Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 188 of 206
Found at i:57041610 original size:38 final size:38
Alignment explanation
Indices: 57041561--57041658 Score: 157
Period size: 38 Copynumber: 2.7 Consensus size: 38
57041551 AATCTTCAAG
* *
57041561 GATATGAAATCTTAGATATGATATGTAATCTTAGATGT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
57041599 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
57041637 GATATGCAAT-TTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
57041659 ATTTTGTAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
35 6 0.10
36 1 0.02
37 5 0.09
38 46 0.79
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:57041903 original size:23 final size:23
Alignment explanation
Indices: 57041859--57041903 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
57041849 TCTTATTTTG
* *
57041859 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
57041882 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
57041904 CAAATTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:57042126 original size:3 final size:3
Alignment explanation
Indices: 57042118--57042156 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
57042108 ATCTTGTATC
57042118 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57042157 GTTTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:57047430 original size:14 final size:15
Alignment explanation
Indices: 57047404--57047436 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
57047394 TCCCAAGCTA
57047404 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
57047419 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
57047433 GGAA
1 GGAA
57047437 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:57048926 original size:88 final size:88
Alignment explanation
Indices: 57048764--57049437 Score: 798
Period size: 88 Copynumber: 7.7 Consensus size: 88
57048754 AATAGATCAG
* * * * * *
57048764 TGAAGATAGAAGATCTTGCCTTCCTGTACAGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCTT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
*
57048829 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTAGGTTGCAGCGGAGCAGGT
*
57048852 TGAAAGTAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
* **
57048917 CCCTAGGTTGCAGTGGAGCAGAC
66 CCCTAGGTTGCAGCGGAGCAGGT
* * * * * *
57048940 TGAAAATAGCAGATCTTGCCTTCTTGTACCGGCAACGAAGCAGATCAAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
57049005 CCCTAGGTTGCAGCGGAGCAGGT
66 CCCTAGGTTGCAGCGGAGCAGGT
* *
57049028 TGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTACCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
**
57049093 CCCTAGGTTGCAGCGGAGCAGAC
66 CCCTAGGTTGCAGCGGAGCAGGT
* * * ** *
57049116 TGAAGATAGCAGATCTTGCCTTCTTGTAC-CAGCAATGAAGCAGATCAAAGACATCA-TCCTTGC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCAAAGACACCAGT-CTTGC
*
57049179 CTCCCTGGGTTGCAGCGGAGCAGGT
64 CTCCCTAGGTTGCAGCGGAGCAGGT
* * * *
57049204 TGAAAATAACAGATCTTGCCTTCCTATACTGACAGCCAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
* **
57049269 CCCTAGGTTGCAGTGGAGCAGAC
66 CCCTAGGTTGCAGCGGAGCAGGT
* * * ** * * *
57049292 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCGAAA-ACTTCGGCCTTGTC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-AAAGACACCAGTCTTGCC
** * *
57049356 TCCCT-GAGCAGCAGTGGAGTAGGT
65 TCCCTAG-GTTGCAGCGGAGCAGGT
* * ** * * *
57049380 TCAAAATAGCAGATCTTACCTTCCTGTACTGGGAGTGAAGCAGATCGAAGACATCAGT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGT
57049438 ATTATTGCCT
Statistics
Matches: 496, Mismatches: 83, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
87 5 0.01
88 487 0.98
89 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
CCCTAGGTTGCAGCGGAGCAGGT
Found at i:57049068 original size:176 final size:177
Alignment explanation
Indices: 57048764--57049437 Score: 989
Period size: 176 Copynumber: 3.8 Consensus size: 177
57048754 AATAGATCAG
* * * *
57048764 TGAAGATAGAAGATCTTGCCTTCCTGTACAGGCAGCGAAGCAGATCAAAGACAC-CAGCCTTGCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAACGAAGCAGATCAAAGACACTCAGCCTTGCC
* *
57048828 TCCCTGGGTTGCAGCGGAGCAGGTTGAAAGTAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
66 TCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGC
57048893 AGATCAAAGACACCAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGAC
131 AGATCAAAGACACCAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGAC
* *
57048940 TGAAAATAGCAGATCTTGCCTTCTTGTACCGGCAACGAAGCAGATCAAAGACACT-AGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAACGAAGCAGATCAAAGACACTCAGCCTTGCC
*
57049004 TCCCTAGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGC
66 TCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGC
* *
57049069 AGATCAAAGACACCAGTCTTACCTCCCTAGGTTGCAGCGGAGCAGAC
131 AGATCAAAGACACCAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGAC
* * * *
57049116 TGAAGATAGCAGATCTTGCCTTCTTGTACCAGCAATGAAGCAGATCAAAGACA-TCATCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAACGAAGCAGATCAAAGACACTCAGCCTTGCC
* * * *
57049180 TCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTATACTGACAGCCAAGC
66 TCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGC
*
57049245 AGATCGAAGACACCAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGAC
131 AGATCAAAGACACCAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGAC
* * * *
57049292 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCGAAA-AC-TTCGGCCTTGT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAACGAAGCAGATC-AAAGACACTCAGCCTTGC
* ** * * * ** *
57049355 CTCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAGCAGATCTTACCTTCCTGTACTGGGAGTGAAG
65 CTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAG
* *
57049420 CAGATCGAAGACATCAGT
130 CAGATCAAAGACACCAGT
57049438 ATTATTGCCT
Statistics
Matches: 450, Mismatches: 44, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
175 1 0.00
176 446 0.99
177 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (177 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAACGAAGCAGATCAAAGACACTCAGCCTTGCC
TCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGC
AGATCAAAGACACCAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGAC
Found at i:57050148 original size:9 final size:9
Alignment explanation
Indices: 57050114--57050163 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
57050104 TTTGTTTAAG
57050114 TTATATATAA
1 TTAT-TATAA
*
57050124 ATATTAT-A
1 TTATTATAA
57050132 TGTA-TATAA
1 T-TATTATAA
57050141 TTATTATAA
1 TTATTATAA
57050150 TTATTATAA
1 TTATTATAA
57050159 TTATT
1 TTATT
57050164 TATTCAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 6 0.17
9 26 0.74
10 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TTATTATAA
Found at i:57051226 original size:3 final size:3
Alignment explanation
Indices: 57051218--57051247 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57051208 ATGTGAGGTA
57051218 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57051248 TAAATGAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:57052931 original size:19 final size:17
Alignment explanation
Indices: 57052907--57052949 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
57052897 AATCTTCAAG
57052907 GATATGAAATCTTAGATA
1 GATATGAAATCTTAGA-A
*
57052925 TGATATGCAATCTTAGAA
1 -GATATGAAATCTTAGAA
57052943 GATATGA
1 GATATGA
57052950 TTTTGTAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (17 bp):
GATATGAAATCTTAGAA
Found at i:57052948 original size:22 final size:23
Alignment explanation
Indices: 57052920--57052964 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
57052910 ATGAAATCTT
57052920 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
57052942 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
57052965 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:57053193 original size:23 final size:23
Alignment explanation
Indices: 57053149--57053193 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
57053139 TCTTATTTTG
* *
57053149 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
57053172 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
57053194 CAAATTTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:57054947 original size:12 final size:12
Alignment explanation
Indices: 57054916--57054948 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57054906 ATGGTAATCC
*
57054916 TAATATAAATAA
1 TAATATATATAA
57054928 TAATATATATAA
1 TAATATATATAA
57054940 TAATATATA
1 TAATATATA
57054949 CAAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATATATATAA
Found at i:57055028 original size:25 final size:26
Alignment explanation
Indices: 57054998--57055046 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
57054988 TTTAAGAATA
*
57054998 GATATATAAAACAAT-TTAAATAAGT
1 GATATATAAAAAAATATTAAATAAGT
57055023 GATATATAAAAAAATATTAAATAA
1 GATATATAAAAAAATATTAAATAA
57055047 ATAGTACATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
GATATATAAAAAAATATTAAATAAGT
Found at i:57055186 original size:26 final size:26
Alignment explanation
Indices: 57055117--57055202 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
57055107 GGATAATTTA
* * ** *
57055117 AAAATAATTAATATATAAAATAATTT
1 AAAATAAATAATATACAAAGCAACTT
57055143 AAAATGAAATAATATACAAAGCAACTT
1 AAAAT-AAATAATATACAAAGCAACTT
* * *
57055170 AACATAAATAATTTACAAAGCAAGTT
1 AAAATAAATAATATACAAAGCAACTT
57055196 AAAATAA
1 AAAATAA
57055203 TCATATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 30 0.60
27 20 0.40
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAATAAATAATATACAAAGCAACTT
Found at i:57057160 original size:9 final size:9
Alignment explanation
Indices: 57057126--57057182 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
57057116 AGTAACTTTA
*
57057126 ATAATAATG
1 ATAATAAAG
57057135 ATAATAATA-
1 ATAATAA-AG
57057144 ATAATAAAG
1 ATAATAAAG
57057153 ATAATAAA-
1 ATAATAAAG
* *
57057161 ATGA-AAAC
1 ATAATAAAG
57057169 ATAATAAAG
1 ATAATAAAG
57057178 A-AATA
1 ATAATA
57057183 GAAATAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 3 0.08
8 11 0.28
9 26 0.65
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (9 bp):
ATAATAAAG
Found at i:57057977 original size:25 final size:25
Alignment explanation
Indices: 57057929--57057977 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
57057919 CATAATTCAA
* *
57057929 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATGGATTGATTATGAATATT
*
57057954 ATGAAATGTATTGATTATGAATAT
1 ATGAAATGGATTGATTATGAATAT
57057978 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATGAAATGGATTGATTATGAATATT
Found at i:57059770 original size:49 final size:50
Alignment explanation
Indices: 57059687--57059781 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 50
57059677 TCAAGAAGGG
* *
57059687 ATAAATAGTGATAAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAAGAGTGTAGACAGTGAAAGACCAAGTTTAGCAATGT
*
57059737 ATAAATAGTGAT-AATAGTGTAGACAGTGAAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAAGAGTGTAGACAGTGAAAGACCAAGTTTAGCA
57059782 TTGCATAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 30 0.71
50 12 0.29
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.25
Consensus pattern (50 bp):
ATAAATAGTGATAAAGAGTGTAGACAGTGAAAGACCAAGTTTAGCAATGT
Found at i:57064901 original size:98 final size:98
Alignment explanation
Indices: 57064782--57064976 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
57064772 TAAAATCATA
* * *
57064782 AAGGAAATTTTTCGAGTTTGGGATTATAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
57064847 AAATCTTGGATAAGCGGATGTTCTTTTAAAGTG
66 AAATCTTGGATAAGCGGATGTTCCTTTAAAGTG
* *
57064880 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGTTTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
57064945 AAATCTTGGATAAGTGGATGTTCCTTTAAAGT
66 AAATCTTGGATAAGCGGATGTTCCTTTAAAGT
57064977 TTTTCATTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGGGATTATAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGCGGATGTTCCTTTAAAGTG
Found at i:57065694 original size:105 final size:101
Alignment explanation
Indices: 57065510--57065707 Score: 263
Period size: 105 Copynumber: 1.9 Consensus size: 101
57065500 GAATTGGTAA
* * * * * *
57065510 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGTTGTGTTATGTCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCATAGCTGGGCTATGGCATTCTAA
57065575 TGAAAAGACCATAACTGGGTTATGGCACCTTGCACG
66 TGAAAAGACCATAACTGGGTTATGGCACCTTGCACG
*
57065611 TAAGACCATGGTTGGACCATGGCAGTATAG-ATACATGTGTAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATGGTTGGACCATGGCA--AT-GTATA-A-ATGTAAGACCATAGCTGGGCTATGGCAT
* *
57065675 TCTGATGATAAGACCATAACTGGGTTATGGCAC
61 TCTAATGAAAAGACCATAACTGGGTTATGGCAC
57065708 TACAAATGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
101 24 0.29
103 4 0.05
104 2 0.02
105 53 0.64
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCATAGCTGGGCTATGGCATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACCTTGCACG
Found at i:57065719 original size:105 final size:101
Alignment explanation
Indices: 57065510--57065769 Score: 260
Period size: 105 Copynumber: 2.6 Consensus size: 101
57065500 GAATTGGTAA
* * * * * *
57065510 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGTTGTGTTATGTCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCATAGCTGGGCTATGGCATTCTAA
*
57065575 TGAAAAGACCATAACTGGGTTATGGCACCTTGCACG
66 TGAAAAGACCATAACTGGGTTATGGCACCTTACACG
*
57065611 TAAGACCATGGTTGGACCATGGCAGTATAG-ATACATGTGTAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATGGTTGGACCATGGCA--AT-GTATA-A-ATGTAAGACCATAGCTGGGCTATGGCAT
* * *
57065675 TCTGATGATAAGACCATAACTGGGTTATGGCA-C-TACAAATG
61 TCTAATGAAAAGACCATAACTGGGTTATGGCACCTTAC--ACG
** * * * * *
57065716 TAAGACCATGGCAGGGCCATGGCAATGCAT--GTGTAAGACCATAGTTGGACTATG
1 TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCATAGCTGGGCTATG
57065770 ACACAAAAAG
Statistics
Matches: 135, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
99 22 0.16
101 24 0.18
102 1 0.01
103 10 0.07
104 3 0.02
105 75 0.56
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACCATAGCTGGGCTATGGCATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACCTTACACG
Found at i:57065720 original size:33 final size:32
Alignment explanation
Indices: 57065648--57065724 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
57065638 TAGATACATG
* * **
57065648 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
*
57065680 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACAAA
57065714 TGTAAGACCAT
1 TGTAAGACCAT
57065725 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.82
34 5 0.13
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:57076079 original size:76 final size:76
Alignment explanation
Indices: 57075994--57076146 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
57075984 GATGATTAAG
*
57075994 AAATTGGTTCATTTTCATATTTGTTTTTTTTTAATATGATTAATTTTAATCCCCTGATTTAATCA
1 AAATTGGTTCATTTTCATATTTGTTTTTTTTTAATATGATTAATTTTAATCCCCTGATTCAATCA
57076059 TTAATTAATCT
66 TTAATTAATCT
57076070 AAATTGGTTCATTTTCATATTTGTTTTTTTTTAATATGATTAATTTTAATCCCCTGATTCAATCA
1 AAATTGGTTCATTTTCATATTTGTTTTTTTTTAATATGATTAATTTTAATCCCCTGATTCAATCA
57076135 TTAATTAATCT
66 TTAATTAATCT
57076146 A
1 A
57076147 TGACCTTTAC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (76 bp):
AAATTGGTTCATTTTCATATTTGTTTTTTTTTAATATGATTAATTTTAATCCCCTGATTCAATCA
TTAATTAATCT
Found at i:57077619 original size:73 final size:75
Alignment explanation
Indices: 57077427--57077690 Score: 293
Period size: 73 Copynumber: 3.5 Consensus size: 75
57077417 CAACCAACTT
* * * * * *
57077427 CAAAGATTTGCGCCCAACACTAGTCAGATTAACTGACGATATTAATTGCGTGCCC-AGATTGGTC
1 CAAAGATTT-CGCCCAACGCTAGTCAGATAAACTAACGATATTAATTGCGTGCCCAACACTAGTC
57077491 GAATAAATCGA
65 GAATAAATCGA
* * * * * *
57077502 CAAATATTT-GCATCCAACGCTAGTCAAATAAACCAACGTTATTAACTGGGTGCCCAACACTAGT
1 CAAAGATTTCGC--CCAACGCTAGTCAGATAAACTAACGATATTAATTGCGTGCCCAACACTAGT
*
57077566 TGAATAAATCGA
64 CGAATAAATCGA
* * * *
57077578 CAAAGATTT-GCCC-ACGCTAGTCGGATAAACTAACGATATTAATTGTGTGCCCAGCACTAGTCA
1 CAAAGATTTCGCCCAACGCTAGTCAGATAAACTAACGATATTAATTGCGTGCCCAACACTAGTCG
57077641 AATAAATCGA
66 AATAAATCGA
* *
57077651 CAAAGATTTGCGCCCAACGCTAGTCGGATAAACTGACGAT
1 CAAAGATTT-CGCCCAACGCTAGTCAGATAAACTAACGAT
57077691 CACATACGTA
Statistics
Matches: 159, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
73 62 0.39
74 2 0.01
75 46 0.29
76 49 0.31
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (75 bp):
CAAAGATTTCGCCCAACGCTAGTCAGATAAACTAACGATATTAATTGCGTGCCCAACACTAGTCG
AATAAATCGA
Found at i:57077682 original size:36 final size:35
Alignment explanation
Indices: 57077553--57077682 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 35
57077543 TTAACTGGGT
*
57077553 GCCCAACACTAGTTGAATAAATCGACAAAGATTT-
1 GCCCAACACTAGTCGAATAAATCGACAAAGATTTG
* * * *
57077587 GCCC-ACGCTAGTCGGATAAACTAACGATATTA-ATTGTG
1 GCCCAACACTAGTCGAATAAA-T--CGACA-AAGATT-TG
* *
57077625 TGCCCAGCACTAGTCAAATAAATCGACAAAGATTTG
1 -GCCCAACACTAGTCGAATAAATCGACAAAGATTTG
* *
57077661 CGCCCAACGCTAGTCGGATAAA
1 -GCCCAACACTAGTCGAATAAA
57077683 CTGACGATCA
Statistics
Matches: 71, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
33 13 0.18
34 5 0.07
36 27 0.38
37 9 0.13
39 5 0.07
40 12 0.17
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (35 bp):
GCCCAACACTAGTCGAATAAATCGACAAAGATTTG
Found at i:57089505 original size:26 final size:28
Alignment explanation
Indices: 57089465--57089539 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 28
57089455 TAATTAGATT
*
57089465 TATTTAAAATAAAAATATTAAATT-TAA
1 TATTAAAAATAAAAATATTAAATTGTAA
**
57089492 -ATTAAAAATAAAAATAAAAAATTGTAA
1 TATTAAAAATAAAAATATTAAATTGTAA
* **
57089519 TATTAAATATTTAAATATTAA
1 TATTAAAAATAAAAATATTAA
57089540 GAAATATAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 20 0.53
27 3 0.08
28 15 0.39
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
TATTAAAAATAAAAATATTAAATTGTAA
Found at i:57089928 original size:22 final size:22
Alignment explanation
Indices: 57089902--57089948 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
57089892 AAAGTCCTTC
*
57089902 TAAAAATTATTAA-AAAAATCT
1 TAAAAATTATAAACAAAAATCT
*
57089923 TAAAAATTATAAACAAAAATTT
1 TAAAAATTATAAACAAAAATCT
57089945 TAAA
1 TAAA
57089949 GCTATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAAATTATAAACAAAAATCT
Found at i:57098320 original size:20 final size:19
Alignment explanation
Indices: 57098295--57098348 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
57098285 AAAACATTTT
**
57098295 TAAATGTGTTTTAATTTATC
1 TAAATGT-TTTTAATCAATC
57098315 TAAATGTTTTTGAATCAATC
1 TAAATGTTTTT-AATCAATC
57098335 TAAAATGTTTTTAA
1 T-AAATGTTTTTAA
57098349 GTGTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 16 0.53
21 10 0.33
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (19 bp):
TAAATGTTTTTAATCAATC
Found at i:57099102 original size:16 final size:17
Alignment explanation
Indices: 57099075--57099107 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57099065 ATAAAACATT
*
57099075 AATTAGTAATATTTATA
1 AATTAGTAATATATATA
57099092 AATTA-TAATATATATA
1 AATTAGTAATATATATA
57099108 TTATTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTAGTAATATATATA
Found at i:57099115 original size:22 final size:22
Alignment explanation
Indices: 57099083--57099163 Score: 57
Period size: 23 Copynumber: 3.9 Consensus size: 22
57099073 TTAATTAGTA
57099083 ATAT-TTA-TAAATTATAATAT
1 ATATATTATTAAATTATAATAT
*
57099103 ATATATTATTAAAATATTAATAT
1 ATATATTATTAAATTA-TAATAT
* * * *
57099126 AGATAGTTAGT-AATAAT-TTAT
1 ATATA-TTATTAAATTATAATAT
57099147 -TATATTATTAAA-TATAA
1 ATATATTATTAAATTATAA
57099164 ATAATTAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
19 6 0.13
20 9 0.20
21 6 0.13
22 7 0.16
23 13 0.29
24 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATATTATTAAATTATAATAT
Found at i:57104957 original size:30 final size:28
Alignment explanation
Indices: 57104921--57105064 Score: 98
Period size: 30 Copynumber: 4.9 Consensus size: 28
57104911 ATTATTTATT
57104921 ATTTTTTTAATTTTAAAATACTTTTATTAA
1 ATTTTTTTAATTTTAAAATA-TTTT-TTAA
*
57104951 ATTTTTTAAATTTTAAAAT-TTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTTAA
* * *
57104978 A-ATATTT--TTTTAAAATATTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTTAA
** *
57105003 ATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 ATTTT--TTTAATTTTAAAATA--TTTTTTAA
*
57105035 TTTTTATTTTAATTTTTAAAATAATTTTTT
1 -ATTT-TTTTAA-TTTTAAAAT-ATTTTTT
57105065 GGTATTTATT
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
24 9 0.10
25 8 0.09
26 4 0.05
27 5 0.06
28 5 0.06
30 28 0.32
32 15 0.17
33 12 0.14
34 2 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTTTTAATTTTAAAATATTTTTTAA
Found at i:57104975 original size:11 final size:11
Alignment explanation
Indices: 57104961--57105000 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
57104951 ATTTTTTAAA
57104961 TTTTAAAATTT
1 TTTTAAAATTT
57104972 TTTTAAAATATTT
1 TTTT-AAA-ATTT
57104985 TTTTAAAATATT
1 TTTTAAAAT-TT
57104997 TTTT
1 TTTT
57105001 TAATTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.23
12 12 0.46
13 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:57104986 original size:13 final size:13
Alignment explanation
Indices: 57104968--57105003 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
57104958 AAATTTTAAA
57104968 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
57104981 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
57104994 ATTTTTTTAA
1 ATTTTTTTAA
57105004 TTTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTTTAAAAT
Found at i:57105006 original size:43 final size:42
Alignment explanation
Indices: 57104931--57105063 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 42
57104921 ATTTTTTTAA
* * *
57104931 TTTTAAAATACTTTTATTAA-ATTTTTTAAATTTTAAAATTT
1 TTTTAAAATACTTTTTTTAATATTTTTTTAATTTTAAAATAT
57104972 TTTTAAAATA-TTTTTTTAAAATATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTT--AATATTTTTTTAATTTTAAAATAT
*
57105015 TTTTAAAATACTTTTTTTAATTTTTATTTTAATTTTTAAAATAAT
1 TTTTAAAATACTTTTTTTAATATTT-TTTTAA-TTTTAAAAT-AT
57105060 TTTT
1 TTTT
57105064 TGGTATTTAT
Statistics
Matches: 81, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
40 6 0.07
41 10 0.12
42 8 0.10
43 35 0.43
44 16 0.20
45 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (42 bp):
TTTTAAAATACTTTTTTTAATATTTTTTTAATTTTAAAATAT
Found at i:57105018 original size:11 final size:11
Alignment explanation
Indices: 57104961--57105030 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
57104951 ATTTTTTAAA
*
57104961 TTTTAAAATTT
1 TTTTAAAATAT
57104972 TTTTAAAATATTT
1 TTTTAAAATA--T
57104985 TTTTAAAATAT
1 TTTTAAAATAT
* *
57104996 TTTT---TTAA
1 TTTTAAAATAT
57105004 TTTTAAAATAT
1 TTTTAAAATAT
57105015 TTTTAAAATACT
1 TTTTAAAATA-T
57105027 TTTT
1 TTTT
57105031 TTAATTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 6 0.12
11 26 0.54
12 5 0.10
13 11 0.23
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:57105018 original size:31 final size:32
Alignment explanation
Indices: 57104972--57105038 Score: 111
Period size: 31 Copynumber: 2.1 Consensus size: 32
57104962 TTTAAAATTT
57104972 TTTTAAAATATTTTTTTAAAATA-TTTTTTTAA
1 TTTTAAAATA-TTTTTTAAAATACTTTTTTTAA
57105004 TTTTAAAATA-TTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTTAAAATACTTTTTTTAA
57105035 TTTT
1 TTTT
57105039 TATTTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 11 0.32
31 13 0.38
32 10 0.29
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTTAAAATATTTTTTAAAATACTTTTTTTAA
Found at i:57105040 original size:32 final size:31
Alignment explanation
Indices: 57104971--57105064 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 31
57104961 TTTTAAAATT
57104971 TTTTTAAAATATTTTTTTAAAATATTTTTTTAA
1 TTTTTAAAATA--TTTTTAAAATATTTTTTTAA
57105004 -TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTAAAATATTTTTAAAATA-TTTTTTTAA
*** *
57105035 TTTTTATTTTAATTTTTAAAATAATTTTTT
1 TTTTTAAAAT-ATTTTTAAAATATTTTTTT
57105065 GGTATTTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
30 11 0.20
31 9 0.17
32 22 0.41
33 12 0.22
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
TTTTTAAAATATTTTTAAAATATTTTTTTAA
Found at i:57105059 original size:12 final size:12
Alignment explanation
Indices: 57104961--57105063 Score: 55
Period size: 11 Copynumber: 9.3 Consensus size: 12
57104951 ATTTTTTAAA
*
57104961 TTTTAAAAT-TT
1 TTTTAAAATAAT
*
57104972 TTTTAAAATATTT
1 TTTTAAAATA-AT
57104985 TTTTAAAAT-AT
1 TTTTAAAATAAT
*
57104996 TTTT---TTAA-
1 TTTTAAAATAAT
57105004 TTTTAAAAT-AT
1 TTTTAAAATAAT
*
57105015 TTTTAAAATACT
1 TTTTAAAATAAT
*
57105027 TTTT---TTAAT
1 TTTTAAAATAAT
***
57105036 TTTTATTTTAAT
1 TTTTAAAATAAT
57105048 TTTTAAAATAAT
1 TTTTAAAATAAT
57105060 TTTT
1 TTTT
57105064 TGGTATTTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 21
0.71 0.09 0.21
Matches are distributed among these distances:
8 5 0.07
9 8 0.11
10 1 0.01
11 24 0.33
12 23 0.32
13 11 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:57117490 original size:16 final size:15
Alignment explanation
Indices: 57117467--57117496 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57117457 TAAGGTTATC
57117467 TAATTAAAATTTTAA
1 TAATTAAAATTTTAA
57117482 TAATATAAAATTTTA
1 TAAT-TAAAATTTTA
57117497 GAAAGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAAAATTTTAA
Found at i:57119220 original size:22 final size:22
Alignment explanation
Indices: 57119194--57119239 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
57119184 ATTAATTCAC
57119194 CACATTTTCATATAGACATTTT
1 CACATTTTCATATAGACATTTT
*
57119216 CACATTTTCATATAGACCTTTT
1 CACATTTTCATATAGACATTTT
57119238 CA
1 CA
57119240 GATGCTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.43
Consensus pattern (22 bp):
CACATTTTCATATAGACATTTT
Found at i:57136820 original size:3 final size:3
Alignment explanation
Indices: 57136812--57136843 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
57136802 TTGATTCCAT
57136812 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57136844 TAAACTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57139378 original size:20 final size:19
Alignment explanation
Indices: 57139344--57139407 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
57139334 GACATGCTTA
57139344 AAAACAATTTAACTT-ATTG
1 AAAA-AATTTAACTTGATTG
57139363 ACAAAAATTCTAACTTGATTG
1 A-AAAAATT-TAACTTGATTG
* *
57139384 AAATAATTTTAACTTGATTT
1 AAA-AAATTTAACTTGATTG
57139404 AAAA
1 AAAA
57139408 GTTGATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.15
20 24 0.62
21 9 0.23
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (19 bp):
AAAAAATTTAACTTGATTG
Found at i:57141153 original size:51 final size:51
Alignment explanation
Indices: 57141039--57141203 Score: 278
Period size: 51 Copynumber: 3.3 Consensus size: 51
57141029 CTTACGTATG
* * * *
57141039 ATCACTTGTCACTTGTCCCTGATCAAATAAGTGTAGCT-AAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
*
57141089 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTACCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
57141140 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
57141191 ATCACTTGTCACT
1 ATCACTTGTCACT
57141204 GATCAGAAAT
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 35 0.32
51 73 0.68
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
Found at i:57148305 original size:20 final size:20
Alignment explanation
Indices: 57148282--57148320 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57148272 TTCTGACATG
*
57148282 TTTA-AAAATATTTTAACTTC
1 TTTACAAAA-ATTCTAACTTC
57148302 TTTACAAAAATTCTAACTT
1 TTTACAAAAATTCTAACTT
57148321 GATTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTACAAAAATTCTAACTTC
Found at i:57168079 original size:3 final size:3
Alignment explanation
Indices: 57168071--57168139 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
57168061 TCTAGTTGTA
* *
57168071 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
57168119 TTC TTC TTC TTC TGC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
57168140 ATTTTTCTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:57169189 original size:32 final size:32
Alignment explanation
Indices: 57169148--57169214 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
57169138 GTACGCCAGG
57169148 GCACGATCAGTCATTCATTCTATGAAAACCAA
1 GCACGATCAGTCATTCATTCTATGAAAACCAA
57169180 GCACGATCAGTCATTCATTCTATGAAAACCAA
1 GCACGATCAGTCATTCATTCTATGAAAACCAA
57169212 GCA
1 GCA
57169215 GGGGCTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (32 bp):
GCACGATCAGTCATTCATTCTATGAAAACCAA
Found at i:57175124 original size:47 final size:48
Alignment explanation
Indices: 57175008--57175129 Score: 129
Period size: 51 Copynumber: 2.5 Consensus size: 48
57174998 TAAATATAAG
* *
57175008 ATTTGAATAAATAATATAAACAAATATTTATATTTATGTAAAAACACCAT
1 ATTTGAA-AAAAAAT-TAAATAAATATTTATATTTATGTAAAAACACCAT
** * *
57175058 ATCTAAATAAAAAAGATTAAATAAATATTTATATTTAT-TTAAAACATCAT
1 AT-TTGA-AAAAAA-ATTAAATAAATATTTATATTTATGTAAAAACACCAT
*
57175108 ATTTGAAAAACAATTAAATAAA
1 ATTTGAAAAAAAATTAAATAAA
57175130 CAAGATCTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
47 10 0.17
48 5 0.08
49 2 0.03
50 14 0.23
51 26 0.43
52 3 0.05
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (48 bp):
ATTTGAAAAAAAATTAAATAAATATTTATATTTATGTAAAAACACCAT
Found at i:57181513 original size:22 final size:22
Alignment explanation
Indices: 57181485--57181539 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
57181475 TACTTTATAA
*
57181485 TTAATTATTTAATTAATCTTTT
1 TTAATTATTTAACTAATCTTTT
* *
57181507 TTAATTAACTT-ACTAATGTTTT
1 TTAATT-ATTTAACTAATCTTTT
57181529 TTAATT-TTTAA
1 TTAATTATTTAA
57181540 GCCACCATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 2 0.07
21 1 0.04
22 21 0.78
23 3 0.11
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAATTATTTAACTAATCTTTT
Found at i:57182116 original size:34 final size:34
Alignment explanation
Indices: 57182073--57182140 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
57182063 AGAAACCTAA
57182073 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
1 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
57182107 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
1 GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
57182141 TTCATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (34 bp):
GCATGTAATAAACAAGTAAATGGAAAGCTCCCAC
Found at i:57183873 original size:19 final size:19
Alignment explanation
Indices: 57183845--57183884 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57183835 ATTAATTTTG
57183845 ATTAAGCAAAATTAATT-AA
1 ATTAAGC-AAATTAATTGAA
*
57183864 ATTAATCAAATTAATTGAA
1 ATTAAGCAAATTAATTGAA
57183883 AT
1 AT
57183885 AAATATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATTAAGCAAATTAATTGAA
Found at i:57191418 original size:41 final size:41
Alignment explanation
Indices: 57191361--57191462 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
57191351 GCATAGCGCT
*
57191361 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
57191402 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
57191443 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
57191463 TACTGAATCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:57199160 original size:31 final size:30
Alignment explanation
Indices: 57199125--57199184 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
57199115 GGAGGTGGGA
*
57199125 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
57199156 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
57199185 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:57206067 original size:110 final size:110
Alignment explanation
Indices: 57205874--57206097 Score: 360
Period size: 110 Copynumber: 2.0 Consensus size: 110
57205864 GAAGATAAGC
* * *
57205874 GAGTATCAACCAATTGATTAGTTAATTAGAGGCCAGGAGGTAATAATTTATTAATCGATAGCTAA
1 GAGTATCAACCAATTGATGAGTTAATTAGAGGCCAGGAGGTAATAATTGATTAATCGATAACTAA
*
57205939 TCCACTCTAAAACCCTAATCTGAAGTTAGTTACAAACCCTGAAGT
66 TCCACCCTAAAACCCTAATCTGAAGTTAGTTACAAACCCTGAAGT
* * *
57205984 GAGTATCGACTAATTGATGAGTTAATTAGAGGCC-GAGAGGTAATAATTGGTTAATCGATAACTA
1 GAGTATCAACCAATTGATGAGTTAATTAGAGGCCAG-GAGGTAATAATTGATTAATCGATAACTA
*
57206048 ATCCACCCTAAAACCCTAATCTGAAGTTATTTACAAACCCTGAAGT
65 ATCCACCCTAAAACCCTAATCTGAAGTTAGTTACAAACCCTGAAGT
57206094 GAGT
1 GAGT
57206098 TAATCTTCCT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 1 0.01
110 104 0.99
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (110 bp):
GAGTATCAACCAATTGATGAGTTAATTAGAGGCCAGGAGGTAATAATTGATTAATCGATAACTAA
TCCACCCTAAAACCCTAATCTGAAGTTAGTTACAAACCCTGAAGT
Found at i:57207739 original size:57 final size:58
Alignment explanation
Indices: 57207676--57207792 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 58
57207666 ATTTTATTCA
* * *
57207676 TTTTATTTTTATTTTGGAAAAAATCACATTCATTTCCAAATAATTC-TATTTCTCCAT
1 TTTTATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATAATTCATATTTCTCCAT
* * * ** *
57207733 TTTTATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCATATTTCTCTAT
1 TTTTATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATAATTCATATTTCTCCAT
57207791 TT
1 TT
57207793 CACCATTTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 38 0.76
58 12 0.24
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (58 bp):
TTTTATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATAATTCATATTTCTCCAT
Found at i:57208668 original size:8 final size:8
Alignment explanation
Indices: 57208657--57208693 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
57208647 ATGAGTAAAA
57208657 TATTTTAT
1 TATTTTAT
57208665 TATTTTAT
1 TATTTTAT
57208673 TATTTTAT
1 TATTTTAT
57208681 TATTTTAT
1 TATTTTAT
57208689 ATATT
1 -TATT
57208694 AAATTGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 24 0.86
9 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTTTAT
Found at i:57208828 original size:33 final size:32
Alignment explanation
Indices: 57208786--57208857 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
57208776 AAATGAGTAC
57208786 ATTTGTATTATTTATATA-TAATTAGTAAAAAGAT
1 ATTT-TATTATTTAT-TACTAATTAGT-AAAAGAT
57208820 ATTTTATTATTTATTACTAATTAGTAAAAGAT
1 ATTTTATTATTTATTACTAATTAGTAAAAGAT
57208852 -TTTTAT
1 ATTTTAT
57208858 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 9 0.24
33 18 0.49
34 4 0.11
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTATTATTTATTACTAATTAGTAAAAGAT
Found at i:57209454 original size:29 final size:29
Alignment explanation
Indices: 57209413--57209470 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
57209403 TTTTTTAGTA
57209413 GGGTTCATGTTGAATA-AATGATTGAATTAG
1 GGGTTCATGTTG-ATAGAATGATTG-ATTAG
* *
57209443 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
57209471 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:57210017 original size:18 final size:17
Alignment explanation
Indices: 57209990--57210040 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
57209980 AGTGAATGAA
*
57209990 AAAGTGAATTTGATATTG
1 AAAGTGAATTTGA-AATG
*
57210008 AAAGTAAATTTTGAAATG
1 AAAGTGAA-TTTGAAATG
57210026 AAAGTGAATTT-AAAT
1 AAAGTGAATTTGAAAT
57210041 TGAGAATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 4 0.14
17 3 0.10
18 17 0.59
19 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
AAAGTGAATTTGAAATG
Found at i:57212402 original size:75 final size:75
Alignment explanation
Indices: 57212293--57212443 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
57212283 TAAGTGAGTT
*
57212293 AGTATTTTATTATTTATTATTTCTAGTATTATCATAATGTCTTATTAAAATTGGGTTAGAAAATT
1 AGTACTTTATTATTTATTATTTCTAGTATTATCATAATGTCTTATTAAAATTGGGTTAGAAAATT
57212358 TTGACATTTA
66 TTGACATTTA
57212368 AGTACTTTATTATTTATTATTTCTAGTATTATCATAATGTCTTATTAAAATTGGGTTAGAAAATT
1 AGTACTTTATTATTTATTATTTCTAGTATTATCATAATGTCTTATTAAAATTGGGTTAGAAAATT
57212433 TTGACATTTA
66 TTGACATTTA
57212443 A
1 A
57212444 ATAGTTAATT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.50
Consensus pattern (75 bp):
AGTACTTTATTATTTATTATTTCTAGTATTATCATAATGTCTTATTAAAATTGGGTTAGAAAATT
TTGACATTTA
Found at i:57224344 original size:12 final size:12
Alignment explanation
Indices: 57224327--57224354 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57224317 AGTTTTGAGT
57224327 GAATGCTCTCAA
1 GAATGCTCTCAA
57224339 GAATGCTCTCAA
1 GAATGCTCTCAA
57224351 GAAT
1 GAAT
57224355 TCTATTACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (12 bp):
GAATGCTCTCAA
Found at i:57231110 original size:13 final size:12
Alignment explanation
Indices: 57231087--57231113 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57231077 AATCCTTAGG
57231087 TTTAGTTTTTTT
1 TTTAGTTTTTTT
57231099 TTTAGTTTTTTT
1 TTTAGTTTTTTT
57231111 TTT
1 TTT
57231114 GTAAATGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTAGTTTTTTT
Found at i:57233234 original size:61 final size:61
Alignment explanation
Indices: 57233138--57233254 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
57233128 GACAAATCAC
* * * *
57233138 ATTAATATTCAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
1 ATTAATACTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATCTCAT
* *
57233199 ATTAATACTAAATTAATAAAATACTATCTAAATAAATATTTAATTTAATTTAATAT
1 ATTAATACTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATAT
57233255 TAAATTCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (61 bp):
ATTAATACTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATCTCAT
Found at i:57235303 original size:178 final size:178
Alignment explanation
Indices: 57235004--57235363 Score: 569
Period size: 178 Copynumber: 2.0 Consensus size: 178
57234994 AATTTAAATT
* *
57235004 CTCTCTGCATGCAAATGAATTATGGTTTTCCTACATTTGAAAGCCTTCTTTTTTATATTGATATG
1 CTCTCTGCATGCAAATGAATTATGATTTTCCTACATTTGAAAGCCATCTTTTTTATATTGATATG
* * *
57235069 ATTATTATGTTTAGCTGATCGAGAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAGTGTA
66 ATTATTATGTTTAGCTAACCGAGAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAATGTA
* *
57235134 ATTGGTACCAACTTTCAGGTATTTTGCTGGTGAGTTTCTAAACTCAAA
131 ATTAGTACCAACTTTCAGGTATTTTGCTGGTGAGTTTCTAAAATCAAA
* * *
57235182 CTCTCTGTATGCAAATGAATTATGATTTTCTTACATTTGAAAGCCATCTTTTTTATCTTGATATG
1 CTCTCTGCATGCAAATGAATTATGATTTTCCTACATTTGAAAGCCATCTTTTTTATATTGATATG
* *
57235247 ATTATTATGTTTAGCTAACCGAG-AGTGATGAGGCTCAAGTGATAAGGAAAAGCTAAGTAAATGT
66 ATTATTATGTTTAGCTAACCGAGAAG-GAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAATGT
** *
57235311 AATTAGTACCGCCTTTCAGGTATTTTTCTGGTGAGTTTCTAAAATCAAA
130 AATTAGTACCAACTTTCAGGTATTTTGCTGGTGAGTTTCTAAAATCAAA
57235360 CTCT
1 CTCT
57235364 ATGTGGTTGT
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
177 2 0.01
178 164 0.99
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (178 bp):
CTCTCTGCATGCAAATGAATTATGATTTTCCTACATTTGAAAGCCATCTTTTTTATATTGATATG
ATTATTATGTTTAGCTAACCGAGAAGGAGGAGGCTCAAGTGATAAGGAAAAGCTAAGCAAATGTA
ATTAGTACCAACTTTCAGGTATTTTGCTGGTGAGTTTCTAAAATCAAA
Found at i:57237534 original size:38 final size:38
Alignment explanation
Indices: 57237483--57237558 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
57237473 TGAATCCATA
*
57237483 TGCATGACAACCCGTCGGACTTGTTCTTTGTGTTTCAT
1 TGCATGACAACCCGTCGGACTTATTCTTTGTGTTTCAT
57237521 TGCATGACAACCCGTCGGACTTATTCTTTGTGTTTCAT
1 TGCATGACAACCCGTCGGACTTATTCTTTGTGTTTCAT
57237559 GAAAAAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (38 bp):
TGCATGACAACCCGTCGGACTTATTCTTTGTGTTTCAT
Found at i:57241123 original size:17 final size:17
Alignment explanation
Indices: 57241089--57241125 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
57241079 CAAAATTAGG
57241089 TATTTTTTAATTTCTTT
1 TATTTTTTAATTTCTTT
57241106 TATTTCTTTAATTT-TTT
1 TATTT-TTTAATTTCTTT
57241123 TAT
1 TAT
57241126 ATTTATCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTAATTTCTTT
Found at i:57245206 original size:2 final size:2
Alignment explanation
Indices: 57245199--57245225 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57245189 NNNNNCTAAT
57245199 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 T
57245226 TATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57248393 original size:24 final size:22
Alignment explanation
Indices: 57248338--57248403 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
57248328 ACACAACGCA
*
57248338 TTGTGGATAAACCACCAGTAAT
1 TTGTGGATAAACCACAAGTAAT
** *
57248360 TTGTAAATAAACTACAAGTAAAAT
1 TTGTGGATAAACCACAAGT--AAT
*
57248384 TTGTGGATAAACCACCAGTA
1 TTGTGGATAAACCACAAGTA
57248404 TTTTCAGATA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 16 0.47
24 18 0.53
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (22 bp):
TTGTGGATAAACCACAAGTAAT
Found at i:57251428 original size:9 final size:9
Alignment explanation
Indices: 57251414--57251438 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57251404 AAATCTCTAT
57251414 TATTTTTTA
1 TATTTTTTA
57251423 TATTTTTTA
1 TATTTTTTA
57251432 TATTTTT
1 TATTTTT
57251439 CTATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TATTTTTTA
Found at i:57254524 original size:15 final size:16
Alignment explanation
Indices: 57254494--57254532 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
57254484 TAATAAAAAT
57254494 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
57254511 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
57254526 ATAATTT
1 ATAATTT
57254533 TTAAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:57258860 original size:29 final size:29
Alignment explanation
Indices: 57258818--57258878 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
57258808 TCATGAAGAT
57258818 GACGTCAATACTGACACATAAAACTGGAG
1 GACGTCAATACTGACACATAAAACTGGAG
57258847 GACGTCAATACTGACACATAAAACTGGAG
1 GACGTCAATACTGACACATAAAACTGGAG
57258876 GAC
1 GAC
57258879 TAACACTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (29 bp):
GACGTCAATACTGACACATAAAACTGGAG
Found at i:57259388 original size:2 final size:2
Alignment explanation
Indices: 57259381--57259406 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57259371 TGCGGTGTTG
57259381 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
57259407 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:57263961 original size:27 final size:27
Alignment explanation
Indices: 57263922--57263982 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
57263912 CATTAATGTG
* * *
57263922 TTGGCAAGCTGGGGTTCGCTAGTTTGT
1 TTGGCGAGCTGGGGTTCGCCAATTTGT
*
57263949 TTGGCGAGTTGGGGTTCGCCAATTTGT
1 TTGGCGAGCTGGGGTTCGCCAATTTGT
*
57263976 GTGGCGA
1 TTGGCGA
57263983 ACTGAGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.15, G:0.39, T:0.34
Consensus pattern (27 bp):
TTGGCGAGCTGGGGTTCGCCAATTTGT
Found at i:57266151 original size:20 final size:20
Alignment explanation
Indices: 57266126--57266165 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
57266116 TTTCTAAGTA
57266126 TATAACAATTATTGTTTTGC
1 TATAACAATTATTGTTTTGC
57266146 TATAACAATTATTGTTTTGC
1 TATAACAATTATTGTTTTGC
57266166 ATGATTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TATAACAATTATTGTTTTGC
Found at i:57267131 original size:22 final size:24
Alignment explanation
Indices: 57267095--57267141 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
57267085 CCCCTCAAAA
*
57267095 TCGAAGATCTTTATTTAATTTCTT
1 TCGAAGATCTTTATTGAATTTCTT
*
57267119 TCGAAG-T-TTTATTGAGTTTCTT
1 TCGAAGATCTTTATTGAATTTCTT
57267141 T
1 T
57267142 ATGTCTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (24 bp):
TCGAAGATCTTTATTGAATTTCTT
Found at i:57284357 original size:6 final size:6
Alignment explanation
Indices: 57284346--57284412 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
57284336 AATTTAGTCA
* * * *
57284346 TTTATT TTTA-T TGTATT TTTATT TTTATT TTTAGT TTAATT TTTGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
57284393 TTCTAATT TTT-CT TTTATT T
1 TT-T-ATT TTTATT TTTATT T
57284413 GCTTCTGGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
5 8 0.17
6 33 0.70
7 2 0.04
8 4 0.09
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:57287184 original size:22 final size:23
Alignment explanation
Indices: 57287136--57287204 Score: 59
Period size: 25 Copynumber: 2.9 Consensus size: 23
57287126 GCTACCCCTT
* *
57287136 TTTTTATTATTATTATTTTTTATA
1 TTTTTA-TATTTTTATTTTCTATA
*
57287160 -TTTTATATTTTTATTTTCCTAATT
1 TTTTTATATTTTTATTTT-CT-ATA
*
57287184 TTTTTATTTTTTTATTATTCT
1 TTTTTATATTTTTATT-TTCT
57287205 TATACTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 2 0.05
25 16 0.43
26 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATATTTTTATTTTCTATA
Found at i:57287195 original size:7 final size:7
Alignment explanation
Indices: 57287135--57287195 Score: 50
Period size: 7 Copynumber: 7.9 Consensus size: 7
57287125 AGCTACCCCT
57287135 TTTTTTA
1 TTTTTTA
57287142 TTATTATTA
1 TT-TT-TTA
57287151 TTTTTTA
1 TTTTTTA
*
57287158 TATTTTA
1 TTTTTTA
57287165 TATTTTTA
1 T-TTTTTA
*
57287173 TTTTCCTAA
1 TTTT--TTA
57287182 TTTTTTTA
1 -TTTTTTA
57287190 TTTTTT
1 TTTTTT
57287196 TATTATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 21 0.48
8 12 0.27
9 7 0.16
10 4 0.09
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:57287207 original size:9 final size:8
Alignment explanation
Indices: 57287134--57287199 Score: 55
Period size: 8 Copynumber: 8.2 Consensus size: 8
57287124 AAGCTACCCC
57287134 TTTTTTTA
1 TTTTTTTA
*
57287142 TTATTATTA
1 TT-TTTTTA
57287151 -TTTTTTA
1 TTTTTTTA
*
57287158 -TATTTTA
1 TTTTTTTA
*
57287165 TATTTTTA
1 TTTTTTTA
* *
57287173 TTTTCCTAA
1 TTTT-TTTA
57287182 TTTTTTTA
1 TTTTTTTA
57287190 TTTTTTTA
1 TTTTTTTA
57287198 TT
1 TT
57287200 ATTCTTATAC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
7 11 0.24
8 23 0.51
9 11 0.24
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTTA
Found at i:57287207 original size:17 final size:16
Alignment explanation
Indices: 57287134--57287199 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 16
57287124 AAGCTACCCC
57287134 TTTTTTTATTATTATTA
1 TTTTTTTATTATT-TTA
57287151 -TTTTTTA-TATTTTA
1 TTTTTTTATTATTTTA
* *
57287165 TATTTTTATT-TTCCTAA
1 TTTTTTTATTATT--TTA
*
57287182 TTTTTTTATTTTTTTA
1 TTTTTTTATTATTTTA
57287198 TT
1 TT
57287200 ATTCTTATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.08
15 12 0.30
16 12 0.30
17 11 0.28
18 2 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTATTATTTTA
Found at i:57295888 original size:23 final size:23
Alignment explanation
Indices: 57295862--57295928 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 23
57295852 TTTTGGGCAA
57295862 TATATTTTAAGTCATGGTAACTT
1 TATATTTTAAGTCATGGTAACTT
* *
57295885 TATA----AAATCATGATCAA---
1 TATATTTTAAGTCATGGT-AACTT
57295902 TATATTTTAAGTCATGGTAACTT
1 TATATTTTAAGTCATGGTAACTT
57295925 TATA
1 TATA
57295929 AAAACATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
17 4 0.12
19 8 0.25
20 4 0.12
21 8 0.25
23 8 0.25
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (23 bp):
TATATTTTAAGTCATGGTAACTT
Found at i:57299129 original size:14 final size:14
Alignment explanation
Indices: 57299106--57299144 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
57299096 ACAAAAAAGT
*
57299106 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
57299120 AAATCATTTTACGG
1 AAAACATTTTACAG
57299134 AAAACATTTTA
1 AAAACATTTTA
57299145 TTGCCAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:57299551 original size:23 final size:24
Alignment explanation
Indices: 57299500--57299553 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
57299490 TATTATATCA
57299500 ATATATATAATACTATAATACTGT
1 ATATATATAATACTATAATACTGT
* *
57299524 A-ATATATGATA-TATTAATAGT-T
1 ATATATATAATACTA-TAATACTGT
57299546 ATATATAT
1 ATATATAT
57299554 TTAACTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 21 0.81
24 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (24 bp):
ATATATATAATACTATAATACTGT
Found at i:57303753 original size:21 final size:21
Alignment explanation
Indices: 57303729--57303775 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
57303719 ACAAAAATTA
57303729 TAAAAA-ATAAAAATAATTTTT
1 TAAAAAGATAAAAATAA-TTTT
*
57303750 TAAAAAGTTAAAAATAATTTT
1 TAAAAAGATAAAAATAATTTT
57303771 TAAAA
1 TAAAA
57303776 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAAGATAAAAATAATTTT
Found at i:57303784 original size:19 final size:20
Alignment explanation
Indices: 57303736--57303782 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
57303726 TTATAAAAAA
57303736 TAAAAATAATTTTTTAAAAAGT
1 TAAAAATAA-TTTTT-AAAAGT
*
57303758 TAAAAATAATTTTTAAAATT
1 TAAAAATAATTTTTAAAAGT
57303778 TAAAA
1 TAAAA
57303783 TATTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATAATTTTTAAAAGT
Found at i:57303792 original size:18 final size:18
Alignment explanation
Indices: 57303760--57303808 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
57303750 TAAAAAGTTA
*
57303760 AAAATAATTTTTAAAATTT
1 AAAAT-ATTTATAAAATTT
57303779 AAAATATTTATAAAAATTT
1 AAAATATTTAT-AAAATTT
*
57303798 CAAAT-TTTATA
1 AAAATATTTATA
57303809 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATATTTATAAAATTT
Found at i:57303797 original size:19 final size:20
Alignment explanation
Indices: 57303726--57303796 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
57303716 TCAACAAAAA
*
57303726 TTATAAAAAATAAAAATAATT
1 TTATAAAAATTAAAAATAA-T
*
57303747 TTTTAAAAAGTTAAAAATAAT
1 TTATAAAAA-TTAAAAATAAT
* *
57303768 TT-TTAAAATTTAAAAT-AT
1 TTATAAAAATTAAAAATAAT
57303786 TTATAAAAATT
1 TTATAAAAATT
57303797 TCAAATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.09
19 14 0.33
20 5 0.12
21 11 0.26
22 9 0.21
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
TTATAAAAATTAAAAATAAT
Found at i:57303802 original size:19 final size:18
Alignment explanation
Indices: 57303772--57303808 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
57303762 AATAATTTTT
57303772 AAAATTTAAAATATTTATA
1 AAAATTTAAAAT-TTTATA
*
57303791 AAAATTTCAAATTTTATA
1 AAAATTTAAAATTTTATA
57303809 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTAAAATTTTATA
Found at i:57304733 original size:15 final size:15
Alignment explanation
Indices: 57304706--57304738 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
57304696 TTTAAATAAA
57304706 TTTGGTTAGTTTACAT
1 TTTGGTTAGTTTA-AT
57304722 TTTGGTTA-TTTAAT
1 TTTGGTTAGTTTAAT
57304736 TTT
1 TTT
57304739 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 4 0.24
16 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (15 bp):
TTTGGTTAGTTTAAT
Found at i:57305522 original size:18 final size:19
Alignment explanation
Indices: 57305470--57305523 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
57305460 AATTCAATAT
*
57305470 TCATACTCAATAATCAT-AA
1 TCATATTCAAT-ATCATAAA
* *
57305489 TCATATTCTATTTCATAAA
1 TCATATTCAATATCATAAA
57305508 T-ATATTCAATATCATA
1 TCATATTCAATATCATA
57305524 CTTACTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.41
Consensus pattern (19 bp):
TCATATTCAATATCATAAA
Found at i:57306810 original size:27 final size:27
Alignment explanation
Indices: 57306760--57306826 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
57306750 TCATATAGAG
*
57306760 TATGCCACCAAGGAATTCCATTCAGAA
1 TATGCCACAAAGGAATTCCATTCAGAA
* * ** *
57306787 TTTGCCACAAAGGTATTCTTTTCAGAG
1 TATGCCACAAAGGAATTCCATTCAGAA
*
57306814 TACGCCACAAAGG
1 TATGCCACAAAGG
57306827 CATTTCTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (27 bp):
TATGCCACAAAGGAATTCCATTCAGAA
Found at i:57309126 original size:2 final size:2
Alignment explanation
Indices: 57309119--57309190 Score: 103
Period size: 2 Copynumber: 37.0 Consensus size: 2
57309109 TTCCATTTAA
* * *
57309119 TC TC TC TC CC TC -C TC TC TC CC TC TC CC TC T- TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
57309159 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
57309191 ACTCATAGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
TC
Found at i:57309906 original size:17 final size:17
Alignment explanation
Indices: 57309879--57309921 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
57309869 ATTTTATGTA
*
57309879 ATTACATAACATAAATT
1 ATTAAATAACATAAATT
*
57309896 ATTTAATAACATAAATT
1 ATTAAATAACATAAATT
57309913 ATTAAATAA
1 ATTAAATAA
57309922 AAGTACCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAAATAACATAAATT
Found at i:57311161 original size:25 final size:25
Alignment explanation
Indices: 57311133--57311181 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
57311123 AACTCGAACA
* *
57311133 ATTTCACTCAATTCGATTCAATTTT
1 ATTTCACTCAACTCGACTCAATTTT
*
57311158 ATTTCACTCCACTCGACTCAATTT
1 ATTTCACTCAACTCGACTCAATTT
57311182 GGAAAAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.43
Consensus pattern (25 bp):
ATTTCACTCAACTCGACTCAATTTT
Found at i:57313406 original size:2 final size:2
Alignment explanation
Indices: 57313399--57313434 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
57313389 TAAAATGTAG
57313399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57313435 TATNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57313545 original size:2 final size:2
Alignment explanation
Indices: 57313538--57313571 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57313528 NNNNNNNNNN
57313538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57313572 TACATTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57343715 original size:20 final size:20
Alignment explanation
Indices: 57343690--57343730 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
57343680 TCAAATTTTA
57343690 TTTTTT-TTGAAAATTAACTT
1 TTTTTTCTTGAAAATT-ACTT
57343710 TTTTTTCTTGAAAATTACTT
1 TTTTTTCTTGAAAATTACTT
57343730 T
1 T
57343731 CAAGTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTTCTTGAAAATTACTT
Found at i:57354423 original size:13 final size:13
Alignment explanation
Indices: 57354383--57354417 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
57354373 TTTCATGTCA
*
57354383 TTGACAAATAATT
1 TTGAGAAATAATT
57354396 TTGAGAAATAATT
1 TTGAGAAATAATT
57354409 TTGAGAAAT
1 TTGAGAAAT
57354418 TCTTTTACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (13 bp):
TTGAGAAATAATT
Found at i:57355221 original size:13 final size:13
Alignment explanation
Indices: 57355205--57355244 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
57355195 TTTAAATCAA
57355205 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
57355218 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
57355231 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
57355244 A
1 A
57355245 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:57356772 original size:28 final size:27
Alignment explanation
Indices: 57356741--57356797 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
57356731 CGTATTCAAT
57356741 AATAGTAAT-AAAATCATATTTAAAAATA
1 AATAGTAATAAAAAT-AT-TTTAAAAATA
* *
57356769 AATATTATTAAAAATATTTTAAAAATA
1 AATAGTAATAAAAATATTTTAAAAATA
57356796 AA
1 AA
57356798 AATTTAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 12 0.46
28 9 0.35
29 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAGTAATAAAAATATTTTAAAAATA
Found at i:57358117 original size:16 final size:18
Alignment explanation
Indices: 57358086--57358120 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
57358076 TTAAAATTAG
57358086 ATATATTCATACAAAAAA
1 ATATATTCATACAAAAAA
57358104 ATAT-TTCATA-AAAAAA
1 ATATATTCATACAAAAAA
57358120 A
1 A
57358121 GTTATAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 6 0.35
18 4 0.24
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATATTCATACAAAAAA
Found at i:57368973 original size:293 final size:292
Alignment explanation
Indices: 57368412--57368998 Score: 1131
Period size: 293 Copynumber: 2.0 Consensus size: 292
57368402 GCCACAGCCC
57368412 TCTGCGCCGCTGCCTCCAGGTGCGGTGTCAGCGCGTCCACTGCCCGAGGCCTAGCCCCCTTTGCA
1 TCTGCGCCGCTGCCTCCAGGTGCGGTGTCAGCGCGTCCACTGCCCGAGGCCTAGCCCCCTTTGCA
*
57368477 CCAAAACGGAAAATTTCATCTCCGTTGACTTCGTCCAGGCCTGCGAACGAAACAAGAAAAGACGA
66 CCAAAACGGAAAATTTCATCTCCGTTGACTTCGTCCAGGCCTGCAAACGAAACAAGAAAAGACGA
57368542 AAGACAGAGAAAGGACAAAAAAAAAATAGTAACGAGAGGAAAATAAAACAGTGGTATCGTTTATT
131 AAGACAGAGAAAGGACAAAAAAAAAATAGTAACGAGAGGAAAATAAAACAGTGGTATCGTTTATT
57368607 CTCAGCTATAAAAGACCGAACCATATGTAAACTTTTTTTTGACAGAAATATACACAGAAGAGTAC
196 CTCAGCTATAAAAGACCGAACCATATGTAAACTTTTTTTTGACAGAAATATACACAGAAGAGTAC
57368672 AAAAAAAAAAAATCAAAAATTAAAAAAAGGTGA
261 -AAAAAAAAAAATCAAAAATTAAAAAAAGGTGA
57368705 TCTGCGCCGCTGCCTCCAGGTGCGGTGTCAGCGCGTCCACTGCCCGAGGCCTAGCCCCCTTTGCA
1 TCTGCGCCGCTGCCTCCAGGTGCGGTGTCAGCGCGTCCACTGCCCGAGGCCTAGCCCCCTTTGCA
57368770 CCAAAACGGAAAATTTCATCTCCGTTGACTTCGTCCAGGCCTGCAAACGAAACAAGAAAAGACGA
66 CCAAAACGGAAAATTTCATCTCCGTTGACTTCGTCCAGGCCTGCAAACGAAACAAGAAAAGACGA
57368835 AAGACAGAGAAAGGACAAAAAAAAAAAATAGTAACGAGAGGAAAATAAAACAGTGGTATCGTTTA
131 AAGACAGAGAAAGGAC--AAAAAAAAAATAGTAACGAGAGGAAAATAAAACAGTGGTATCGTTTA
57368900 TTCTCAGCTATAAAAGACCGAACCATATGTAAACTTTTTTTTGACAGAAATATACACAGAAGAGT
194 TTCTCAGCTATAAAAGACCGAACCATATGTAAACTTTTTTTTGACAGAAATATACACAGAAGAGT
57368965 AC-AAAAAAAAAATCAAAAATTAAAAAAAGGTGA
259 ACAAAAAAAAAAATCAAAAATTAAAAAAAGGTGA
57368998 T
1 T
57368999 ATTTTGGTTT
Statistics
Matches: 291, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
293 177 0.61
295 114 0.39
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (292 bp):
TCTGCGCCGCTGCCTCCAGGTGCGGTGTCAGCGCGTCCACTGCCCGAGGCCTAGCCCCCTTTGCA
CCAAAACGGAAAATTTCATCTCCGTTGACTTCGTCCAGGCCTGCAAACGAAACAAGAAAAGACGA
AAGACAGAGAAAGGACAAAAAAAAAATAGTAACGAGAGGAAAATAAAACAGTGGTATCGTTTATT
CTCAGCTATAAAAGACCGAACCATATGTAAACTTTTTTTTGACAGAAATATACACAGAAGAGTAC
AAAAAAAAAAATCAAAAATTAAAAAAAGGTGA
Found at i:57370092 original size:20 final size:18
Alignment explanation
Indices: 57370051--57370094 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
57370041 GCTTTATTAT
* *
57370051 TATTGTCATTCATTGTTG
1 TATTGTCATTCATTATTC
57370069 TATTGTCATTATCATTATTC
1 TATTGTCA-T-TCATTATTC
57370089 TATTGT
1 TATTGT
57370095 ATATATTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 13 0.59
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TATTGTCATTCATTATTC
Found at i:57371203 original size:41 final size:41
Alignment explanation
Indices: 57371146--57371254 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
57371136 TTTAACATAT
* *
57371146 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
57371187 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
57371228 TCACCGGCACGTAGCCTGCTAGACTTA
1 TCACCGGCACGTAGCCTGCTAGGCTTA
57371255 AAGTCTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:57371795 original size:2 final size:2
Alignment explanation
Indices: 57371788--57371814 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57371778 ACATTAACTA
57371788 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
57371815 CAATTCATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57385006 original size:3 final size:3
Alignment explanation
Indices: 57384998--57385072 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
57384988 GTGCTATGAT
57384998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57385046 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
57385073 CTATACAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57385366 original size:29 final size:29
Alignment explanation
Indices: 57385308--57385366 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
57385298 TTTATATTTT
* *
57385308 ATATATATACTTATACATTTTTTTTGTAA
1 ATATATATACATATACATTATTTTTGTAA
57385337 ATATATATACATATACATATATTTTT-TAA
1 ATATATATACATATACAT-TATTTTTGTAA
57385366 A
1 A
57385367 AATCTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.51
Consensus pattern (29 bp):
ATATATATACATATACATTATTTTTGTAA
Found at i:57388042 original size:26 final size:25
Alignment explanation
Indices: 57387989--57388044 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
57387979 TGAGTAACAT
* **
57387989 AAAAATAGTTTAGGTACCACTTGTG
1 AAAAAAAGTTTAGGTACCACTTAAG
*
57388014 AAAAAAAGTTTATGTACCAACTTAAG
1 AAAAAAAGTTTAGGTACC-ACTTAAG
57388040 AAAAA
1 AAAAA
57388045 TGGTATAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAAAAGTTTAGGTACCACTTAAG
Found at i:57388043 original size:25 final size:26
Alignment explanation
Indices: 57387989--57388044 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
57387979 TGAGTAACAT
**
57387989 AAAAATAGTTTAGGTACCACTTGTGA
1 AAAAATAGTTTAGGTACCACTTAAGA
*
57388015 AAAAA-AGTTTATGTACCAACTTAAGA
1 AAAAATAGTTTAGGTACC-ACTTAAGA
57388041 AAAA
1 AAAA
57388045 TGGTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (26 bp):
AAAAATAGTTTAGGTACCACTTAAGA
Found at i:57389395 original size:30 final size:30
Alignment explanation
Indices: 57389354--57389418 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
57389344 TTTTATAATT
*
57389354 TATAGTTTCTTTT-ATATTTTAAAA-AGTTTA
1 TATAATTTCTTTTAAT-TTTTAAAACA-TTTA
57389384 TATAATTTCTTTTAATTTTTAAAACATTTA
1 TATAATTTCTTTTAATTTTTAAAACATTTA
57389414 TATAA
1 TATAA
57389419 AAAATTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATAATTTCTTTTAATTTTTAAAACATTTA
Found at i:57393588 original size:127 final size:127
Alignment explanation
Indices: 57393362--57393617 Score: 512
Period size: 127 Copynumber: 2.0 Consensus size: 127
57393352 TTAACAGTAA
57393362 AGGAACAATGACACATAAGAATACAATTTAGAATGTTACATATACATGAAGATATATACAAAAAT
1 AGGAACAATGACACATAAGAATACAATTTAGAATGTTACATATACATGAAGATATATACAAAAAT
57393427 TTCAAATGCCAACAAAAACATCACAATTAATAAATATTCATTTCTTAAAGCCTACAGATCCC
66 TTCAAATGCCAACAAAAACATCACAATTAATAAATATTCATTTCTTAAAGCCTACAGATCCC
57393489 AGGAACAATGACACATAAGAATACAATTTAGAATGTTACATATACATGAAGATATATACAAAAAT
1 AGGAACAATGACACATAAGAATACAATTTAGAATGTTACATATACATGAAGATATATACAAAAAT
57393554 TTCAAATGCCAACAAAAACATCACAATTAATAAATATTCATTTCTTAAAGCCTACAGATCCC
66 TTCAAATGCCAACAAAAACATCACAATTAATAAATATTCATTTCTTAAAGCCTACAGATCCC
57393616 AG
1 AG
57393618 TACTAATCTA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (127 bp):
AGGAACAATGACACATAAGAATACAATTTAGAATGTTACATATACATGAAGATATATACAAAAAT
TTCAAATGCCAACAAAAACATCACAATTAATAAATATTCATTTCTTAAAGCCTACAGATCCC
Found at i:57394244 original size:33 final size:33
Alignment explanation
Indices: 57394202--57394274 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
57394192 TTATTAGAAA
57394202 GATTGGGAATTTGAGAAGAGAATGTATGGATTT
1 GATTGGGAATTTGAGAAGAGAATGTATGGATTT
57394235 GATTGGGAATTTGAGAAGAGAATGTATGGATTT
1 GATTGGGAATTTGAGAAGAGAATGTATGGATTT
57394268 GA-TGGGA
1 GATTGGGA
57394275 GAGAATGAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.32
Consensus pattern (33 bp):
GATTGGGAATTTGAGAAGAGAATGTATGGATTT
Found at i:57407519 original size:12 final size:12
Alignment explanation
Indices: 57407502--57407527 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57407492 CTCAAATTCC
57407502 TGACAACAGCTT
1 TGACAACAGCTT
57407514 TGACAACAGCTT
1 TGACAACAGCTT
57407526 TG
1 TG
57407528 CTAACGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (12 bp):
TGACAACAGCTT
Found at i:57409760 original size:22 final size:22
Alignment explanation
Indices: 57409732--57409803 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
57409722 CAAGAAAACC
57409732 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
57409754 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
57409776 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
57409798 CTCATG
1 CTCATG
57409804 TTTGAACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:57412472 original size:18 final size:20
Alignment explanation
Indices: 57412433--57412469 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57412423 CTTTTATATA
*
57412433 ATAATTTTTTTAATAAAAAT
1 ATAATTGTTTTAATAAAAAT
57412453 ATAATTGTTTT-ATAAAA
1 ATAATTGTTTTAATAAAA
57412470 TATTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATAATTGTTTTAATAAAAAT
Found at i:57414051 original size:18 final size:18
Alignment explanation
Indices: 57414015--57414052 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
57414005 TTATCCTCTA
*
57414015 AATTTATTTTAATTAATT
1 AATTTATTTAAATTAATT
57414033 AATTTAATTTAAATT-ATT
1 AATTT-ATTTAAATTAATT
57414051 AA
1 AA
57414053 ATTTTACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTATTTAAATTAATT
Found at i:57414055 original size:19 final size:19
Alignment explanation
Indices: 57414013--57414056 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57414003 AATTATCCTC
*
57414013 TAAATTTATTTTAATTAAT
1 TAAATTTATTTAAATTAAT
57414032 T-AATTTAATTTAAATT-AT
1 TAAATTT-ATTTAAATTAAT
57414050 TAAATTT
1 TAAATTT
57414057 TACTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATTTATTTAAATTAAT
Found at i:57417054 original size:126 final size:125
Alignment explanation
Indices: 57416835--57417260 Score: 592
Period size: 127 Copynumber: 3.4 Consensus size: 125
57416825 ATGCTTTATT
* * * *
57416835 AGAAGGATTTCTGAAGTCGCGCCCA-CGTGTAA-GCGCTTTTGCTACAGTACGTCCTGGAAAAAT
1 AGAAGAATTTGTGAAATCGCG-CCATCGTG-AACGCGCTTTTGCTACAGTAGGTCCTGGAAAAAT
*
57416898 AATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCT-TTATG
64 AATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTATT-TG
* * * *
57416960 AGTAGAATTTGTGAAATCGTGCCCTCGTGAACACGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
1 AGAAGAATTTGTGAAATCGCGCCATCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATA
* * *
57417025 ATTTCAAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGTAGGATGCTATTTG
65 ATTTCAAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAGCAAGATGCTATTTG
*
57417087 AGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCATCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
* * *
57417152 TTTCAAGTTGACGTTTCTTAGCAAATAGTAT-AAAAACACTTCTAGC-AGTATGCTATTTG
66 TTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAAG-ATGCTATTTG
* * *
57417211 AGAAGAATTTGTGAAATCGCGCCTTCGTGAACGTGCTTTTGCTATAGTAG
1 AGAAGAATTTGTGAAATCGCGCCATCGTGAACGCGCTTTTGCTACAGTAG
57417261 CATTTTTGGG
Statistics
Matches: 268, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
123 1 0.00
124 72 0.27
125 45 0.17
126 70 0.26
127 78 0.29
128 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
AGAAGAATTTGTGAAATCGCGCCATCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
TTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTATTTG
Found at i:57420470 original size:21 final size:21
Alignment explanation
Indices: 57420433--57420572 Score: 140
Period size: 21 Copynumber: 6.7 Consensus size: 21
57420423 TAAAATTATA
*
57420433 TTTAAG-TAAGGGCTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
57420453 TTTAACTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * **
57420474 TTTTATTTAAGGGTTACAGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
57420495 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* ***
57420517 TTTAATTTAAGGGTTACAATT
1 TTTAAGTTAAGGGTTAGGGTT
57420538 TTTAAGTTAAGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
*
57420558 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
57420573 TAAGGTTTGT
Statistics
Matches: 95, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
20 20 0.21
21 58 0.61
22 17 0.18
ACGTcount: A:0.26, C:0.03, G:0.27, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:57420515 original size:64 final size:63
Alignment explanation
Indices: 57420433--57420580 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 63
57420423 TAAAATTATA
* * *** * *
57420433 TTTAAG-TAAGGG-CTAGGGTTTTTAACTTAAGTGTTAGGGTTTTTTATTTAAGGGTTACAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAACTTAAGGGTTACAATTTTTAAGTTAAGGGTTACAGT
* **
57420494 TTTAAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTACAATTTTTAAGTTAAGGGTTAGGGT
1 TTT-AAGTTAAGGGTTTAGGGTTTTTAACTTAAGGGTTACAATTTTTAAGTTAAGGGTTACAGT
* *
57420558 TTTAGGTTAAGGGTTTAAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTTT
57420581 GTCAATTAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
61 3 0.04
62 3 0.04
63 24 0.33
64 42 0.58
ACGTcount: A:0.26, C:0.03, G:0.27, T:0.45
Consensus pattern (63 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAACTTAAGGGTTACAATTTTTAAGTTAAGGGTTACAGT
Found at i:57420527 original size:43 final size:42
Alignment explanation
Indices: 57420459--57420560 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
57420449 GGTTTTTAAC
* * *
57420459 TTAAGTGTTAGGGTTTTTTATTTAAGGGTTACAGTTTTAAAG
1 TTAAGGGTTAGGGTTTTTAATTTAAGGGTTACAATTTTAAAG
*
57420501 TTAAGGGTTTAGGGTTTTTAATTTAAGGGTTACAATTTTTAAG
1 TTAAGGG-TTAGGGTTTTTAATTTAAGGGTTACAATTTTAAAG
57420544 TTAAGGGTTAGGGTTTT
1 TTAAGGGTTAGGGTTTT
57420561 AGGTTAAGGG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 16 0.29
43 39 0.71
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.47
Consensus pattern (42 bp):
TTAAGGGTTAGGGTTTTTAATTTAAGGGTTACAATTTTAAAG
Found at i:57421734 original size:9 final size:9
Alignment explanation
Indices: 57421720--57421744 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57421710 CAATTCAATG
57421720 ATATAAATA
1 ATATAAATA
57421729 ATATAAATA
1 ATATAAATA
57421738 ATATAAA
1 ATATAAA
57421745 ATGTGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATATAAATA
Done.