGTGTAAGACCATGTCTGGGACATGGCA-T
66 GTCTGGGACATGGCATGAGCGATAATATATGTCCATGTGTAAGACCATGTCTGGGACATGGAATT
*
40930163 TG-AC-GATGT-TAT
131 TGTACTGATATGTAT
*
40930175 ATGTGCTTGTGTAAAACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
1 AT-T-C-TGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
*
40930240 TATGTCTGGGACATGGCATCG-GCGATTATATATATG-CCAT-TGTAAGACCATGTCTGGGACAT
63 CATGTCTGGGACATGGCAT-GAGCGA-TA-ATATATGTCCATGTGTAAGACCATGTCTGGGACAT
40930302 GGAATTTGTACTGATATGTAT
125 GGAATTTGTACTGATATGTAT
*
40930323 ATTC-ATGTAAGACCATGTCTGGGACATGGCAT
1 ATTCTGTGTAAGACCATGTCTGGGACATGGCAT
40930355 TGGTACATTA
Statistics
Matches: 161, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
141 2 0.01
142 1 0.01
143 1 0.01
144 129 0.80
145 8 0.05
146 10 0.06
147 5 0.03
148 5 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (145 bp):
ATTCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCAT
GTCTGGGACATGGCATGAGCGATAATATATGTCCATGTGTAAGACCATGTCTGGGACATGGAATT
TGTACTGATATGTAT
Found at i:40933106 original size:40 final size:39
Alignment explanation
Indices: 40933061--40933268 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
40933051 CGGAATACAA
*
40933061 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40933101 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
40933141 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
40933181 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
40933221 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
40933261 CCGGATAT
1 CCGGATAT
40933269 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:40933201 original size:80 final size:80
Alignment explanation
Indices: 40933061--40933267 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
40933051 CGGAATACAA
* * *
40933061 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
40933125 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
40933141 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
40933205 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
40933221 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
40933268 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40940631 original size:29 final size:28
Alignment explanation
Indices: 40940561--40940635 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
40940551 ATACTCGATT
* *
40940561 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
40940589 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
40940618 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
40940636 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:40940652 original size:29 final size:29
Alignment explanation
Indices: 40940619--40940692 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
40940609 CCTTCGAGCT
40940619 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
40940648 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
40940677 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
40940693 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:40946275 original size:40 final size:39
Alignment explanation
Indices: 40946220--40946352 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 39
40946210 ATGCTAGTGA
*
40946220 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTG
*
40946260 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TA
1 TTATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTG
** * * ** *
40946299 CCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTG
40946339 TTATATCC-GGCTAA
1 TTATATCCGGGCTAA
40946353 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
39 35 0.46
40 39 0.51
41 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTG
Found at i:40954303 original size:40 final size:40
Alignment explanation
Indices: 40954248--40954415 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
40954238 TGAATGATAC
* *
40954248 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
40954288 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
40954328 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
40954368 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
40954408 CC-GGCTAA
1 CCGGGCTAA
40954416 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:40959534 original size:40 final size:40
Alignment explanation
Indices: 40959510--40959612 Score: 188
Period size: 40 Copynumber: 2.6 Consensus size: 40
40959500 TACTCACTCG
*
40959510 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
40959550 AATGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
40959590 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
40959613 TTATCATCCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:40963078 original size:13 final size:13
Alignment explanation
Indices: 40963060--40963084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40963050 CATATTTAGT
40963060 CACTGTCATATTA
1 CACTGTCATATTA
40963073 CACTGTCATATT
1 CACTGTCATATT
40963085 CTGGTCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (13 bp):
CACTGTCATATTA
Found at i:40964875 original size:16 final size:16
Alignment explanation
Indices: 40964856--40964886 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
40964846 CTTCTTCACT
40964856 TACTTACTTACTTAAA
1 TACTTACTTACTTAAA
40964872 TACTTACTTACTTAA
1 TACTTACTTACTTAA
40964887 TCAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (16 bp):
TACTTACTTACTTAAA
Found at i:40964892 original size:20 final size:20
Alignment explanation
Indices: 40964853--40964892 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
40964843 AAACTTCTTC
* *
40964853 ACTTACTTACTTACTTAAAT
1 ACTTACTTACTTAATCAAAT
40964873 ACTTACTTACTTAATCAAAT
1 ACTTACTTACTTAATCAAAT
40964893 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTTACTTAATCAAAT
Found at i:40965209 original size:53 final size:54
Alignment explanation
Indices: 40965120--40965335 Score: 267
Period size: 55 Copynumber: 4.0 Consensus size: 54
40965110 TATGTGGTAT
* * *
40965120 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * *
40965174 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * *
40965227 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
*
40965282 CCTTA-GAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
40965336 AAACCCTAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 47 0.34
54 14 0.10
55 72 0.53
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:40965280 original size:108 final size:110
Alignment explanation
Indices: 40965128--40965328 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
40965118 ATCCTTTTGA
* *
40965128 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
40965191 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
40965236 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
40965301 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
40965329 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:40976655 original size:48 final size:48
Alignment explanation
Indices: 40976599--40976903 Score: 432
Period size: 48 Copynumber: 6.4 Consensus size: 48
40976589 GGGTGTTACA
* *
40976599 ATATATGTGCCTGTGTATGACCATGAT-TGGGACATGGCATCGATGATG
1 ATATATGTGCCTGTGTAAGACCATG-TCTGGGACATGGCATCGGTGATG
* *
40976647 ATATATGTGCCTGTGTAAGACCATGTCAGGGACATGGCATTGGTGATG
1 ATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATG
*
40976695 ATATATGTGCCTGTGTGAGACCATGTCTGGGACATGGCATCGGTGATG
1 ATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATG
* * * * *
40976743 ATATATGTACCTGTGTGAGACCAAGTCTGGGACATGGCATCAGCGATG
1 ATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATG
* * *
40976791 ATATATGTGTCTGTGTAAGACTATGTCTGGGACATGGCATCGGTGATA
1 ATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATG
* * * * *
40976839 ATATATGTGCCTATGTAAAAGCATGTCTGGGACATTGCATCGGCGATG
1 ATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATG
40976887 ATATATGTGCCTGTGTA
1 ATATATGTGCCTGTGTA
40976904 TGTAACACCC
Statistics
Matches: 228, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 1 0.00
48 227 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (48 bp):
ATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATG
Found at i:40983897 original size:5 final size:5
Alignment explanation
Indices: 40983887--40983918 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
40983877 TCATGCAACT
*
40983887 TTCTA TTCTA TTTTA TTCTA TTCTA TTCTA TT
1 TTCTA TTCTA TTCTA TTCTA TTCTA TTCTA TT
40983919 TAGTCTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (5 bp):
TTCTA
Found at i:40986720 original size:40 final size:39
Alignment explanation
Indices: 40986660--40986945 Score: 249
Period size: 40 Copynumber: 7.2 Consensus size: 39
40986650 TATTCGAATG
* * *
40986660 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT
1 ATATCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTCACT
*
40986700 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTCACT
* * *
40986740 A-ATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACT
1 ATA-TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTCACT
* *
40986779 AAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTCACT
* * * *
40986819 A-ATTTCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGACTAAGTCC-GAAGGCATTTGTGCGAGTCACT
* ** *
40986858 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTCACT
* * * **
40986898 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT-AGCT
1 ATATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTCA-CT
40986938 ATATCCGG
1 ATATCCGG
40986946 TTAAATTCCA
Statistics
Matches: 211, Mismatches: 24, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 67 0.32
40 132 0.63
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
ATATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTCACT
Found at i:40986795 original size:79 final size:80
Alignment explanation
Indices: 40986663--40986924 Score: 363
Period size: 79 Copynumber: 3.3 Consensus size: 80
40986653 TCGAATGATA
* * * *
40986663 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
40986727 TGTGCGAGTTACTAAT
65 TGTGCGAGTTACTAAT
40986743 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
40986807 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * * **
40986822 TTCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATT
40986885 TGTGCGAGTTACT-AT
65 TGTGCGAGTTACTAAT
* *
40986900 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
40986925 TGAACGAGTA
Statistics
Matches: 165, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
78 3 0.02
79 134 0.81
80 28 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:40990819 original size:23 final size:22
Alignment explanation
Indices: 40990783--40990825 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
40990773 ATAATCTATA
* *
40990783 CCAAATCATGCCAAATCATAAG
1 CCAAATCATACCAAAACATAAG
40990805 CCAAAGTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
40990826 TGATTCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.28, G:0.07, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:40991653 original size:42 final size:41
Alignment explanation
Indices: 40991552--40991712 Score: 137
Period size: 43 Copynumber: 3.8 Consensus size: 41
40991542 TATGGCAACA
* * * *
40991552 TCCCAGACGTGGTCTTACATGTAATCAAATATCGAT-GGAACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATAT-GATCCG-AC-G
* *
40991595 TCCCAGACAGGGTCTTACACGAAATCAAATATGATACTGACG
1 TCCCAGACATGGTCTTACACGAAATCAAATATGAT-CCGACG
* *
40991637 TCCCAGACATGGTCTTACACGTAAACCTCAAAT-CGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAA--TCAAATATGAT-CCGACG
** *
40991681 TCCCAGATGTGGTCTTACACGAAATCACATAT
1 TCCCAGACATGGTCTTACACGAAATCAAATAT
40991713 CGGATATCCT
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
41 5 0.05
42 24 0.24
43 36 0.37
44 27 0.28
45 6 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATGATCCGACG
Found at i:40994597 original size:93 final size:93
Alignment explanation
Indices: 40994470--40994641 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
40994460 TGCCCATAAG
* **
40994470 CGAACTCGGACTCAACTCAATGAGCTCAGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
40994535 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
40994563 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTC
*
40994627 AACGAGTTCGGATGC
65 AACGAGCTCGGATGC
40994642 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:40994638 original size:46 final size:46
Alignment explanation
Indices: 40994463--40994638 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
40994453 TGTAACCTGC
*
40994463 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* * *
40994509 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
40994559 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
40994602 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
40994639 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:40998520 original size:48 final size:48
Alignment explanation
Indices: 40998456--40998581 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
40998446 CAAGGTAAAT
* * *
40998456 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
40998504 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
** *
40998552 GGATGTATATTTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
40998582 TTGTGCAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
Found at i:40998607 original size:48 final size:47
Alignment explanation
Indices: 40998467--40998610 Score: 164
Period size: 48 Copynumber: 3.0 Consensus size: 47
40998457 TATATATGTG
* * *
40998467 TGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATATGA-ATATGTATGAGATGTGTATATT
* *
40998515 TGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG-GGATGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATG-TGTATATT
* * * *
40998563 TGGTAAAGCCGAATGGCTATTGTGCAATACGTAGGAGATGTGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATGTGTATATT
40998611 GTGGCCGAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 79 0.98
49 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (47 bp):
TGGTAAAGCCGAATGGCTAATATGAATATGTATGAGATGTGTATATT
Found at i:40998808 original size:36 final size:37
Alignment explanation
Indices: 40998740--40998819 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 37
40998730 GGAAATATAT
*
40998740 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTA
*
40998777 TCCGGGTAAGACCCGATGAC-ACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTA
40998813 TCCGGGT
1 TCCGGGT
40998820 TAAAACCCCG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 21 0.51
37 20 0.49
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTA
Found at i:41001159 original size:40 final size:40
Alignment explanation
Indices: 41001052--41001445 Score: 411
Period size: 40 Copynumber: 9.9 Consensus size: 40
41001042 CGGATGATAA
* *
41001052 CCGGGCTAAGTCCCGAA-GGCAATT-GTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGGC-ATTCGTGCCAGTGA-TATA-T
* * *
41001092 TCGGGCTAAG-CCCGAA-GGCAATCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * * * *
41001130 CCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * * *
41001170 CCGGGCTAAGCCCCGAAGGGCATTCATGCCGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * * * *
41001210 CCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* *
41001250 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * * *
41001290 CCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * *
41001330 CCGGGCTAAGTCCCGAAGGGCATTCATGCCGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * * *
41001370 CCGGGCTAAATCCCGAAGGGTATTCGTGCCGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
* * *
41001410 CTGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGAT
1 CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGAT
41001446 GTGTATTCGG
Statistics
Matches: 296, Mismatches: 54, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
38 13 0.04
39 24 0.08
40 259 0.88
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGGCATTCGTGCCAGTGATATAT
Found at i:41001229 original size:80 final size:80
Alignment explanation
Indices: 41001093--41001443 Score: 499
Period size: 80 Copynumber: 4.4 Consensus size: 80
41001083 TTACTAATTT
* ** * * *
41001093 CGGGCTAAG-CCCGAA-GGCAATCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAGAGCATTCG
1 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCG
*
41001156 TGCTAGTGATGTACC
66 TGCTAGTGATGTATC
* * *
41001171 CGGGCTAAGCCCCGAAGGGCATTCATGCCGGTGTTATATCCGGGCTAAGTTCCAAAGAGCATTCG
1 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCG
41001236 TGCTAGTGATGTATC
66 TGCTAGTGATGTATC
41001251 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCG
1 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCG
41001316 TGCTAGTGATGTATC
66 TGCTAGTGATGTATC
* * * * *
41001331 CGGGCTAAGTCCCGAAGGGCATTCATGCCGGTGTTATATCCGGGCTAAATCCCGAAGGGTATTCG
1 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCG
** * *
41001396 TGCCGGTGTTATATC
66 TGCTAGTGATGTATC
* *
41001411 TGGGCTAAATCCCGAAGGGCATTCGTGCCGGTG
1 CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
41001444 ATGTGTATTC
Statistics
Matches: 247, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
78 9 0.04
79 6 0.02
80 232 0.94
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTATATCCGGGCTAAGTCCCAAAGAGCATTCG
TGCTAGTGATGTATC
Found at i:41004527 original size:37 final size:37
Alignment explanation
Indices: 41004474--41004564 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
41004464 TATAAAAGAA
41004474 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
41004511 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
41004548 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
41004565 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:41004715 original size:49 final size:49
Alignment explanation
Indices: 41004660--41004865 Score: 304
Period size: 49 Copynumber: 4.4 Consensus size: 49
41004650 TTTTACATTA
41004660 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
41004709 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
41004758 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * **
41004798 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTT
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
41004847 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
41004866 CACATATGTA
Statistics
Matches: 143, Mismatches: 5, Indels: 18
0.86 0.03 0.11
Matches are distributed among these distances:
40 37 0.26
41 1 0.01
42 1 0.01
43 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 100 0.70
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:41009113 original size:22 final size:22
Alignment explanation
Indices: 41009086--41009131 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
41009076 ACTCATCAAA
41009086 TCCATAAAAACAGCAGGTGTAT
1 TCCATAAAAACAGCAGGTGTAT
41009108 TCCATAAAAACAGCAGGTGTAT
1 TCCATAAAAACAGCAGGTGTAT
41009130 TC
1 TC
41009132 GTTAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (22 bp):
TCCATAAAAACAGCAGGTGTAT
Found at i:41015391 original size:15 final size:15
Alignment explanation
Indices: 41015371--41015439 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
41015361 GTATCTTGGG
41015371 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
41015386 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
41015401 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
41015416 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
41015431 TTTCTTTAT
1 TTTCTTTAT
41015440 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:41015440 original size:30 final size:30
Alignment explanation
Indices: 41015362--41015449 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
41015352 CATAGTATCG
* * * *
41015362 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
41015392 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
41015422 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
41015450 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:41017879 original size:46 final size:46
Alignment explanation
Indices: 41017824--41018004 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
41017814 TAGGATGGTT
41017824 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
41017870 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
41017916 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
41017963 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41018005 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:41017985 original size:93 final size:93
Alignment explanation
Indices: 41017826--41017996 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
41017816 GGATGGTTGA
* *
41017826 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41017891 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41017919 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41017984 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41017997 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41023321 original size:42 final size:42
Alignment explanation
Indices: 41023215--41023322 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
41023205 TACAATGCCA
* *** *
41023215 ACGTCCCAAACATCGTCTTACATGTAATCAAATATCGATGCC
1 ACGTCCCAAACATGGTCTTACACAAAATCAAATATCGATACC
* * *
41023257 ACTGTCCCAGACAGGGTTTTACACAAAATCAAATA-CGATACC
1 AC-GTCCCAAACATGGTCTTACACAAAATCAAATATCGATACC
41023299 GACGTCCCAAACATGGTCTTACAC
1 -ACGTCCCAAACATGGTCTTACAC
41023323 GTAAATTTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 26 0.49
43 27 0.51
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (42 bp):
ACGTCCCAAACATGGTCTTACACAAAATCAAATATCGATACC
Found at i:41026567 original size:30 final size:30
Alignment explanation
Indices: 41026531--41026631 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
41026521 GACAAGATTG
* * *
41026531 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
41026561 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
41026589 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
41026618 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41026632 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:41026643 original size:29 final size:28
Alignment explanation
Indices: 41026560--41026635 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
41026550 AAAATTGTAC
* *
41026560 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
41026588 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
41026617 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
41026636 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:41034444 original size:30 final size:30
Alignment explanation
Indices: 41034408--41034508 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
41034398 GACAAGATTG
* * *
41034408 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
41034438 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
41034466 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
41034495 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41034509 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:41034520 original size:29 final size:28
Alignment explanation
Indices: 41034437--41034512 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
41034427 AAAATTGTAC
* *
41034437 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
41034465 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
41034494 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
41034513 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:41039108 original size:47 final size:47
Alignment explanation
Indices: 41039013--41039108 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
41039003 CTGTGAATAA
* * ** *
41039013 TACCTTAATTTGGCTATGTCCCATGATATAGGTATTTTGGGAGGAGT
1 TACCTTAATTTGGCTATGGCCCATGATATAGGTACTCCGGGAGAAGT
* * * *
41039060 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTAATTTGGCTATGGCCCATGATATAGGTACTCCGGGAGAAGT
41039107 TA
1 TA
41039109 TGTAACAACC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTAATTTGGCTATGGCCCATGATATAGGTACTCCGGGAGAAGT
Found at i:41047204 original size:27 final size:27
Alignment explanation
Indices: 41047167--41047229 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
41047157 AGTAACGCAA
* *
41047167 CAAAGCTACTAATAGCTATAA-ACGTGG
1 CAAAGCCACTAATAGC-AGAATACGTGG
* *
41047194 CATAGCCACTAATATCAGAATACGTGG
1 CAAAGCCACTAATAGCAGAATACGTGG
41047221 CAAAGCCAC
1 CAAAGCCAC
41047230 CAGAACAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (27 bp):
CAAAGCCACTAATAGCAGAATACGTGG
Found at i:41059900 original size:28 final size:26
Alignment explanation
Indices: 41059844--41059956 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
41059834 AGCATGGCTG
** *
41059844 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
41059870 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
41059898 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
41059925 CCAGATCATATAATTTATGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
41059953 CCAG
1 CCAG
41059957 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.51
28 31 0.41
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:41059929 original size:55 final size:54
Alignment explanation
Indices: 41059844--41059956 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
41059834 AGCATGGCTG
* * *
41059844 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCATGGCAGAGCCA
* * * *
41059898 CCAGAACAGATATATGTGGCAGAGCCACCAGATCATATAATTTATGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCATGGCAGAGCCA
41059953 CCAG
1 CCAG
41059957 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCATGGCAGAGCCA
Found at i:41060408 original size:8 final size:8
Alignment explanation
Indices: 41060371--41060411 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
41060361 CCCAAACATA
41060371 TCGGCTTT
1 TCGGCTTT
*
41060379 TCGGCATT
1 TCGGCTTT
* *
41060387 TCTGCATT
1 TCGGCTTT
41060395 TCGGCTTT
1 TCGGCTTT
41060403 TCGGCTTT
1 TCGGCTTT
41060411 T
1 T
41060412 ACCGATCTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.05, C:0.24, G:0.22, T:0.49
Consensus pattern (8 bp):
TCGGCTTT
Found at i:41065955 original size:40 final size:39
Alignment explanation
Indices: 41065764--41065955 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 39
41065754 CAGATATAAC
* ** *
41065764 AACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGT
1 AACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGT
* * * * * *
41065804 GACTCGCACGAATGCCTTTGGGACTTAACCCGGGTTTAGT
1 AACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGT
* * *
41065844 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 AACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGT
* * * *
41065883 AACTCGC-CGAATGCCTTC-AGATCCTAGTCCGGATATAGT
1 AACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGT
* *
41065922 CACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
41065956 CATCATTCGA
Statistics
Matches: 115, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
37 1 0.01
38 7 0.06
39 39 0.34
40 63 0.55
41 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
AACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGT
Found at i:41070908 original size:28 final size:26
Alignment explanation
Indices: 41070852--41070965 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
41070842 CAGCATGGCT
* *
41070852 ACCAGAACAGATAATGTGACAAAGTC
1 ACCAGAACAGATAATGTGGCAAAGCC
41070878 ACCAGATACAGATAATCGTGGCAAAGCC
1 ACCAGA-ACAGATAAT-GTGGCAAAGCC
* *
41070906 ACCAGAACAGATCTATGTGGCAGAGCC
1 ACCAGAACAGAT-AATGTGGCAAAGCC
* *
41070933 ACCAGATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGATAA--TGTGGCAAAGCC
41070961 ACCAG
1 ACCAG
41070966 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 36 0.47
28 33 0.43
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAAAGCC
Found at i:41070938 original size:55 final size:54
Alignment explanation
Indices: 41070852--41070965 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 54
41070842 CAGCATGGCT
*
41070852 ACCAGAACAGATAATGTGACAAAGTCACCAGATACAGATAA-TCGTGGCAAAGCC
1 ACCAGAACAGATAATGTGACAAAGCCACCAGAT-CAGATAATTCGTGGCAAAGCC
* * * * *
41070906 ACCAGAACAGATCTATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCC
1 ACCAGAACAGAT-AATGTGACAAAGCCACCAGATCAGATAATTCGTGGCAAAGCC
41070961 ACCAG
1 ACCAG
41070966 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAAAGCCACCAGATCAGATAATTCGTGGCAAAGCC
Found at i:41073697 original size:15 final size:15
Alignment explanation
Indices: 41073677--41073708 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41073667 AATTTATTCT
*
41073677 AAAGAAAATAAAAGA
1 AAAGAAAAAAAAAGA
41073692 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
41073707 AA
1 AA
41073709 TCTAATATGA
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:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:41074845 original size:13 final size:13
Alignment explanation
Indices: 41074827--41074858 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
41074817 TATAAAGTGA
41074827 TTTGATATACATG
1 TTTGATATACATG
41074840 TTTGATATACATG
1 TTTGATATACATG
41074853 TTTGAT
1 TTTGAT
41074859 GATGAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (13 bp):
TTTGATATACATG
Found at i:41078002 original size:39 final size:39
Alignment explanation
Indices: 41077959--41078074 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
41077949 CAGCACGTAA
*
41077959 CCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
41077998 CCTGCAGACATGAAGTCCGGATATAATTCTCGCATATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
41078037 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATA
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATA
41078075 TATATTCACA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
Found at i:41085233 original size:39 final size:39
Alignment explanation
Indices: 41085207--41085325 Score: 202
Period size: 39 Copynumber: 3.1 Consensus size: 39
41085197 GTCCAGCACG
*
41085207 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
41085246 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
41085285 TAGCCTGCGGACCTGAAGTCTGAATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
41085324 TA
1 TA
41085326 TATATTCTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:41087065 original size:12 final size:12
Alignment explanation
Indices: 41087048--41087072 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41087038 GTATATAGGG
41087048 TGGCAAAATGGC
1 TGGCAAAATGGC
41087060 TGGCAAAATGGC
1 TGGCAAAATGGC
41087072 T
1 T
41087073 TTACAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (12 bp):
TGGCAAAATGGC
Found at i:41092322 original size:15 final size:15
Alignment explanation
Indices: 41092295--41092324 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41092285 AGGTTTTGCA
41092295 CTCTGAAATTTTTCT
1 CTCTGAAATTTTTCT
*
41092310 CTCTGATATTTTTCT
1 CTCTGAAATTTTTCT
41092325 TTCTCAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.57
Consensus pattern (15 bp):
CTCTGAAATTTTTCT
Found at i:41109224 original size:26 final size:26
Alignment explanation
Indices: 41109195--41109274 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 26
41109185 TGAAGCTACT
41109195 AATAACAG-TATCGTGGCAAAGCCACC
1 AATAACAGATAT-GTGGCAAAGCCACC
* *
41109221 AATATCAGAATATGTGGCTAAGCCACC
1 AATAACAG-ATATGTGGCAAAGCCACC
* * *
41109248 AGTGCAGCAAATATGTGGCAAAGCCAC
1 AAT--AACAGATATGTGGCAAAGCCAC
41109275 TAGTATAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 7 0.16
27 15 0.34
28 19 0.43
29 3 0.07
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
AATAACAGATATGTGGCAAAGCCACC
Found at i:41109243 original size:27 final size:27
Alignment explanation
Indices: 41109207--41109274 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
41109197 TAACAGTATC
*
41109207 GTGGCAAAGCCACCAATATCAG-AATAT
1 GTGGCAAAGCCACCAAT-GCAGAAATAT
* *
41109234 GTGGCTAAGCCACCAGTGCAGCAAATAT
1 GTGGCAAAGCCACCAATGCAG-AAATAT
41109262 GTGGCAAAGCCAC
1 GTGGCAAAGCCAC
41109275 TAGTATAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.09
27 15 0.43
28 17 0.49
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (27 bp):
GTGGCAAAGCCACCAATGCAGAAATAT
Found at i:41112593 original size:66 final size:68
Alignment explanation
Indices: 41112517--41112703 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
41112507 TAGTACCACT
*
41112517 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
41112579 CACG
65 CACG
41112583 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
41112648 ATCACG
63 ATCACG
41112654 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
41112704 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:41112628 original size:71 final size:71
Alignment explanation
Indices: 41112540--41112703 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41112530 CGATTTGTCT
41112540 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41112605 CTTTCA
66 CTTTCA
41112611 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41112676 CTTTCA
66 CTTTCA
41112682 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41112704 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41112741 original size:71 final size:70
Alignment explanation
Indices: 41112540--41112737 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
41112530 CGATTTGTCT
* * *
41112540 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
41112605 CTTTCA
65 CTTTCA
* * *
41112611 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
41112676 CTTTCA
65 CTTTCA
* *
41112682 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
41112738 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41114728 original size:42 final size:43
Alignment explanation
Indices: 41114644--41114729 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
41114634 ATCACATGTA
* *
41114644 TCGCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
* *
41114687 TCGCATCCATAATGAACT-TGACCACTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
41114729 T
1 T
41114730 ACATATATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 22 0.56
43 17 0.44
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
Found at i:41124742 original size:11 final size:11
Alignment explanation
Indices: 41124703--41124742 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
41124693 TGAAAATTGG
41124703 AAATAGAAATAA
1 AAATAG-AATAA
*
41124715 AAATAAAATAA
1 AAATAGAATAA
*
41124726 AAATAGAAGAA
1 AAATAGAATAA
41124737 AAATAG
1 AAATAG
41124743 CCATGGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (11 bp):
AAATAGAATAA
Found at i:41126518 original size:31 final size:31
Alignment explanation
Indices: 41126480--41126540 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
41126470 TTCCTGCACT
*
41126480 AAATCCAACTAAAAACAGCAAATATAGCATG
1 AAATCCAACCAAAAACAGCAAATATAGCATG
* * *
41126511 AAATCCAACCAAAAATAGTAAATGTAGCAT
1 AAATCCAACCAAAAACAGCAAATATAGCAT
41126541 AAAAAATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (31 bp):
AAATCCAACCAAAAACAGCAAATATAGCATG
Found at i:41128479 original size:22 final size:20
Alignment explanation
Indices: 41128434--41128487 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
41128424 TTACAACAAT
*
41128434 AATAGTACATATAATTTAAA
1 AATAGTACATATAATTAAAA
*
41128454 AATAGTACCATTATTATTAAAA
1 AATAGTA-CA-TATAATTAAAA
41128476 AATAGTTACATA
1 AATAG-TACATA
41128488 AATCTCTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 7 0.24
21 4 0.14
22 16 0.55
23 2 0.07
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (20 bp):
AATAGTACATATAATTAAAA
Found at i:41134493 original size:13 final size:13
Alignment explanation
Indices: 41134475--41134499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41134465 TAATGGTATA
41134475 TTGAATCCATGAT
1 TTGAATCCATGAT
41134488 TTGAATCCATGA
1 TTGAATCCATGA
41134500 AAATTTAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:41135533 original size:40 final size:40
Alignment explanation
Indices: 41135397--41135550 Score: 148
Period size: 40 Copynumber: 3.9 Consensus size: 40
41135387 GTGTGCATGA
* *
41135397 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * * *
41135437 GCTAGTAATTATATCCGGGCTAAGACCTGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
41135477 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
41135517 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
41135551 CTTGGTGCGG
Statistics
Matches: 91, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 88 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:41137034 original size:21 final size:21
Alignment explanation
Indices: 41137008--41137052 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
41136998 TAAGGTGTAT
41137008 GCCTAGCAATTGCACCTTAGC
1 GCCTAGCAATTGCACCTTAGC
*
41137029 GCCTAGCAATTGTACCTTAGC
1 GCCTAGCAATTGCACCTTAGC
41137050 GCC
1 GCC
41137053 AAATGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
GCCTAGCAATTGCACCTTAGC
Found at i:41139315 original size:14 final size:14
Alignment explanation
Indices: 41139288--41139337 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
41139278 AAACTATGGC
*
41139288 CCAT-AACCTTAAA
1 CCATAAACCTCAAA
41139301 CCATAAACCTCAAA
1 CCATAAACCTCAAA
*
41139315 CCCTAAACC-CTAAA
1 CCATAAACCTC-AAA
*
41139329 ACATAAACC
1 CCATAAACC
41139338 GTAAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 5 0.16
14 26 0.84
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (14 bp):
CCATAAACCTCAAA
Found at i:41160356 original size:36 final size:36
Alignment explanation
Indices: 41160309--41160379 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
41160299 ACGAGAAGTC
*
41160309 AGTTTTTTGAGTCATATTATATCAACATCAGGTATT
1 AGTTTTCTGAGTCATATTATATCAACATCAGGTATT
41160345 AGTTTTCTGAGTCATATTATATCAACATCAGGTAT
1 AGTTTTCTGAGTCATATTATATCAACATCAGGTAT
41160380 CCGAGTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (36 bp):
AGTTTTCTGAGTCATATTATATCAACATCAGGTATT
Found at i:41164873 original size:46 final size:46
Alignment explanation
Indices: 41164806--41164983 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
41164796 TGTAACCCGC
* *
41164806 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * *
41164852 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
41164898 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
41164945 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
41164984 CCCAAATATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:41164942 original size:93 final size:93
Alignment explanation
Indices: 41164814--41164985 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
41164804 GCCCATAAGT
* ***
41164814 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
41164879 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
41164907 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
41164972 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
41164986 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:41169416 original size:40 final size:40
Alignment explanation
Indices: 41169308--41169517 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
41169298 CGGGATTTAA
* * * * *
41169308 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
41169348 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41169388 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41169428 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41169468 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41169508 CCGGATATAT
1 CCGGATATAT
41169518 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:41177551 original size:40 final size:40
Alignment explanation
Indices: 41177443--41177652 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
41177433 CGGGATTTAA
* * * * *
41177443 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
41177483 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41177523 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41177563 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41177603 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
41177643 CCGGATATAT
1 CCGGATATAT
41177653 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:41180468 original size:40 final size:40
Alignment explanation
Indices: 41180307--41180478 Score: 184
Period size: 38 Copynumber: 4.5 Consensus size: 40
41180297 AGCACTCGTT
* * *
41180307 CAAATGCCTTCGGGACAT-AGCCCGGTTTTA-TAGCT-GCA
1 CAAATGCCTTC-GGACTTAAGCCCGGATTTAGTAACTCGCA
41180345 CAAATGCCTTCGGGACTTAA-CCCGGATTT-G-AACTCGCA
1 CAAATGCCTTC-GGACTTAAGCCCGGATTTAGTAACTCGCA
* *
41180383 C-AATGCCTTTGGGCTT-AGCCCGGA-TTAGGTAACTCGCA
1 CAAATGCCTTCGGACTTAAGCCCGGATTTA-GTAACTCGCA
*
41180421 CAAATGCCTTCGGATCTTAAGTCCGGATTTAGTAAC-CGCA
1 CAAATGCCTTCGGA-CTTAAGCCCGGATTTAGTAACTCGCA
41180461 CAAATGCCTTCGGACTTA
1 CAAATGCCTTCGGACTTA
41180479 CCAGATATGC
Statistics
Matches: 115, Mismatches: 8, Indels: 21
0.80 0.06 0.15
Matches are distributed among these distances:
35 3 0.03
36 11 0.10
37 12 0.10
38 38 0.33
39 15 0.13
40 21 0.18
41 12 0.10
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAAGCCCGGATTTAGTAACTCGCA
Found at i:41183260 original size:93 final size:93
Alignment explanation
Indices: 41183148--41183319 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41183138 GCCCATAAGT
* *
41183148 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41183213 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
41183241 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41183306 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
41183320 CAAATATCCC
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:41183315 original size:46 final size:46
Alignment explanation
Indices: 41183140--41183315 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
41183130 TGTAACCCGC
* * *
41183140 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
41183186 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
41183236 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
41183279 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41183316 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:41185742 original size:30 final size:30
Alignment explanation
Indices: 41185698--41185786 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
41185688 CAAAGATAAC
41185698 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
41185727 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
41185757 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
41185787 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:41185746 original size:15 final size:15
Alignment explanation
Indices: 41185698--41185777 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
41185688 CAAAGATAAC
*
41185698 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41185712 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
41185727 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
41185742 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
41185757 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
41185772 AAGAAA
1 AAGAAA
41185778 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:41185786 original size:15 final size:15
Alignment explanation
Indices: 41185709--41185786 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
41185699 AGAAAACCGA
41185709 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
41185724 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
41185738 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
41185753 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
41185769 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
41185784 ATA
1 ATA
41185787 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:41188853 original size:93 final size:93
Alignment explanation
Indices: 41188741--41188912 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41188731 GCCCATAAGT
* *
41188741 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41188806 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
41188834 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41188899 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
41188913 CAAATATCCC
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:41188908 original size:46 final size:46
Alignment explanation
Indices: 41188733--41188908 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
41188723 TGTAACCCGC
* * *
41188733 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
41188779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
41188829 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
41188872 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41188909 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:41191337 original size:30 final size:30
Alignment explanation
Indices: 41191293--41191381 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
41191283 CAAAGATAAC
41191293 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
41191322 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
41191352 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
41191382 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:41191341 original size:15 final size:15
Alignment explanation
Indices: 41191293--41191372 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
41191283 CAAAGATAAC
*
41191293 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41191307 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
41191322 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
41191337 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
41191352 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
41191367 AAGAAA
1 AAGAAA
41191373 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:41191381 original size:15 final size:15
Alignment explanation
Indices: 41191304--41191381 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
41191294 AGAAAACCGA
41191304 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
41191319 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
41191333 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
41191348 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
41191364 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
41191379 ATA
1 ATA
41191382 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:41194443 original size:93 final size:93
Alignment explanation
Indices: 41194331--41194502 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41194321 GCCCATAAGT
* *
41194331 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41194396 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
41194424 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41194489 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
41194503 CAAATATCCC
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:41194498 original size:46 final size:46
Alignment explanation
Indices: 41194323--41194498 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
41194313 TGTAACCCGC
* * *
41194323 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
41194369 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
41194419 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
41194462 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41194499 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:41196397 original size:20 final size:20
Alignment explanation
Indices: 41196374--41196502 Score: 204
Period size: 20 Copynumber: 6.5 Consensus size: 20
41196364 GTGGACCTAC
41196374 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
41196394 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
*
41196414 TGATGGCTTTGTGCCACTAG
1 TGATGGCTTTGTGCCACTAT
*
41196434 TGATGGCTTTGTGCCACTAG
1 TGATGGCTTTGTGCCACTAT
*
41196454 TGATGGCTTTGTGACACTAT
1 TGATGGCTTTGTGCCACTAT
* *
41196474 TGATGGCTTTGTGCCCCTAC
1 TGATGGCTTTGTGCCACTAT
*
41196494 CGATGGCTT
1 TGATGGCTT
41196503 CGAGCCGCTA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:41196513 original size:20 final size:20
Alignment explanation
Indices: 41196475--41196514 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41196465 TGACACTATT
* *
41196475 GATGGCTTTGTGCCCCTACC
1 GATGGCTTCGAGCCCCTACC
*
41196495 GATGGCTTCGAGCCGCTACC
1 GATGGCTTCGAGCCCCTACC
41196515 CATAGCTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (20 bp):
GATGGCTTCGAGCCCCTACC
Found at i:41196523 original size:60 final size:60
Alignment explanation
Indices: 41196399--41196526 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
41196389 ACTATTGATG
* ** * * *** *
41196399 GCTTTGTGCCACTATTGATGGCTTTGTGCCACTAGTGATGGCTTTGTGCCACTAGTGATG
1 GCTTTGTGACACTATTGATGGCTTTGTGCCACTACCGATGGCTTCGAGCCACTACCCATA
* *
41196459 GCTTTGTGACACTATTGATGGCTTTGTGCCCCTACCGATGGCTTCGAGCCGCTACCCATA
1 GCTTTGTGACACTATTGATGGCTTTGTGCCACTACCGATGGCTTCGAGCCACTACCCATA
41196519 GCTTTGTG
1 GCTTTGTG
41196527 CCATATACTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (60 bp):
GCTTTGTGACACTATTGATGGCTTTGTGCCACTACCGATGGCTTCGAGCCACTACCCATA
Found at i:41196590 original size:26 final size:26
Alignment explanation
Indices: 41196531--41196591 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
41196521 TTTGTGCCAT
* * **
41196531 ATACTAATACTGGCAGCTTTGCTGTG
1 ATACTATTATTGGCAGCTTTGCTACG
*
41196557 TTACTATTATTGGCAGCTTTGCTACG
1 ATACTATTATTGGCAGCTTTGCTACG
*
41196583 ATATTATTA
1 ATACTATTA
41196592 CTAGGAGCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (26 bp):
ATACTATTATTGGCAGCTTTGCTACG
Found at i:41198462 original size:43 final size:42
Alignment explanation
Indices: 41198348--41198464 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
41198338 TGTGTTATTG
* * * *
41198348 TGTAAGA-CCATGTCTGGGACGTTAGCATTGTATTTGATTTCG
1 TGTAAGACCCAT-TCTGGGACGTTGGCATCGTATTTGATTACA
* * *
41198390 TGTAAGACCCTTTCTGGGATAG-TGACATCGATATTTGATTACA
1 TGTAAGACCCATTCTGGGA-CGTTGGCATCG-TATTTGATTACA
41198433 TGTAAGACCGCATT-TGGGACGTTGGCATCGTA
1 TGTAAGACC-CATTCTGGGACGTTGGCATCGTA
41198465 CGAGCTTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
42 22 0.37
43 35 0.58
44 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTAAGACCCATTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:41214102 original size:22 final size:22
Alignment explanation
Indices: 41214074--41214124 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
41214064 TCAAAATGCT
41214074 TACACATAATAGCCTTAGACAA
1 TACACATAATAGCCTTAGACAA
41214096 TACACATAATAGCCTTAGACAA
1 TACACATAATAGCCTTAGACAA
41214118 TACACAT
1 TACACAT
41214125 TCCTGAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (22 bp):
TACACATAATAGCCTTAGACAA
Found at i:41216356 original size:39 final size:39
Alignment explanation
Indices: 41216294--41216508 Score: 283
Period size: 39 Copynumber: 5.5 Consensus size: 39
41216284 GTGTGAGATA
* * *
41216294 TATATCCG-GCTAATTTCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
41216332 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41216371 TATATCCGAGCTAAGTCCCAAAGGCATTCGTGCTGGTGT
1 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
41216410 TATACCCGGGCTAAGTCCCGAAGGCATTCGTCCTGGTGT
1 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
41216449 TATATCC-AGGCTAAGTCCCGACGGC-TTTGTGCTGGTAT
1 TATATCCGA-GCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41216487 TATATCCGGGCTTAAAGTCCCG
1 TATATCCGAGC-T-AAGTCCCG
41216509 CATGCTTTGT
Statistics
Matches: 157, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
38 27 0.17
39 122 0.78
40 8 0.05
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.30
Consensus pattern (39 bp):
TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:41221559 original size:120 final size:120
Alignment explanation
Indices: 41221329--41221570 Score: 299
Period size: 120 Copynumber: 2.0 Consensus size: 120
41221319 CGGAATACAA
* * * *
41221329 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACACGCACAAATGCCCTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
* * *
41221394 CCTTCGGGTATTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
66 CCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATACCTTCGGG-ACTTAGC
** * * *
41221449 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGCCCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACACGCACAAATGCCCTCGGGTATTAGCCCGGATATA-ACGACTAGCACAAAT
* ** * *
41221513 GCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATATCTTCGGGACTTAGC
65 GCCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATACCTTCGGGACTTAGC
41221569 CC
1 CC
41221571 CGGTATCATT
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 101 0.98
121 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (120 bp):
CCGGATATAACAACACGCACAAATGCCCTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATACCTTCGGGACTTAGC
Found at i:41221561 original size:40 final size:40
Alignment explanation
Indices: 41221329--41221538 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
41221319 CGGAATACAA
* ** * * *
41221329 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
41221369 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
41221409 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
41221449 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
41221489 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
41221529 CCGGATATAA
1 CCGGATATAA
41221539 TTACTAGCAT
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
40 155 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:41221727 original size:64 final size:64
Alignment explanation
Indices: 41221659--41221974 Score: 160
Period size: 64 Copynumber: 5.1 Consensus size: 64
41221649 GAACACAAAC
41221659 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
41221723 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
41221780 AC
63 AT
41221782 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
41221846 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
41221903 AC
63 AT
41221905 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
41221969 ATATCA
1 ATATCA
41221975 ATAATCAGTA
Statistics
Matches: 162, Mismatches: 68, Indels: 44
0.59 0.25 0.16
Matches are distributed among these distances:
58 2 0.01
59 48 0.30
60 14 0.09
61 14 0.09
62 14 0.09
63 14 0.09
64 54 0.33
65 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:41221760 original size:123 final size:123
Alignment explanation
Indices: 41221541--41222125 Score: 1062
Period size: 123 Copynumber: 4.8 Consensus size: 123
41221531 GGATATAATT
* ** * * * * * *
41221541 ACTAGCATAAATATCTTCGGGACTTAGCCCCGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
41221606 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
41221664 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
41221729 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
41221787 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
41221852 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
41221910 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
41221975 ATAATCAGTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
41222033 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
41222098 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
41222126 CACATAATTC
Statistics
Matches: 449, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 449 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:41225799 original size:2 final size:2
Alignment explanation
Indices: 41225792--41225820 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41225782 TCAGCTATGT
41225792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41225821 TGAAATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41226618 original size:38 final size:39
Alignment explanation
Indices: 41226588--41226796 Score: 281
Period size: 38 Copynumber: 5.5 Consensus size: 39
41226578 GTGTGAGATA
* *
41226588 TATATCCGGGCTAA-TTCCGAAGGCATTTGTGCT-GTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
41226625 TATATCC-GGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41226663 TATATCCGAGCTAAGTCCC-AAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41226701 TATACCCGGGCTAAGTCCCGAAGGCATTCGT-CTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
41226739 TATATCCAGGCTAAGTCCCG--GGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
41226775 TATATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
41226797 CATGCTTTGT
Statistics
Matches: 155, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
35 4 0.03
36 25 0.16
37 25 0.16
38 80 0.52
39 21 0.14
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:41233095 original size:40 final size:40
Alignment explanation
Indices: 41233051--41233176 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
41233041 TAGTGACCAC
* *
41233051 ATCCGGGCTAAGACCCGAAGGCATTCGTGGAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * **
41233091 ATCCGGGCTAATACCAGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
41233131 GTCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
41233171 ATCCGG
1 ATCCGG
41233177 TTGTATTCCG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:41236617 original size:39 final size:39
Alignment explanation
Indices: 41236574--41236779 Score: 324
Period size: 39 Copynumber: 5.3 Consensus size: 39
41236564 GTGTGAGATA
* *
41236574 TATATCCGGGCTAATTCCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41236613 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
41236652 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
41236691 TATACCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
41236730 TATATCCGGTCTAAGTCCCGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
41236768 TATATCCGGGCT
1 TATATCCGGGCT
41236780 TAAAGTCCTG
Statistics
Matches: 155, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 22 0.14
39 133 0.86
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:41240035 original size:39 final size:39
Alignment explanation
Indices: 41239984--41240113 Score: 215
Period size: 39 Copynumber: 3.3 Consensus size: 39
41239974 GTCTTTAGGC
*
41239984 CCGGATACATTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCACGTAGCCTGCGGACCTCAAGT
* *
41240023 CCGGATATATTTCTAGCACGTAGCCTGTGGACCTCAAGT
1 CCGGATATATTTCCAGCACGTAGCCTGCGGACCTCAAGT
*
41240062 TCGGATATATTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCACGTAGCCTGCGGACCTCAAGT
*
41240101 CCGGATATGTTTC
1 CCGGATATATTTC
41240114 TAAATATCAT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATATTTCCAGCACGTAGCCTGCGGACCTCAAGT
Found at i:41244854 original size:39 final size:39
Alignment explanation
Indices: 41244795--41244885 Score: 157
Period size: 39 Copynumber: 2.3 Consensus size: 39
41244785 TGTTACACTG
*
41244795 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCTGGATATAACACCAGCACGAATGCCTTCGGGACTT
41244834 AGCCTGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCTGGATATAACACCAGCACGAATGCCTTCGGGACTT
41244873 AG-CTCGGATATAA
1 AGCCT-GGATATAA
41244886 TTCTCCATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 2 0.04
39 48 0.96
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (39 bp):
AGCCTGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:41244908 original size:2 final size:2
Alignment explanation
Indices: 41244901--41244942 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
41244891 CATTATCATG
*
41244901 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
41244943 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:41251812 original size:20 final size:20
Alignment explanation
Indices: 41251787--41251833 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
41251777 AACAGGGGTC
*
41251787 ACACGCCTGTGTGGCTTGGG
1 ACACGCCTGTGTGGCTTAGG
*
41251807 ACACGCTTGTGTGGCTTAGG
1 ACACGCCTGTGTGGCTTAGG
41251827 ACACGCC
1 ACACGCC
41251834 CGTGCGGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.28, G:0.34, T:0.23
Consensus pattern (20 bp):
ACACGCCTGTGTGGCTTAGG
Found at i:41255919 original size:27 final size:27
Alignment explanation
Indices: 41255603--41255918 Score: 404
Period size: 27 Copynumber: 11.7 Consensus size: 27
41255593 TACTGAAATG
** *
41255603 CCCTCGATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
41255630 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
41255657 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
41255684 CCCT-TAGTTTACAGAATTACTATTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
* *
41255711 CCCCCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
41255738 CCC-CGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
41255764 -CCTCTGATTTACATAATTATCGTTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
*
41255791 CCCTCGACTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
41255818 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
41255845 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
41255872 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
41255899 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
41255919 TAAAATACCC
Statistics
Matches: 258, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
25 2 0.01
26 24 0.09
27 227 0.88
28 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:41255927 original size:27 final size:27
Alignment explanation
Indices: 41255628--41256064 Score: 132
Period size: 27 Copynumber: 16.2 Consensus size: 27
41255618 ATTACCGTTT
* ***
41255628 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
41255655 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
41255682 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * ***
41255709 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ****
41255736 TACCC-CGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ****
41255762 TA-CCTCTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAAAATTACCAAAA
* * ****
41255789 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ****
41255816 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
41255843 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * *****
41255870 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
41255897 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
41255924 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* **
41255951 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** *
41255978 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
41256005 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
41256032 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
41256059 TACCCT
1 TACCCT
41256065 TGACTTTCTA
Statistics
Matches: 355, Mismatches: 44, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.01
26 28 0.08
27 320 0.90
28 5 0.01
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Done.