Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 116 of 141
Found at i:37107701 original size:50 final size:50
Alignment explanation
Indices: 37107626--37107784 Score: 189
Period size: 50 Copynumber: 3.2 Consensus size: 50
37107616 AAAACGAAAC
*
37107626 AAAATAATATG-TAAA--AAACAGTTTAAAGTAAATAATATAAAAAGGTTT
1 AAAATAA-ATGATAAATGAAACAATTTAAAGTAAATAATATAAAAAGGTTT
* *
37107674 AAAATAAATGATAAATGAAACAATTTAAAGTAAATAATACAAAAAAGTTT
1 AAAATAAATGATAAATGAAACAATTTAAAGTAAATAATATAAAAAGGTTT
* * * * *
37107724 AAAATAAATAATATATGAAAAAAATTTAAAATAAATAATATAGAAAATGGTTC
1 AAAATAAATGATAAATG-AAACAATTTAAAGTAAATAATATA-AAAA-GGTTT
37107777 AAAATAAA
1 AAAATAAA
37107785 CCATATGAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
47 3 0.03
48 11 0.12
50 45 0.47
51 21 0.22
52 4 0.04
53 11 0.12
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (50 bp):
AAAATAAATGATAAATGAAACAATTTAAAGTAAATAATATAAAAAGGTTT
Found at i:37107891 original size:28 final size:27
Alignment explanation
Indices: 37107871--37107942 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
37107861 ATATATAATA
37107871 GTTTAAAATAATATAATAATATAAAAAT
1 GTTTAAAATAA-ATAATAATATAAAAAT
***
37107899 GTTTAAAATAAATAAT-ATATGAATTTT
1 GTTTAAAATAAATAATAATAT-AAAAAT
*
37107926 TTTTAAAATAAATAATA
1 GTTTAAAATAAATAATA
37107943 TACAAAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.11
27 23 0.61
28 11 0.29
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (27 bp):
GTTTAAAATAAATAATAATATAAAAAT
Found at i:37108007 original size:179 final size:179
Alignment explanation
Indices: 37107706--37108152 Score: 589
Period size: 179 Copynumber: 2.5 Consensus size: 179
37107696 ATTTAAAGTA
*
37107706 AATAATACAAAAAAGTTTAAAATAAATAATATATGAAAAAAATTTAAAATAAATAATATAGAAAA
1 AATAATACAAAAAAGTTTAAAATAAATAATATATGAAAAAAATTTAAAATAAATAATATACAAAA
* *
37107771 TGGTTCAAAATAAACCATATGAAAAAACTTATCATAAGTAAAATATAAAACAGTTCGAAAATATA
66 TGGCTCAAAATAAACCATATGAAAAAACTTATCATAAATAAAATATAAAACAGTTCGAAAATATA
* *
37107836 TATAAAGTAATTTAAAGTAAAGTAA-ATATATAATAGTTTAAAATAATAT
131 TATAAAGCAATTTAAAGTAAA-TAATACATATAATAGTTTAAAATAATAT
* * *****
37107885 AATAATATAAAAATGTTTAAAATAAATAATATATGAATTTTTTTTAAAATAAATAATATACAAAA
1 AATAATACAAAAAAGTTTAAAATAAATAATATATGAAAAAAATTTAAAATAAATAATATACAAAA
*
37107950 TGGCTCAAAATAAACCATATGAAAAAACTTATCATAAATAAAATATAAAATAGTTCGAAAATATA
66 TGGCTCAAAATAAACCATATGAAAAAACTTATCATAAATAAAATATAAAACAGTTCGAAAATATA
37108015 TATAAAGCAATTTAAAGTAAATAATACATATAATAGTTTAAAATAATAT
131 TATAAAGCAATTTAAAGTAAATAATACATATAATAGTTTAAAATAATAT
* * * * ** * * * *
37108064 -ACAAT--AAAACAGTTTGAAATGAATACCATAT-AAAACAATTTAAAATGAATAATGTATAAAA
1 AATAATACAAAAAAGTTTAAAATAAATAATATATGAAAAAAATTTAAAATAAATAATATACAAAA
* * * **
37108125 TAGTTTAAAATAATAATATATGAAAAAA
66 TGGCTCAAAATAA-ACCATATGAAAAAA
37108153 AGCTTAAAAT
Statistics
Matches: 233, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
175 32 0.14
176 32 0.14
178 7 0.03
179 162 0.70
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (179 bp):
AATAATACAAAAAAGTTTAAAATAAATAATATATGAAAAAAATTTAAAATAAATAATATACAAAA
TGGCTCAAAATAAACCATATGAAAAAACTTATCATAAATAAAATATAAAACAGTTCGAAAATATA
TATAAAGCAATTTAAAGTAAATAATACATATAATAGTTTAAAATAATAT
Found at i:37108077 original size:25 final size:24
Alignment explanation
Indices: 37108033--37108216 Score: 102
Period size: 25 Copynumber: 7.2 Consensus size: 24
37108023 AATTTAAAGT
* *
37108033 AAATAAT-AC-ATATAATAGTTTA
1 AAATAATAACAATAAAACAGTTTA
*
37108055 AAATAATATACAATAAAACAGTTTG
1 AAATAATA-ACAATAAAACAGTTTA
* *
37108080 AAATGAATACCATATAAAACAATTTA
1 AAAT-AATAACA-ATAAAACAGTTTA
** *
37108106 AAATGAATAATGTATAAAATAGTTTA
1 AAAT-AATAA-CAATAAAACAGTTTA
* * *
37108132 AAATAATAATATATGAAAAAAAGCTTA
1 AAATAATAACA-AT--AAAACAGTTTA
* *
37108159 AAATAAGTAATAATAAAATAGTTTA
1 AAATAA-TAACAATAAAACAGTTTA
* * *
37108184 AAATAAGTAATATATGAAAATATTTTA
1 AAATAA-TAACA-AT-AAAACAGTTTA
37108211 AAATAA
1 AAATAA
37108217 ATAAATAAAC
Statistics
Matches: 132, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.05
24 2 0.02
25 44 0.33
26 41 0.31
27 33 0.25
28 5 0.04
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (24 bp):
AAATAATAACAATAAAACAGTTTA
Found at i:37108212 original size:52 final size:50
Alignment explanation
Indices: 37107640--37108216 Score: 178
Period size: 51 Copynumber: 11.3 Consensus size: 50
37107630 TAATATGTAA
* * * *
37107640 AAAACAGTTTAAAGTAAATAAT-ATAAAA-AGGTTTAAAATAAATGATAAATG
1 AAAATAGTTTAAAAT-AATAATAATAAAATA-GTTTAAAAT-AATAATATATG
*
37107691 AAACA-A-TTTAAAGTAAATAATACA-AAAA-AGTTTAAAATAAATAATATATG
1 AAA-ATAGTTTAAAAT-AATAATA-ATAAAATAGTTTAAAAT-AATAATATATG
* * * * * **
37107741 AAAAAAATTTAAAATAAATAATATAGAAAATGGTTCAAAATAA-ACCATATG
1 AAAATAGTTTAAAAT-AATAATA-ATAAAATAGTTTAAAATAATAATATATG
* * * * **
37107792 AAAAAACTTATCATAAGTAA-AAT-ATAAAACAG-TTCGAA-AAT-ATATAT-
1 AAAATAGTT-T-A-AAATAATAATAATAAAATAGTTTAAAATAATAATATATG
* * * * *
37107839 AAAGTAATTTAAAGTAAAGTAA-ATATATAATAGTTTAAAATAATATAATAATATA
1 AAAATAGTTTAAAAT-AA-TAATA-ATAAAATAGTTTAAAAT-A-ATAAT-ATATG
** ** *
37107894 AAAAT-GTTTAAAATAAATAATATATGAATTTTTTTTAAAATAAATAATATA-C
1 AAAATAGTTTAAAAT-AATAATA-AT-AAAATAGTTTAAAAT-AATAATATATG
* * * ** ** *
37107946 AAAATGGCTCAAAATAA-ACCAT-ATGAAAA-AACTTATCATAAATAAAATAT-
1 AAAATAGTTTAAAATAATA--ATAAT-AAAATAGTTTAAAAT-AATAATATATG
* ** * * *
37107996 AAAATAGTTCGAAAAT-AT-AT-ATAAAGCAATTTAAAGTAAATAATACAT-
1 AAAATAGTT-TAAAATAATAATAATAAAATAGTTTAAAAT-AATAATATATG
* * * * **
37108044 ATAATAGTTTAAAATAATATACAATAAAACAGTTTGAAATGAATACCATAT-
1 AAAATAGTTTAAAATAATA-ATAATAAAATAGTTTAAAAT-AATAATATATG
* * *
37108095 AAAACAATTTAAAATGAATAATGTATAAAATAGTTTAAAATAATAATATATG
1 AAAATAGTTTAAAAT-AATAAT-AATAAAATAGTTTAAAATAATAATATATG
* *
37108147 AAAAAAAGCTTAAAATAAGTAATAATAAAATAGTTTAAAATAAGTAATATATG
1 -AAAATAGTTTAAAATAA-TAATAATAAAATAGTTTAAAATAA-TAATATATG
*
37108200 AAAATATTTTAAAATAA
1 AAAATAGTTTAAAATAA
37108217 ATAAATAAAC
Statistics
Matches: 403, Mismatches: 81, Indels: 83
0.71 0.14 0.15
Matches are distributed among these distances:
44 4 0.01
45 3 0.01
46 1 0.00
47 16 0.04
48 42 0.10
49 8 0.02
50 67 0.17
51 92 0.23
52 75 0.19
53 53 0.13
54 26 0.06
55 16 0.04
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (50 bp):
AAAATAGTTTAAAATAATAATAATAAAATAGTTTAAAATAATAATATATG
Found at i:37109967 original size:143 final size:142
Alignment explanation
Indices: 37109709--37110410 Score: 953
Period size: 143 Copynumber: 4.9 Consensus size: 142
37109699 CGCTTCACTG
* * *
37109709 CAACTTCAGAGAGAT-AGGATTGGTGGCATCAATCTGCTCCATTGCAACTTTAGGAAGATAAGAT
1 CAACTTCAG-GAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGAT
* **
37109773 CCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGTTAGGGAAATAAGATTCGCTGTCTTC
64 CCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCAAGGGAAATAAGATTCGCTGTCTTC
*
37109838 AGTCTGCTCCGCTT
129 AGTCTACTCCGCTT
*
37109852 CAACTTCAGGTAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATT
1 CAACTTCAGG-AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATC
* *
37109917 CGCCATAATTTGTAACTTTAATCTG-TCTCACTGCAACGTAAGGGAAATAAGATTCGCTGTCTTC
65 CGCCATAATTTGTAGCTTTAATCTGTTC-CACTGCAACGCAAGGGAAATAAGATTCGCTGTCTTC
*
37109981 AGTCTGCTCCG-TT
129 AGTCTACTCCGCTT
* *
37109994 GCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
1 -CAACTTCA-GGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGAT
* * *
37110059 CCACCATAATTTGTAGCTTTAATATGTTCCAATGCAACGCCAA-GGAAATAAGATTCGCTGTCTT
64 CCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACG-CAAGGGAAATAAGATTCGCTGTCTT
*
37110123 CAGTCTACTCCGCTA
128 CAGTCTACTCCGCTT
* * * * *
37110138 CAACCTCAGGCAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAAGCAGATAAGATC
1 CAACTTCAGG-AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATC
* * * * * * * * *
37110203 AGCCATAATTTGTATCTTTAATTTGTTCTACTACAACGCCAGGGAAATAAGATTTGTTGTCTTTA
65 CGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCAAGGGAAATAAGATTCGCTGTCTTCA
* *
37110268 GTGTACTCCGCTG
130 GTCTACTCCGCTT
*
37110281 CAACTTCATGGAGATAAGGCTGGTGGCTTCAATCTGCTCCATTGCAACTTTAGGAAGATAAGATC
1 CAACTTCA-GGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATC
* * * *
37110346 CGCCATAATTTTTAGCTTTAATTTGTTCCACTGCAACGCCAGGGAAATAAGATCCGCTGTCTTCA
65 CGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCAAGGGAAATAAGATTCGCTGTCTTCA
37110411 ATTTGGGTAG
Statistics
Matches: 498, Mismatches: 50, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
142 9 0.02
143 477 0.96
144 12 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (142 bp):
CAACTTCAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCC
GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCAAGGGAAATAAGATTCGCTGTCTTCAG
TCTACTCCGCTT
Found at i:37110012 original size:45 final size:44
Alignment explanation
Indices: 37109936--37110058 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
37109926 TTGTAACTTT
* * *
37109936 AATCTG-TCTCACTGCAACGTAAGGGAAATAAGATTCGCTGTCTTC
1 AATCTGCTC-CACTGCAACTTAAGGGAGATAAGATT-GCTGGCTTC
* ** * ** *
37109981 AGTCTGCTCCGTTGCAACTTTAGGGAGATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTAAGGGAGATAAGATTGCTGGCTTC
* *
37110025 AATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
1 AATCTGCTCCACTGCAACTTAAGGGAGATAAGAT
37110059 CCACCATAAT
Statistics
Matches: 60, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
44 34 0.57
45 24 0.40
46 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTAAGGGAGATAAGATTGCTGGCTTC
Found at i:37122275 original size:57 final size:57
Alignment explanation
Indices: 37122187--37122300 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
37122177 AAGAATCAAA
37122187 CGATAAATGCAGTCAAAATAGTGAGCAGCCGTACATCGAGAAGATGCCACTTTTAAT
1 CGATAAATGCAGTCAAAATAGTGAGCAGCCGTACATCGAGAAGATGCCACTTTTAAT
37122244 CGATAAATGCAGTCAAAATAGTGAGCAGCCGTACATCGAGAAGATGCCACTTTTAAT
1 CGATAAATGCAGTCAAAATAGTGAGCAGCCGTACATCGAGAAGATGCCACTTTTAAT
37122301 ATAATGATTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (57 bp):
CGATAAATGCAGTCAAAATAGTGAGCAGCCGTACATCGAGAAGATGCCACTTTTAAT
Found at i:37126696 original size:42 final size:43
Alignment explanation
Indices: 37126649--37126733 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
37126639 TTAGGTTTTT
37126649 CACAAG-AAAAAAAAAAGTTATTTTAGTAGTAAAAGTAATAAA
1 CACAAGAAAAAAAAAAAGTTATTTTAGTAGTAAAAGTAATAAA
37126691 CACAAGAAAAAAAAAAAGTTATTTTAGTAGTAAAAGTAATAAA
1 CACAAGAAAAAAAAAAAGTTATTTTAGTAGTAAAAGTAATAAA
37126734 AGAGATGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 6 0.14
43 36 0.86
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.24
Consensus pattern (43 bp):
CACAAGAAAAAAAAAAAGTTATTTTAGTAGTAAAAGTAATAAA
Found at i:37128491 original size:21 final size:21
Alignment explanation
Indices: 37128443--37128496 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
37128433 TCATATATAT
37128443 ATTTAAAATAATATTGATAAA
1 ATTTAAAATAATATTGATAAA
*
37128464 A-TTAAAA-CATATTGATAATA
1 ATTTAAAATAATATTGATAA-A
*
37128484 ATTTAAAAAAATA
1 ATTTAAAATAATA
37128497 ATGTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 7 0.25
22 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
ATTTAAAATAATATTGATAAA
Found at i:37134101 original size:18 final size:18
Alignment explanation
Indices: 37134080--37134117 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37134070 AAAGCTTTAA
37134080 CTTCCTTCAATAGCGAAG
1 CTTCCTTCAATAGCGAAG
37134098 CTTCCTTCAATAGCGAAG
1 CTTCCTTCAATAGCGAAG
37134116 CT
1 CT
37134118 AACTCCTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (18 bp):
CTTCCTTCAATAGCGAAG
Found at i:37161067 original size:20 final size:20
Alignment explanation
Indices: 37161042--37161079 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37161032 GTTTTTCTAG
37161042 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
37161062 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
37161080 TAAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:37174148 original size:6 final size:7
Alignment explanation
Indices: 37174131--37174165 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
37174121 ATTCTTAAAA
37174131 AAAAATG
1 AAAAATG
37174138 AAAAATG
1 AAAAATG
37174145 AAAAATG
1 AAAAATG
37174152 AAAAA-G
1 AAAAATG
37174158 TAAAAATG
1 -AAAAATG
37174166 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:37175781 original size:219 final size:219
Alignment explanation
Indices: 37175402--37175855 Score: 703
Period size: 219 Copynumber: 2.1 Consensus size: 219
37175392 GTGAATATAA
* * * *
37175402 CAGATCTTGTCTCCCTGAGCAATAGCGGAGCAAATCGAAGATGGTGAGTCTTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTAAGCAATAGCGGAGCAAATCGAAAATGGTGAATCTTATCTCCCTGAGAT
* *
37175467 TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTGAGATTACAGTGGAGAGGATTAAAAT
66 TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTAAGATTACAGTGGAGAAGATTAAAAT
*
37175532 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGATT
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGATT
* *
37175597 ACAGTGGAATAGACCGAAGAATTC
196 ACAATGGAATAGACCGAAAAATTC
* *
37175621 CAGATCTTATCTCCCTAAGCAATAGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTAAGCAATAGCGGAGCAAATCGAAAATGGTGAATCTTATCTCCCTGAGAT
* * * * * *
37175686 TACTGCGGAGTAGATTGAAGCTAGTAATCCTATTTCCCTAAGATTATAGTGGA-ACAGATTGAAA
66 TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTAAGATTACAGTGGAGA-AGATTAAAA
**
37175750 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCCTAAGAT
130 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGAT
*
37175815 TACAATGGAATAGACCGAAAAATTT
195 TACAATGGAATAGACCGAAAAATTC
*
37175840 TAGATCTTATCTCCCT
1 CAGATCTTATCTCCCT
37175856 GAGATTACAG
Statistics
Matches: 213, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
218 1 0.00
219 212 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (219 bp):
CAGATCTTATCTCCCTAAGCAATAGCGGAGCAAATCGAAAATGGTGAATCTTATCTCCCTGAGAT
TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTAAGATTACAGTGGAGAAGATTAAAAT
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGATT
ACAATGGAATAGACCGAAAAATTC
Found at i:37175897 original size:219 final size:219
Alignment explanation
Indices: 37175402--37175920 Score: 668
Period size: 219 Copynumber: 2.4 Consensus size: 219
37175392 GTGAATATAA
* * * * * * * *
37175402 CAGATCTTGTCTCCCTGAGCAATAGCGGAGCAAATCGAAGATGGTGAGTCTTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTAAGCAACAGCGGAGCTAATCGAAAATAGTGAATCCTATCTCCCTGAGAT
* *
37175467 TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTGAGATTACAGTGGAGAGGATTAAAAT
66 TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTAAGATTACAGTGGAGAAGATTAAAAT
*
37175532 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTGAGATT
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGATT
* *
37175597 ACAGTGGAATAGACCGAAGAATTC
196 ACAATGGAATAGACCGAAAAATTC
* * * *
37175621 CAGATCTTATCTCCCTAAGCAATAGTGGAGCTAATCGAAAATGGTGAATCTTATCTCCCTGAGAT
1 CAGATCTTATCTCCCTAAGCAACAGCGGAGCTAATCGAAAATAGTGAATCCTATCTCCCTGAGAT
* * * * * *
37175686 TACTGCGGAGTAGATTGAAGCTAGTAATCCTATTTCCCTAAGATTATAGTGGA-ACAGATTGAAA
66 TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTAAGATTACAGTGGAGA-AGATTAAAA
**
37175750 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCCTAAGAT
130 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGAT
*
37175815 TACAATGGAATAGACCGAAAAATTT
195 TACAATGGAATAGACCGAAAAATTC
* * * * **
37175840 TAGATCTTATCTCCCTGAG-ATTACAGCGGGGC-AGATTGAAGCTAGT-AATCCTATCTCCCTGA
1 CAGATCTTATCTCCCTAAGCA--ACAGCGGAGCTA-ATCGAAAATAGTGAATCCTATCTCCCTGA
* *
37175902 GATTACAGTGGAGCAGATT
63 GATTACAGCGGAGTAGATT
37175921 AAAATAAAGG
Statistics
Matches: 263, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
218 2 0.01
219 246 0.94
220 15 0.06
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (219 bp):
CAGATCTTATCTCCCTAAGCAACAGCGGAGCTAATCGAAAATAGTGAATCCTATCTCCCTGAGAT
TACAGCGGAGTAGATTGAAGCCAATAATCCTAATTCCCTAAGATTACAGTGGAGAAGATTAAAAT
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGATT
ACAATGGAATAGACCGAAAAATTC
Found at i:37175981 original size:173 final size:175
Alignment explanation
Indices: 37175668--37176023 Score: 536
Period size: 175 Copynumber: 2.0 Consensus size: 175
37175658 AAAATGGTGA
* * * *
37175668 ATCTTATCTCCCTGAGATTACTGCGGAGTAGATTGAAGCTAGTAATCCTATTTCCCTAAGATTAT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTAC
* * * *
37175733 AGTGGAACAGATTGAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGG
66 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCATCAGG
*
37175798 TCTTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTTAG
131 TCTTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTCAG
* *
37175843 ATCTTATCTCCCTGAGATTACAGCGGGGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTAC
* * *
37175908 AGTGGAGCAGATTAAAATAAAGGATC-T-TCTCTCTGAAGTTACGGTAAAGCAGATCGTATCAGG
66 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCATCAGG
* * *
37175971 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
131 TCTTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTCAG
*
37176016 ACCTTATC
1 ATCTTATC
37176024 CCACAGATAA
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 79 0.48
174 1 0.01
175 83 0.51
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTAC
AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCATCAGG
TCTTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTCAG
Found at i:37176049 original size:173 final size:175
Alignment explanation
Indices: 37175670--37176054 Score: 497
Period size: 173 Copynumber: 2.2 Consensus size: 175
37175660 AATGGTGAAT
* * * * * *
37175670 CTTATCTCCCTGAGATTACTGCGGAGTAGATTGAAGCTAGTAATCCTATTTCCCTAAGATTATAG
1 CTTATCTCCCAGAGAATACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAG
* * * *
37175735 TGGAACAGATTGAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAGGTC
66 TGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCATCAGGTC
* *
37175800 TTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTTAGAT
131 TTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTCAGAC
* * * *
37175845 CTTATCTCCCTGAGATTACAGCGGGGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 CTTATCTCCCAGAGAATACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAG
* * *
37175910 TGGAGCAGATTAAAATAAAGGATC-T-TCTCTCTGAAGTTACGGTAAAGCAGATCGTATCAGGTC
66 TGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCATCAGGTC
* * *
37175973 TTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGAC
131 TTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTCAGAC
* ** * *
37176018 CTTATC-CCACAGATAATGTAGTGGAGCAGATTAAAGC
1 CTTATCTCC-CAGAGAATACAGCGGAGCAGATTGAAGC
37176055 CACAACGGCG
Statistics
Matches: 183, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
172 2 0.01
173 99 0.54
174 1 0.01
175 81 0.44
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
CTTATCTCCCAGAGAATACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAG
TGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCATCAGGTC
TTATCTCCCTAAGATTACAATGGAATAGACCGAAAAATTTCAGAC
Found at i:37176937 original size:14 final size:15
Alignment explanation
Indices: 37176913--37176951 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37176903 GATTGCTTTT
37176913 CTTTTTT-TTCTTC-
1 CTTTTTTGTTCTTCG
37176926 CTTTTTTGTTCTTCG
1 CTTTTTTGTTCTTCG
*
37176941 CTCTTTTGTTC
1 CTTTTTTGTTC
37176952 CCTATTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
15 10 0.43
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.69
Consensus pattern (15 bp):
CTTTTTTGTTCTTCG
Found at i:37184014 original size:20 final size:19
Alignment explanation
Indices: 37183985--37184033 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
37183975 TCCACTAGCC
*
37183985 TTATTGATATTGTAATTAT
1 TTATTTATATTGTAATTAT
* *
37184004 GTTATTTATATTTTATTTAT
1 -TTATTTATATTGTAATTAT
*
37184024 CTATTTATAT
1 TTATTTATAT
37184034 ATATATGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (19 bp):
TTATTTATATTGTAATTAT
Found at i:37207163 original size:23 final size:22
Alignment explanation
Indices: 37207137--37207251 Score: 72
Period size: 23 Copynumber: 4.9 Consensus size: 22
37207127 TTTATTAGCG
*
37207137 TTAAATTTCATTATGTATTATTT
1 TTAAATTT-ATTATGTATTATTC
*
37207160 TTAAATTTCAATATAT-TATTAACATC
1 TTAAATTT--AT-TATGTATT-A-TTC
*
37207186 ATAAATTT-TTATGTATTATTAGC
1 TTAAATTTATTATGTATTATT--C
** * *
37207209 TTAGCTTTATTATATATTTATTT
1 TTAAATTTATTATGTA-TTATTC
37207232 TTAAATTTATTATGTATTAT
1 TTAAATTTATTATGTATTAT
37207252 CATTTCAGAT
Statistics
Matches: 70, Mismatches: 13, Indels: 19
0.69 0.13 0.19
Matches are distributed among these distances:
21 1 0.01
22 8 0.11
23 32 0.46
24 12 0.17
25 9 0.13
26 8 0.11
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATTTATTATGTATTATTC
Found at i:37210323 original size:9 final size:10
Alignment explanation
Indices: 37210276--37210344 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
37210266 AAATAAGAGC
*
37210276 TCATTTCTCA
1 TCATCTCTCA
*
37210286 TCATCCCTCA
1 TCATCTCTCA
*
37210296 TCCCTCATCTCA
1 T-CATC-TCTCA
37210308 TCATCTCTCA
1 TCATCTCTCA
37210318 -CATCTCTCA
1 TCATCTCTCA
*
37210327 TCCTCTCTC-
1 TCATCTCTCA
*
37210336 TCAACTCTC
1 TCATCTCTC
37210345 TTAGCTCTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 16 0.33
10 21 0.44
11 6 0.12
12 5 0.10
ACGTcount: A:0.17, C:0.45, G:0.00, T:0.38
Consensus pattern (10 bp):
TCATCTCTCA
Found at i:37210343 original size:19 final size:19
Alignment explanation
Indices: 37210303--37210344 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37210293 TCATCCCTCA
*
37210303 TCTCATCATCTCTCACATC
1 TCTCATCATCTCTCACAAC
* *
37210322 TCTCATCCTCTCTCTCAAC
1 TCTCATCATCTCTCACAAC
37210341 TCTC
1 TCTC
37210345 TTAGCTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.45, G:0.00, T:0.38
Consensus pattern (19 bp):
TCTCATCATCTCTCACAAC
Found at i:37214116 original size:147 final size:146
Alignment explanation
Indices: 37213890--37214155 Score: 399
Period size: 147 Copynumber: 1.8 Consensus size: 146
37213880 ATTCCTATGG
* *
37213890 CCTGGGGCATTTCCTCCACTTCCTACCACATTGCGAACAAGACTGCCCCCTCTACCAAGCATTCC
1 CCTGGGGCATTTCCTCCACTTCCTACCACATTGCCAACAAGACTGCCCCCTCTACAAAGCATTCC
*
37213955 CTCAGTCCACACAATCCCAATTACAATTCCCCCAATTCCTTTCTCTTTTCCACCATTTCTATATT
66 CTCAGTCCACACAATCCCAACTACAATTCCCCCAATTCCTTTCT-TTTTCCACCATTTCTATATT
37214020 TCCATAATTTCCCAAAC
130 TCCATAATTTCCCAAAC
* * * *
37214037 CCTGGGGCGTTTCCTCCACTTCCTACCACATTGCCAAGAGGACTTCCCCCTCTACAAAGCATTCC
1 CCTGGGGCATTTCCTCCACTTCCTACCACATTGCCAACAAGACTGCCCCCTCTACAAAGCATTCC
* * * * *
37214102 TTCAGTCC-CTACAATCCCAACTGCATTTCCCTCTATTCCTTTCTTTTTCCACCA
66 CTCAGTCCAC-ACAATCCCAACTACAATTCCCCCAATTCCTTTCTTTTTCCACCA
37214156 CCTTCTCGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
146 11 0.10
147 95 0.90
ACGTcount: A:0.22, C:0.39, G:0.08, T:0.30
Consensus pattern (146 bp):
CCTGGGGCATTTCCTCCACTTCCTACCACATTGCCAACAAGACTGCCCCCTCTACAAAGCATTCC
CTCAGTCCACACAATCCCAACTACAATTCCCCCAATTCCTTTCTTTTTCCACCATTTCTATATTT
CCATAATTTCCCAAAC
Found at i:37218544 original size:16 final size:17
Alignment explanation
Indices: 37218523--37218555 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37218513 AGTTGCTAGA
37218523 CTTG-AATGATTTTGGT
1 CTTGAAATGATTTTGGT
37218539 CTTGAAATGATTTTGGT
1 CTTGAAATGATTTTGGT
37218556 TCATGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (17 bp):
CTTGAAATGATTTTGGT
Found at i:37219170 original size:21 final size:21
Alignment explanation
Indices: 37219144--37219202 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
37219134 TACATAGGAC
37219144 TGTGAATTAGCCACACAGGCG
1 TGTGAATTAGCCACACAGGCG
37219165 TGTGAATTAGCCACACAGGCG
1 TGTGAATTAGCCACACAGGCG
* *
37219186 TGTGAAATAGACACACA
1 TGTGAATTAGCCACACA
37219203 ACGATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (21 bp):
TGTGAATTAGCCACACAGGCG
Found at i:37227218 original size:5 final size:5
Alignment explanation
Indices: 37227192--37227235 Score: 61
Period size: 5 Copynumber: 8.2 Consensus size: 5
37227182 TTCTTGTTTC
37227192 TTATT ATTATT ATTAGTT TTATT TTATT TTATT TTATT TTATT T
1 TTATT -TTATT -TTA-TT TTATT TTATT TTATT TTATT TTATT T
37227236 ATTCATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 23 0.62
6 12 0.32
7 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:37228902 original size:6 final size:6
Alignment explanation
Indices: 37228886--37228923 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
37228876 AGTCCATTTG
* *
37228886 TTTTA- TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
37228924 CTTAGACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:37228915 original size:18 final size:17
Alignment explanation
Indices: 37228886--37228923 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
37228876 AGTCCATTTG
*
37228886 TTTTATTTTATTTTTAT
1 TTTTATTTTATTGTTAT
37228903 TTTTATGTTTATTGTTAT
1 TTTTAT-TTTATTGTTAT
37228921 TTT
1 TTT
37228924 CTTAGACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTGTTAT
Found at i:37235349 original size:29 final size:29
Alignment explanation
Indices: 37235293--37235349 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
37235283 TTATGGAAGA
* *
37235293 GATGGAGAACTTGTTCATTGAGAGTTCGC
1 GATGAAGAACTTGTTCATTGAGAATTCGC
*
37235322 GATGAAGAACTTGTTCATTGATAATTCG
1 GATGAAGAACTTGTTCATTGAGAATTCG
37235350 TGTCAATGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTGAGAATTCGC
Found at i:37236513 original size:14 final size:14
Alignment explanation
Indices: 37236490--37236520 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
37236480 TGTTGTGTTC
*
37236490 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
37236504 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
37236518 TTA
1 TTA
37236521 AAAGCAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:37237369 original size:14 final size:15
Alignment explanation
Indices: 37237350--37237384 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
37237340 CTAAAAAATT
37237350 AAAAAATA-ATTTGAA
1 AAAAAATATATTT-AA
37237365 AAAAAATATATTTAA
1 AAAAAATATATTTAA
37237380 AAAAA
1 AAAAA
37237385 TTGGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAAATATATTTAA
Found at i:37237997 original size:28 final size:25
Alignment explanation
Indices: 37237945--37238015 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 25
37237935 GTTTTATGTT
*
37237945 TTTTTATTTTTATTTTTCTTGTTATTC
1 TTTTTA-TTTTATTTTTCTAGTTA-TC
37237972 ATTTTTATTTTATTTTTC-AGACTTATC
1 -TTTTTATTTTATTTTTCTAG--TTATC
*
37237999 TGTTTAATTTTATTTTT
1 T-TTTTATTTTATTTTT
37238016 ATTTTAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.05
27 27 0.71
28 9 0.24
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTTATTTTATTTTTCTAGTTATC
Found at i:37238698 original size:194 final size:196
Alignment explanation
Indices: 37238307--37238703 Score: 629
Period size: 194 Copynumber: 2.0 Consensus size: 196
37238297 ATGAAATCTC
* *
37238307 TGAATTATTGTTTGTATGTTTAAGTAATTTTCTCACACCTATCATTGAAGTTATTTTTTTTTTAA
1 TGAATTATTGTTCG-ATGTTTAAGTAATTTTCTCACACCTATCATTAAAGTTA--TTTTTTTTAA
* * *
37238372 TTTAGAGTTTTAAGTGATTCTGTTTTGTGAATAATTTGTGGATGTTTGTGCATTGTGTAATTAAT
63 TTTAGAGTTTTAAGTGATTCTATTTTGGGAATAATTTGTGGATATTTGTGCATTGTGTAATTAAT
* *
37238437 ATTTTTAAGACACGAGAGAGTCAAGCATGATAAGTTGTTTTTCAGAAATTATTATTTTAGGTGTC
128 ATTTTTAAGACACGAGAGAGTCAAGCATGATAAGTTGTTTTTCAAAAACTATTATTTTAGGTGTC
37238502 TCCA
193 TCCA
*
37238506 TGAATTATTGTTCG-TGTTTAAGTGATTTTCTCACACCTATCATTAAAGTTA-TTTTTTTAATTT
1 TGAATTATTGTTCGATGTTTAAGTAATTTTCTCACACCTATCATTAAAGTTATTTTTTTTAATTT
* *
37238569 AGAGTTTTTAGTGATTCTATTTTGGGAATAATTTGTGGATATTTGTGCATTGTGTGATTAATA-T
66 AGAGTTTTAAGTGATTCTATTTTGGGAATAATTTGTGGATATTTGTGCATTGTGTAATTAATATT
*
37238633 TTTAAGACACGAGAGAGTCAAGCATGATAATTTGTTTTTCAAAAACTATTATTTTAGGTTGTCTC
131 TTTAAGACACGAGAGAGTCAAGCATGATAAGTTGTTTTTCAAAAACTATTATTTTAGG-TGTCTC
*
37238698 CC
195 CA
37238700 TGAA
1 TGAA
37238704 CTAAAGAATT
Statistics
Matches: 185, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
193 56 0.30
194 81 0.44
197 35 0.19
199 13 0.07
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.46
Consensus pattern (196 bp):
TGAATTATTGTTCGATGTTTAAGTAATTTTCTCACACCTATCATTAAAGTTATTTTTTTTAATTT
AGAGTTTTAAGTGATTCTATTTTGGGAATAATTTGTGGATATTTGTGCATTGTGTAATTAATATT
TTTAAGACACGAGAGAGTCAAGCATGATAAGTTGTTTTTCAAAAACTATTATTTTAGGTGTCTCC
A
Found at i:37243590 original size:20 final size:21
Alignment explanation
Indices: 37243567--37243609 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
37243557 CTTCTACTCC
37243567 TTGAAATA-CCCTTTGGTTTA
1 TTGAAATACCCCTTTGGTTTA
37243587 TTGAAATACCCCCTTTGGTTTA
1 TTGAAATA-CCCCTTTGGTTTA
37243609 T
1 T
37243610 CTGCTGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (21 bp):
TTGAAATACCCCTTTGGTTTA
Found at i:37251629 original size:7 final size:7
Alignment explanation
Indices: 37251586--37251776 Score: 73
Period size: 7 Copynumber: 25.9 Consensus size: 7
37251576 TACTGTTCGT
*
37251586 GGTTTAT
1 GGTTTAG
37251593 GGTTTAG
1 GGTTTAG
*
37251600 TGTTTAG
1 GGTTTAG
37251607 TGG-TTAG
1 -GGTTTAG
**
37251614 GAGCATAG
1 G-GTTTAG
37251622 GGTTTAG
1 GGTTTAG
*
37251629 GGGTTATG
1 GGTTTA-G
*
37251637 GGCTTAG
1 GGTTTAG
*
37251644 GGTCTAAG
1 GGT-TTAG
*
37251652 GG-GTAG
1 GGTTTAG
*
37251658 CGGCTTAG
1 -GGTTTAG
* *
37251666 AGTTTTG
1 GGTTTAG
37251673 GGTTTAAG
1 GGTTT-AG
*
37251681 GGTTTATA
1 GGTTTA-G
37251689 GG-TTAGG
1 GGTTTA-G
37251696 GGTTTAAG
1 GGTTT-AG
*
37251704 GGTTCATGG
1 GGTT--TAG
*
37251713 GGTTTACT
1 GGTTTA-G
37251721 GGTTTAG
1 GGTTTAG
*
37251728 GTTTTAG
1 GGTTTAG
37251735 GGTTTAG
1 GGTTTAG
*
37251742 GGTTTAA
1 GGTTTAG
*
37251749 GGTTTAA
1 GGTTTAG
37251756 GGTTTATG
1 GGTTTA-G
**
37251764 ATTTTAG
1 GGTTTAG
37251771 GGTTTA
1 GGTTTA
37251777 TAATTTATGA
Statistics
Matches: 136, Mismatches: 33, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
6 3 0.02
7 82 0.60
8 44 0.32
9 6 0.04
10 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.37, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:37251644 original size:22 final size:22
Alignment explanation
Indices: 37251596--37251655 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
37251586 GGTTTATGGT
* *
37251596 TTAGTGTTTAGTGGTTAGGAGC
1 TTAGGGTTTAGGGGTTAGGAGC
*
37251618 ATAGGGTTTAGGGGTTATGG-GC
1 TTAGGGTTTAGGGGTTA-GGAGC
*
37251640 TTAGGGTCTAAGGGGT
1 TTAGGGT-TTAGGGGT
37251656 AGCGGCTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.18, C:0.05, G:0.42, T:0.35
Consensus pattern (22 bp):
TTAGGGTTTAGGGGTTAGGAGC
Found at i:37251685 original size:8 final size:8
Alignment explanation
Indices: 37251672--37251761 Score: 59
Period size: 8 Copynumber: 11.9 Consensus size: 8
37251662 TTAGAGTTTT
37251672 GGGTTTAA
1 GGGTTTAA
37251680 GGGTTTATA
1 GGGTTTA-A
*
37251689 -GG-TTAG
1 GGGTTTAA
37251695 GGGTTTAA
1 GGGTTTAA
* *
37251703 GGGTTCATG
1 GGGTTTA-A
*
37251712 GGGTTTAC
1 GGGTTTAA
*
37251720 TGGTTT-A
1 GGGTTTAA
*
37251727 -GGTTTTA
1 GGGTTTAA
37251734 GGGTTT-A
1 GGGTTTAA
37251741 GGGTTTAA
1 GGGTTTAA
37251749 -GGTTTAA
1 GGGTTTAA
37251756 -GGTTTA
1 GGGTTTA
37251762 TGATTTTAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
6 5 0.07
7 26 0.39
8 29 0.43
9 7 0.10
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (8 bp):
GGGTTTAA
Found at i:37251739 original size:22 final size:21
Alignment explanation
Indices: 37251662--37251761 Score: 60
Period size: 22 Copynumber: 4.5 Consensus size: 21
37251652 GGGTAGCGGC
* *
37251662 TTAGAGTTTTGGGTTTAAGGGT
1 TTAGGGTTTAGGGTTTAA-GGT
*
37251684 TTATAGG-TTAGGGGTTTAAGGGT
1 TTA-GGGTTTA-GGGTTTAA-GGT
* *
37251707 TCATGGGGTTTACTGGTTT-AGGTT
1 T--TAGGGTTTA-GGGTTTAAGG-T
37251731 TTAGGGTTTAGGGTTTAAGGT
1 TTAGGGTTTAGGGTTTAAGGT
*
37251752 TTAAGGTTTA
1 TTAGGGTTTA
37251762 TGATTTTAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
21 15 0.25
22 16 0.26
23 16 0.26
24 5 0.08
25 9 0.15
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTAAGGT
Found at i:37251769 original size:22 final size:22
Alignment explanation
Indices: 37251744--37251789 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
37251734 GGGTTTAGGG
*
37251744 TTTAAGGTTTA-AGGTTTATGAT
1 TTTAAGGTTTATA-ATTTATGAT
*
37251766 TTTAGGGTTTATAATTTATGAT
1 TTTAAGGTTTATAATTTATGAT
37251788 TT
1 TT
37251790 ACGATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (22 bp):
TTTAAGGTTTATAATTTATGAT
Found at i:37251783 original size:29 final size:29
Alignment explanation
Indices: 37251737--37251803 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
37251727 GGTTTTAGGG
* * *
37251737 TTTAGGGTTTAAGGTTTAAGGTTTATGAT
1 TTTAGGGTTTAAGATTTAAGATTTACGAT
*
37251766 TTTAGGGTTTATA-ATTTATGATTTACGAT
1 TTTAGGGTTTA-AGATTTAAGATTTACGAT
*
37251795 TTTAAGGTT
1 TTTAGGGTT
37251804 AATTTAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.51
Consensus pattern (29 bp):
TTTAGGGTTTAAGATTTAAGATTTACGAT
Found at i:37251992 original size:22 final size:22
Alignment explanation
Indices: 37251943--37251985 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37251933 AAGAGGTTAA
*
37251943 AGTTTAAAGGTTACGGGTTTAG
1 AGTTTAAAGGTTACGGGCTTAG
* *
37251965 AGTTTAATGGTTAGGGGCTTA
1 AGTTTAAAGGTTACGGGCTTA
37251986 TGGTTTAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.37
Consensus pattern (22 bp):
AGTTTAAAGGTTACGGGCTTAG
Found at i:37252052 original size:23 final size:21
Alignment explanation
Indices: 37252026--37252067 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
37252016 ATTTAAGGGT
37252026 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
37252049 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
37252068 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:37252232 original size:40 final size:40
Alignment explanation
Indices: 37252177--37252252 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
37252167 CAAAACAGTG
* *
37252177 TCGTTTTGTCTGATTTTTTAGTGGCGTTTTGACTAAGGTT
1 TCGTTTAGTCTGATTTTTAAGTGGCGTTTTGACTAAGGTT
*
37252217 TCGTTTAGTCTGATTTTTAAGTGGCGTTTTTACTAA
1 TCGTTTAGTCTGATTTTTAAGTGGCGTTTTGACTAA
37252253 AATGCCGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.11, G:0.22, T:0.51
Consensus pattern (40 bp):
TCGTTTAGTCTGATTTTTAAGTGGCGTTTTGACTAAGGTT
Found at i:37252376 original size:116 final size:113
Alignment explanation
Indices: 37252231--37252625 Score: 292
Period size: 116 Copynumber: 3.4 Consensus size: 113
37252221 TTAGTCTGAT
* * *
37252231 TTTTAAGTGGCGTTTTTACTAAAATGCCGCAAAAGGAGT-TATATTAGTGCCATTTCTACAAAAA
1 TTTT-AGTGGCATTTTTACAAAAACGCCGCAAAAGGA-TATATATTAGTGCCATTT-T-CAAAAA
* * * **
37252295 AAGCCACAATTATGTTTTTTGTC-TTTGTTAAACGTTGTCGTTTTTATCCAGG
62 AAGCCACAATTATGTTATTAGTCTTTTG-TAAACGTTGTCATTTTTATCCACA
* * * * * *** *
37252347 TTTTCAGTGGCATTTTTGCCAAAACGCCGCAAAATGATATGTGTTAGTGCCATTTTCAGGTAACG
1 TTTT-AGTGGCATTTTTACAAAAACGCCGCAAAAGGATATATATTAGTGCCATTTTCAAAAAAAG
* * *
37252412 TCGCAATTATGTTATTAGTCTTTTGTAAACGTTGTCATTTTTATCTACA
65 CCACAATTATGTTATTAGTCTTTTGTAAACGTTGTCATTTTTATCCACA
* * * ** ** *
37252461 TTATTGGTGGCATTTTTACAAAAACGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTTTATAAAAA
1 TT-TTAGTGGCATTTTTACAAAAACGCCGCAAAAGGATATATATTAGT-GCCATTTTCA-AAAAA
* * * * * * *
37252526 TGCCGCAATTATGTTATAAGT-TTTCGCTAAACGTTGTCGTTTTTATCTATGA
63 AGCCACAATTATGTTATTAGTCTTTTG-TAAACGTTGTCATTTTTATCCA-CA
* * * ** * *
37252578 TTTTAGTGGCGTTTGTACTAAAACGCCGGTAAAGGATATGTTTTAGTG
1 TTTTAGTGGCATTTTTACAAAAACGCCGCAAAAGGATATATATTAGTG
37252626 GCGTTTTTAT
Statistics
Matches: 225, Mismatches: 47, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
114 80 0.36
115 20 0.09
116 122 0.54
117 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (113 bp):
TTTTAGTGGCATTTTTACAAAAACGCCGCAAAAGGATATATATTAGTGCCATTTTCAAAAAAAGC
CACAATTATGTTATTAGTCTTTTGTAAACGTTGTCATTTTTATCCACA
Found at i:37252453 original size:114 final size:114
Alignment explanation
Indices: 37252301--37252618 Score: 284
Period size: 114 Copynumber: 2.8 Consensus size: 114
37252291 AAAAAAGCCA
* * * ** *
37252301 CAATTATGTTTTTTGTCTTTGTTAAACGTTGTCGTTTTTATCCAGGTT-TTCAGTGGCATTTTTG
1 CAATTATGTTATTAGTCTTTGTTAAACGTTGTCATTTTTATCCACATTATT-AGTGGCATTTTTA
* * *
37252365 CCAAAACGCCGCAAAATGATATGTGTTAGTGCCATTTTCAGGTAACGTCG
65 CAAAAACGCCGCAAAAGGATATGTGGTAGTGCCATTTTCAGGTAACGTCG
* *
37252415 CAATTATGTTATTAGTCTTT-TGTAAACGTTGTCATTTTTATCTACATTATTGGTGGCATTTTTA
1 CAATTATGTTATTAGTCTTTGT-TAAACGTTGTCATTTTTATCCACATTATTAGTGGCATTTTTA
* ** * *** * *
37252479 CAAAAACGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTTTATAAAAATGCCG
65 CAAAAACGCCGCAAAAGGATATGTGGTAGT-GCCATTTTCA-GGTAACGTCG
* * * * * * *
37252531 CAATTATGTTATAAGT-TTTCGCTAAACGTTGTCGTTTTTATCTATGATT-TTAGTGGCGTTTGT
1 CAATTATGTTATTAGTCTTT-GTTAAACGTTGTCATTTTTATCCA-CATTATTAGTGGCATTTTT
* **
37252594 ACTAAAACGCCGGTAAAGGATATGT
64 ACAAAAACGCCGCAAAAGGATATGT
37252619 TTTAGTGGCG
Statistics
Matches: 166, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
113 1 0.01
114 77 0.46
115 12 0.07
116 73 0.44
117 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (114 bp):
CAATTATGTTATTAGTCTTTGTTAAACGTTGTCATTTTTATCCACATTATTAGTGGCATTTTTAC
AAAAACGCCGCAAAAGGATATGTGGTAGTGCCATTTTCAGGTAACGTCG
Found at i:37252626 original size:116 final size:116
Alignment explanation
Indices: 37252291--37252684 Score: 336
Period size: 116 Copynumber: 3.4 Consensus size: 116
37252281 CATTTCTACA
* * * * * * **
37252291 AAAAAAGCCACAATTATGTTTTTTGTCTTT-GTTAAACGTTGTCGTTTTTATCCAGGTT-TTCAG
1 AAAAATGCCGCAATTATGTTATTAGT-TTTCGCTAAACGTTGTCGTTTTTATCTACATTATT-AG
* * * * * * * * *
37252354 TGGCATTTTTGCCAAAACGCCGCAAAATGATATGTGTTAGTGCCATTTTCAGGT
64 TGGCATTTGTACAAAAACGCCGCAAAAGGATATGTGGTAGTGGCGTTTTTA-TT
* * * * *
37252408 ---AACGTCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTCATTTTTATCTACATTATTGGT
1 AAAAATGCCGCAATTATGTTATTAGT-TTTCGCTAAACGTTGTCGTTTTTATCTACATTATTAGT
* *
37252469 GGCATTTTTACAAAAACGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTT-TAT
65 GGCATTTGTACAAAAACGCCGCAAAAGGATATGTGGTAGTGGCGTTTTTAT-T
* *
37252521 AAAAATGCCGCAATTATGTTATAAGTTTTCGCTAAACGTTGTCGTTTTTATCTATGATT-TTAGT
1 AAAAATGCCGCAATTATGTTATTAGTTTTCGCTAAACGTTGTCGTTTTTATCTA-CATTATTAGT
* * ** **
37252585 GGCGTTTGTACTAAAACGCCGGTAAAGGATATGTTTTAGTGGCGTTTTTATT
65 GGCATTTGTACAAAAACGCCGCAAAAGGATATGTGGTAGTGGCGTTTTTATT
* * * * * *
37252637 ATAAATGCAGCAAATATGTTTTTAGTGTTGGCTAAACGTTGTCGTTTT
1 AAAAATGCCGCAATTATGTTATTAGTTTTCGCTAAACGTTGTCGTTTT
37252685 CTATATGGGA
Statistics
Matches: 227, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
113 1 0.00
114 87 0.38
115 7 0.03
116 128 0.56
117 4 0.02
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (116 bp):
AAAAATGCCGCAATTATGTTATTAGTTTTCGCTAAACGTTGTCGTTTTTATCTACATTATTAGTG
GCATTTGTACAAAAACGCCGCAAAAGGATATGTGGTAGTGGCGTTTTTATT
Found at i:37252872 original size:15 final size:15
Alignment explanation
Indices: 37252854--37252893 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
37252844 CCCCCAACTT
*
37252854 CCCCGATTTCATTTC
1 CCCCAATTTCATTTC
* *
37252869 CCCCAATTCCTTTTC
1 CCCCAATTTCATTTC
37252884 CCCCAATTTC
1 CCCCAATTTC
37252894 CTCGATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.45, G:0.03, T:0.38
Consensus pattern (15 bp):
CCCCAATTTCATTTC
Found at i:37252878 original size:23 final size:22
Alignment explanation
Indices: 37252807--37252878 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 22
37252797 CCACTCTGAT
* *
37252807 TTCCCCAATTTCATCT-CCCTAA
1 TTCCCC-ATTTCATATCCCCCAA
* *
37252829 TTTCCCATTTCCTATCCCCCAA
1 TTCCCCATTTCATATCCCCCAA
*
37252851 CTTCCCCGATTTCATTTCCCCCAA
1 -TTCCCC-ATTTCATATCCCCCAA
37252875 TTCC
1 TTCC
37252879 TTTTCCCCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
21 7 0.17
22 10 0.25
23 9 0.22
24 14 0.35
ACGTcount: A:0.18, C:0.44, G:0.01, T:0.36
Consensus pattern (22 bp):
TTCCCCATTTCATATCCCCCAA
Found at i:37253893 original size:52 final size:53
Alignment explanation
Indices: 37253814--37253921 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 53
37253804 AAAATGTTCT
37253814 GTTAAATATAATAACAGCCGATTACATTTCCAGGTAATGAATTGGATTTTTAA
1 GTTAAATATAATAACAGCCGATTACATTTCCAGGTAATGAATTGGATTTTTAA
37253867 GTTAAATAT-ATAACAGCCGATTACATTTCCAGGTAATGAATTGGATTTTTAA
1 GTTAAATATAATAACAGCCGATTACATTTCCAGGTAATGAATTGGATTTTTAA
37253919 GTT
1 GTT
37253922 GAATTGTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 46 0.84
53 9 0.16
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (53 bp):
GTTAAATATAATAACAGCCGATTACATTTCCAGGTAATGAATTGGATTTTTAA
Found at i:37254593 original size:9 final size:9
Alignment explanation
Indices: 37254568--37254641 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
37254558 TAATAACATA
*
37254568 ATAACTAAC
1 ATAACTTAC
37254577 ATAA--TAC
1 ATAACTTAC
*
37254584 ATAACCTAC
1 ATAACTTAC
37254593 ATAACTTAC
1 ATAACTTAC
37254602 ATAACTTAC
1 ATAACTTAC
* *
37254611 ATAAATTAA
1 ATAACTTAC
37254620 ATAACTTAC
1 ATAACTTAC
37254629 ATAACTTAC
1 ATAACTTAC
37254638 ATAA
1 ATAA
37254642 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.11
9 51 0.89
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:37259081 original size:23 final size:20
Alignment explanation
Indices: 37259038--37259076 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
37259028 ATTTCAACTA
37259038 TTTTATATGTGTTGTTATTG
1 TTTTATATGTGTTGTTATTG
37259058 TTTTATATGTGTTGTTATT
1 TTTTATATGTGTTGTTATT
37259077 ATTGTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (20 bp):
TTTTATATGTGTTGTTATTG
Found at i:37260405 original size:21 final size:21
Alignment explanation
Indices: 37260378--37260428 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37260368 CTACAACTTA
* *
37260378 AAGCAGAGGCGGCCGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* * *
37260399 TAGCAGAAGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
37260420 AAGCAGAGG
1 AAGCAGAGG
37260429 TTCAAAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:37260942 original size:43 final size:43
Alignment explanation
Indices: 37260824--37261155 Score: 216
Period size: 43 Copynumber: 7.9 Consensus size: 43
37260814 GTTTTTTATA
* * * * *
37260824 AAAGCGCCGCTAAA-AGTCATGTTCTATAACGGCATTTGTGAAG
1 AAAGCGCCGCTAAAGA-ACATGATCTTTAGCGGCGTTTGTGAAG
* *
37260867 AAAGCGCCGCTAAAGAACAT-TTCTTTTCGCGGCGTTTGTGAAG
1 AAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTGTGAAG
** * * *
37260910 AAAGCGTTGCTAAAGAACATGATCTCTAGCGGCGTTT-T-TAC
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGAAG
* * ****
37260951 CAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTT-TTCTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGAAG
* * ****
37260993 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTCTC
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGAAG
* * * * * ***
37261035 TATGCGCTGCTAAAGAACATGATCTTTAGCGACGCCTTTTTTTTG
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCG--GCGTTTGTGAAG
* ***
37261080 --AGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-TTTCG
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGAAG
* *
37261120 -AAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
37261156 TTTTCTGTAA
Statistics
Matches: 245, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.02
41 73 0.30
42 70 0.29
43 87 0.36
44 8 0.03
45 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGAAG
Found at i:37260986 original size:84 final size:81
Alignment explanation
Indices: 37260868--37261157 Score: 305
Period size: 84 Copynumber: 3.5 Consensus size: 81
37260858 TTTGTGAAGA
* * * * * **
37260868 AAGCGCCGCTAAAGAACAT-TTCTTTTCGCGGCGTTTGTGAAGAAAGCGTTGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCAGCGTTT-TTATG-AAGCGCCGCTAAAGAACATGA
*
37260932 TCTCTAGCGGCGTTTTTACC
63 TCTTTAGCGGCGTTTTT-CC
* *
37260952 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTCTTTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTT-ATGAAGCGCCGCTAAAGAACATGATC
*
37261017 TTTAGTGGCGTTTTTCTC
65 TTTAGCGGCGTTTTTC-C
* * * *
37261035 TATGCGCTGCTAAAGAACATGATCTTTAGCGACGCCTTTTTTTTG-AGCGCCGCTAAAGAACATG
1 -AAGCGCCGCTAAAGAACATGATCTTTAGC-A-G-CGTTTTTATGAAGCGCCGCTAAAGAACATG
* *
37261099 ACCTTTAGCGGCGTTTTTTCG
62 ATCTTTAGCGGCG-TTTTTCC
*
37261120 AAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTT
37261158 TTCTGTAAAC
Statistics
Matches: 176, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
81 6 0.03
82 2 0.01
83 37 0.21
84 83 0.47
85 33 0.19
86 9 0.05
87 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (81 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTATGAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTTTCC
Found at i:37261011 original size:42 final size:42
Alignment explanation
Indices: 37260918--37261157 Score: 299
Period size: 41 Copynumber: 5.7 Consensus size: 42
37260908 AGAAAGCGTT
* *
37260918 GCTAAAGAACATGATCTCTAGCGGCGTTTTTAC-C-AAGCGCC
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTT-CTCTAAGCGCC
*
37260959 GCTAAAGAACATGATCTTTAGCAGCGTTTTTCTTTAAGCGCC
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTTCTCTAAGCGCC
** * *
37261001 GCTAAAGAACATGATCTTTAGTGGCGTTTTTCTCTATGCGCT
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTTCTCTAAGCGCC
* * *
37261043 GCTAAAGAACATGATCTTTAGCGACGCCTTTTT-TTTGAGCGCC
1 GCTAAAGAACATGATCTTTAGC-A-GCGTTTTTCTCTAAGCGCC
* * *
37261086 GCTAAAGAACATGACCTTTAGCGGCGTTTTT-TCGAAGCGCC
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTTCTCTAAGCGCC
*
37261127 GCTAAAGAACATGACCTTTAGCAGCGTTTTT
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTT
37261158 TTCTGTAAAC
Statistics
Matches: 173, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 73 0.42
42 65 0.38
43 27 0.16
44 7 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (42 bp):
GCTAAAGAACATGATCTTTAGCAGCGTTTTTCTCTAAGCGCC
Found at i:37261874 original size:43 final size:43
Alignment explanation
Indices: 37261813--37262040 Score: 237
Period size: 43 Copynumber: 5.3 Consensus size: 43
37261803 ACCACGAACA
* *
37261813 CCGCTAAAGATCATGACCTTTAGCGACGCTTTTCACACAAATG
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTTCACACAAACG
* * * *
37261856 CCGCTATAGACCATGACCTTTAGC-AGCACTTTTCCCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGA-CGCTTTTCACACAAACG
* * * **
37261899 CTGCTAAAGACCATGACCTTTAGCGGCGCTTTTGTCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTTCACACAAACG
* * *
37261942 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTATCACAAACA
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTTCA-CACAAACG
* * * * * *
37261986 CCGCTATAGAACA-AACCTTTAGCGATGCTTCTCGCAAAAACG
1 CCGCTAAAGAACATGACCTTTAGCGACGCTTTTCACACAAACG
37262028 CCGCTAAA-AACAT
1 CCGCTAAAGAACAT
37262041 ATCATGCAAA
Statistics
Matches: 155, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
41 4 0.03
42 14 0.09
43 118 0.76
44 19 0.12
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAGCGACGCTTTTCACACAAACG
Found at i:37262277 original size:27 final size:26
Alignment explanation
Indices: 37262223--37262279 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
37262213 TAAATAAAAA
*
37262223 TAAAAATTAATAAAAGTGAGAAAACG
1 TAAAAATTAATAAAAATGAGAAAACG
*
37262249 TAAATAATTAATAAAAATTA-AAAATCG
1 TAAA-AATTAATAAAAATGAGAAAA-CG
37262276 TAAA
1 TAAA
37262280 CCTCGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.25
Consensus pattern (26 bp):
TAAAAATTAATAAAAATGAGAAAACG
Found at i:37265786 original size:16 final size:17
Alignment explanation
Indices: 37265765--37265802 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
37265755 ATTTAAACCC
37265765 AGAAAAGAACCCCAAA-
1 AGAAAAGAACCCCAAAT
*
37265781 AGAAAAGAACTCCAAAT
1 AGAAAAGAACCCCAAAT
37265798 AGAAA
1 AGAAA
37265803 TAAAAACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.63, C:0.18, G:0.13, T:0.05
Consensus pattern (17 bp):
AGAAAAGAACCCCAAAT
Found at i:37267128 original size:21 final size:21
Alignment explanation
Indices: 37267104--37267149 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
37267094 CCTCTAAGCT
37267104 CTAACCCCTAACTA-TAAACCC
1 CTAACCCCTAACTACT-AACCC
37267125 CTAACCCCTAACTACTAACCC
1 CTAACCCCTAACTACTAACCC
37267146 CTAA
1 CTAA
37267150 ACCTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (21 bp):
CTAACCCCTAACTACTAACCC
Found at i:37267791 original size:41 final size:41
Alignment explanation
Indices: 37267734--37267888 Score: 292
Period size: 41 Copynumber: 3.8 Consensus size: 41
37267724 AAATGTTTTT
* *
37267734 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
37267775 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
37267816 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
37267857 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCC
37267889 CGAAAGGTCA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.28, C:0.35, G:0.22, T:0.15
Consensus pattern (41 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:37273042 original size:29 final size:29
Alignment explanation
Indices: 37273007--37273065 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
37272997 AGTAGTTCCG
* *
37273007 GTGGTTTATCCATAAATATGGGAGTTCTA
1 GTGGTTTATCCACAAATATGAGAGTTCTA
*
37273036 GTGGTTTATCCACAAATATTAGAGTTCTA
1 GTGGTTTATCCACAAATATGAGAGTTCTA
37273065 G
1 G
37273066 CGATATAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (29 bp):
GTGGTTTATCCACAAATATGAGAGTTCTA
Found at i:37283603 original size:22 final size:22
Alignment explanation
Indices: 37283561--37283603 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37283551 TAAATAAATA
* *
37283561 AAAAGAAATCTAAAGCCAAAAG
1 AAAAGAAAACTAAAACCAAAAG
*
37283583 AAAAGAAAACTAAAACTAAAA
1 AAAAGAAAACTAAAACCAAAA
37283604 TTACAAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.70, C:0.12, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAGAAAACTAAAACCAAAAG
Found at i:37286213 original size:21 final size:21
Alignment explanation
Indices: 37286189--37286236 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
37286179 CAAGAGATAC
*
37286189 AATTATCATTTATCACTCAAT
1 AATTATCATTCATCACTCAAT
*
37286210 AATTTTCATTCATCACTCAAT
1 AATTATCATTCATCACTCAAT
37286231 AATTAT
1 AATTAT
37286237 TTTCCAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTATCATTCATCACTCAAT
Found at i:37292611 original size:147 final size:147
Alignment explanation
Indices: 37292383--37292649 Score: 435
Period size: 147 Copynumber: 1.8 Consensus size: 147
37292373 ATTCCCATGG
* *
37292383 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCTTCTGCCAAACATCCC
1 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTACCAAACATCCC
* *
37292448 CTCAGTCCCCATAATCCCAACTACAATTCCCCCTATTCCTTTCTCTTCTCCACCATTGCCATCTT
66 CTAAGTCCCCACAATCCCAACTACAATTCCCCCTATTCCTTTCTCTTCTCCACCATTGCCATCTT
37292513 TCCCTAATCTCCCAAAC
131 TCCCTAATCTCCCAAAC
* * *
37292530 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAAGAGGACTGCCCCCTCTACCAAGCATTCC
1 CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTACCAAACATCCC
* * * *
37292595 TTAAGTCCCTACAATCCCAACTGCAATTCCCCCTATTCCTTTCTTTTCTCCACCA
66 CTAAGTCCCCACAATCCCAACTACAATTCCCCCTATTCCTTTCTCTTCTCCACCA
37292650 CGTTCTCGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 109 1.00
ACGTcount: A:0.20, C:0.43, G:0.09, T:0.27
Consensus pattern (147 bp):
CCTGGGGCGCTTCCTCCACTTCCTACCACATTGCCAACAGGACTGCCCCCTCTACCAAACATCCC
CTAAGTCCCCACAATCCCAACTACAATTCCCCCTATTCCTTTCTCTTCTCCACCATTGCCATCTT
TCCCTAATCTCCCAAAC
Found at i:37299794 original size:59 final size:55
Alignment explanation
Indices: 37299658--37299782 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 55
37299648 TTAATAAGAA
* * *
37299658 TATTATTAAAATAAATTTAATAATAAATAATAATTTAATCATATTTTAACATAAT
1 TATTATTAAAATAAATTTAATAAAAAATAATAATTTAATAACATTTTAACATAAT
*
37299713 T-TTATT-AAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATAAT
1 TATTATTAAAATA-AATTTAATAAAA-AATA-ATAATTTAATAACATT-TTAACATAAT
37299770 TATTATTAAAATA
1 TATTATTAAAATA
37299783 TGAATTAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
53 5 0.08
54 16 0.27
55 5 0.08
56 14 0.23
57 10 0.17
58 5 0.08
59 5 0.08
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (55 bp):
TATTATTAAAATAAATTTAATAAAAAATAATAATTTAATAACATTTTAACATAAT
Found at i:37313779 original size:37 final size:38
Alignment explanation
Indices: 37313738--37313835 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 38
37313728 GAGCATGTTT
37313738 ACTGTTATGTATTTACTGATTGCATG-TAA-AGCATGCC
1 ACTGTTATGTATTTACTGATTGCATGTTAATA-CATGCC
*** * *
37313775 ACTGTTACCAAGTTACTGATCGCATGTTAATACATGCC
1 ACTGTTATGTATTTACTGATTGCATGTTAATACATGCC
* *
37313813 ACTATTCTGTATTGTACATGATT
1 ACTGTTATGTATT-TAC-TGATT
37313836 TCGTGATGCA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
37 21 0.47
38 16 0.36
39 4 0.09
40 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (38 bp):
ACTGTTATGTATTTACTGATTGCATGTTAATACATGCC
Found at i:37316486 original size:3 final size:3
Alignment explanation
Indices: 37316478--37316517 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
37316468 NNNNNNNNNN
37316478 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37316518 GGAGATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37323837 original size:3 final size:3
Alignment explanation
Indices: 37323824--37323866 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
37323814 NNNAAAAAAC
*
37323824 TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37323867 GGAGATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:37339004 original size:21 final size:21
Alignment explanation
Indices: 37338979--37339021 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
37338969 TAATTTAAAA
37338979 GATAATTCTATCTCTTATAAG
1 GATAATTCTATCTCTTATAAG
37339000 GATAATTCTATCTCTTATAAG
1 GATAATTCTATCTCTTATAAG
37339021 G
1 G
37339022 GCTAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (21 bp):
GATAATTCTATCTCTTATAAG
Found at i:37345802 original size:9 final size:9
Alignment explanation
Indices: 37345788--37345908 Score: 181
Period size: 9 Copynumber: 13.4 Consensus size: 9
37345778 TTTGGTTAAA
37345788 AATTAACCG
1 AATTAACCG
37345797 AATTAACCG
1 AATTAACCG
37345806 AATTAACCG
1 AATTAACCG
*
37345815 AATTACCCG
1 AATTAACCG
*
37345824 AATTAACTG
1 AATTAACCG
37345833 AATTAACCG
1 AATTAACCG
37345842 AATTAACCG
1 AATTAACCG
*
37345851 AATTAACTG
1 AATTAACCG
*
37345860 AATTACCCG
1 AATTAACCG
37345869 AATTAACCG
1 AATTAACCG
37345878 AATT-ACTCG
1 AATTAAC-CG
37345887 AATTAACCG
1 AATTAACCG
*
37345896 AATTAACCA
1 AATTAACCG
37345905 AATT
1 AATT
37345909 GAATCACTAC
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
8 2 0.02
9 97 0.96
10 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:37346047 original size:18 final size:18
Alignment explanation
Indices: 37346007--37346047 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
37345997 TAATTTTATG
**
37346007 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
37346025 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
37346043 CTTGG
1 ATTGG
37346048 AATTAGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.02, G:0.44, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:37346774 original size:11 final size:12
Alignment explanation
Indices: 37346740--37346782 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
37346730 CGAACAAACG
37346740 AAAAATTAGAATGT
1 AAAAATTA-AAT-T
37346754 AAAAATTAAATT
1 AAAAATTAAATT
* *
37346766 AAAAATAAAAAT
1 AAAAATTAAATT
37346778 AAAAA
1 AAAAA
37346783 ATGACTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAAATTAAATT
Found at i:37348749 original size:44 final size:42
Alignment explanation
Indices: 37348690--37348849 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
37348680 ATACGTGATA
* * * * * *
37348690 TCGTATAAGATCATGTTTGGGACGTTGGCATCGATTTAAGATT
1 TCGTGTAAGACCATGTCTGGGACATTAGCATCG-TATAAGATT
*
37348733 TACGTGTAAGACCATGTCTGGGACATTAGCATCGTATATGATT
1 T-CGTGTAAGACCATGTCTGGGACATTAGCATCGTATAAGATT
* * * * * ** *
37348776 TCGTGTAAGACCCTATCTGAGACAGTGGCATCGTTATTTGAAT
1 TCGTGTAAGACCATGTCTGGGACATTAGCATCG-TATAAGATT
* * * *
37348819 ACATGTAAGACCACGTCTGGGACATTGGCAT
1 TCGTGTAAGACCATGTCTGGGACATTAGCAT
37348850 TGCACGAGCT
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 27 0.29
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTAGCATCGTATAAGATT
Found at i:37348807 original size:42 final size:43
Alignment explanation
Indices: 37348715--37348809 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
37348705 TTTGGGACGT
* * * *
37348715 TGGCATCGATTTAAGATTTACGTGTAAGACCATGTCTGGGACAT
1 TGGCATCG-TATAAGATTTACGTGTAAGACCATATCTGAGACAG
* * *
37348759 TAGCATCGTATATGATTT-CGTGTAAGACCCTATCTGAGACAG
1 TGGCATCGTATAAGATTTACGTGTAAGACCATATCTGAGACAG
37348801 TGGCATCGT
1 TGGCATCGT
37348810 TATTTGAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 28 0.65
43 8 0.19
44 7 0.16
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGGCATCGTATAAGATTTACGTGTAAGACCATATCTGAGACAG
Found at i:37353360 original size:38 final size:38
Alignment explanation
Indices: 37353317--37353390 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 38
37353307 TTTGCTCCAG
37353317 TTTCTGCCGATTTGC-TCCCTCTGTTTCTTTTCTTTTCT
1 TTTCTGCCGATTTGCGT-CCTCTGTTTCTTTTCTTTTCT
*
37353355 TTTCTGCCGATTTGCGTCTTCTGTTTCTTTTCTTTT
1 TTTCTGCCGATTTGCGTCCTCTGTTTCTTTTCTTTT
37353391 TCTTCAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 33 0.97
39 1 0.03
ACGTcount: A:0.03, C:0.26, G:0.12, T:0.59
Consensus pattern (38 bp):
TTTCTGCCGATTTGCGTCCTCTGTTTCTTTTCTTTTCT
Found at i:37356044 original size:11 final size:11
Alignment explanation
Indices: 37356028--37356054 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37356018 TAGAAATTAG
37356028 TTTGTGAAACT
1 TTTGTGAAACT
37356039 TTTGTGAAACT
1 TTTGTGAAACT
37356050 TTTGT
1 TTTGT
37356055 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:37357651 original size:92 final size:91
Alignment explanation
Indices: 37357494--37357702 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
37357484 TTGATTTTAG
* * *
37357494 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
37357559 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
37357586 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
37357650 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
37357678 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
37357703 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:37357665 original size:24 final size:25
Alignment explanation
Indices: 37357630--37357677 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
37357620 TTATGAAATT
37357630 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
37357654 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
37357678 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:37357873 original size:16 final size:16
Alignment explanation
Indices: 37357852--37357893 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37357842 TTATTAAATT
*
37357852 ATATATTTTAATTATA
1 ATATATTTTAATAATA
37357868 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
37357883 AT-TATGTTTAA
1 ATATAT-TTTAA
37357894 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:37357878 original size:15 final size:15
Alignment explanation
Indices: 37357843--37357884 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37357833 TTAAGAATTT
*
37357843 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37357857 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37357871 TATTTAATAATAAT
1 TATTTAATTATAAT
37357885 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37358128 original size:16 final size:16
Alignment explanation
Indices: 37358107--37358176 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
37358097 TTGATTTGCT
37358107 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
37358123 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
*
37358139 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
37358155 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
37358171 AATACA
1 ATTACA
37358177 ACGAATCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:37358499 original size:190 final size:190
Alignment explanation
Indices: 37358176--37358556 Score: 762
Period size: 190 Copynumber: 2.0 Consensus size: 190
37358166 ATTCCAATAC
37358176 AACGAATCAAACGTGCTCTTAAGGTTTTACTAATTTAATTGGCACGGGTTGAAATCTCACTATAT
1 AACGAATCAAACGTGCTCTTAAGGTTTTACTAATTTAATTGGCACGGGTTGAAATCTCACTATAT
37358241 GCATATTTTTCTTGGTTTTTGTTAAAATGAAAAAACTAAAATGCCCTTGAATAATATGACTCATT
66 GCATATTTTTCTTGGTTTTTGTTAAAATGAAAAAACTAAAATGCCCTTGAATAATATGACTCATT
37358306 TTAATTACGGAAGAATATTTTCATAATTTCTTAACCGAGTTAGTATCCGATTAACCCGTA
131 TTAATTACGGAAGAATATTTTCATAATTTCTTAACCGAGTTAGTATCCGATTAACCCGTA
37358366 AACGAATCAAACGTGCTCTTAAGGTTTTACTAATTTAATTGGCACGGGTTGAAATCTCACTATAT
1 AACGAATCAAACGTGCTCTTAAGGTTTTACTAATTTAATTGGCACGGGTTGAAATCTCACTATAT
37358431 GCATATTTTTCTTGGTTTTTGTTAAAATGAAAAAACTAAAATGCCCTTGAATAATATGACTCATT
66 GCATATTTTTCTTGGTTTTTGTTAAAATGAAAAAACTAAAATGCCCTTGAATAATATGACTCATT
37358496 TTAATTACGGAAGAATATTTTCATAATTTCTTAACCGAGTTAGTATCCGATTAACCCGTA
131 TTAATTACGGAAGAATATTTTCATAATTTCTTAACCGAGTTAGTATCCGATTAACCCGTA
37358556 A
1 A
37358557 CACCAATTAA
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
190 191 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (190 bp):
AACGAATCAAACGTGCTCTTAAGGTTTTACTAATTTAATTGGCACGGGTTGAAATCTCACTATAT
GCATATTTTTCTTGGTTTTTGTTAAAATGAAAAAACTAAAATGCCCTTGAATAATATGACTCATT
TTAATTACGGAAGAATATTTTCATAATTTCTTAACCGAGTTAGTATCCGATTAACCCGTA
Found at i:37361798 original size:18 final size:18
Alignment explanation
Indices: 37361759--37361805 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
37361749 TTGGACTTTT
* *
37361759 TTTTAATAATTTGTTAAT
1 TTTTAATAATTTGTGAAA
37361777 TTTTAATAATTT-TAGAAA
1 TTTTAATAATTTGT-GAAA
*
37361795 TTTTTATAATT
1 TTTTAATAATT
37361806 CTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTAATAATTTGTGAAA
Found at i:37361805 original size:28 final size:27
Alignment explanation
Indices: 37361773--37361844 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
37361763 AATAATTTGT
37361773 TAATTTTTAATAATTTTAGAAATTTT-TA
1 TAATTTTTAATAATTTT--AAATTTTCTA
*
37361801 TAATTCTTAATAATATTTAAATTTTCTA
1 TAATTTTTAATAAT-TTTAAATTTTCTA
*
37361829 TAGTTTTT-ATAATTTT
1 TAATTTTTAATAATTTT
37361845 TTTAAAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 3 0.08
27 12 0.31
28 21 0.54
29 3 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (27 bp):
TAATTTTTAATAATTTTAAATTTTCTA
Found at i:37363918 original size:25 final size:25
Alignment explanation
Indices: 37363888--37364053 Score: 332
Period size: 25 Copynumber: 6.6 Consensus size: 25
37363878 GCCCTCTTTC
37363888 GAGCCATGTAACGGGAAGCTTATGT
1 GAGCCATGTAACGGGAAGCTTATGT
37363913 GAGCCATGTAACGGGAAGCTTATGT
1 GAGCCATGTAACGGGAAGCTTATGT
37363938 GAGCCATGTAACGGGAAGCTTATGT
1 GAGCCATGTAACGGGAAGCTTATGT
37363963 GAGCCATGTAACGGGAAGCTTATGT
1 GAGCCATGTAACGGGAAGCTTATGT
37363988 GAGCCATGTAACGGGAAGCTTATGT
1 GAGCCATGTAACGGGAAGCTTATGT
37364013 GAGCCATGTAACGGGAAGCTTATGT
1 GAGCCATGTAACGGGAAGCTTATGT
37364038 GAGCCATGTAACGGGA
1 GAGCCATGTAACGGGA
37364054 GACCCGCCGA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 141 1.00
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (25 bp):
GAGCCATGTAACGGGAAGCTTATGT
Found at i:37364333 original size:25 final size:25
Alignment explanation
Indices: 37364282--37364347 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
37364272 GCTATTAATA
** * *
37364282 GGAAGCTCGCAAGAACCATATAACG
1 GGAAGCTCGTGAGAGCCAAATAACG
*
37364307 GGAAGCTCGTGAGAGCCAAATATCG
1 GGAAGCTCGTGAGAGCCAAATAACG
* *
37364332 GGATGCTCATGAGAGC
1 GGAAGCTCGTGAGAGC
37364348 TAATAACAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.15
Consensus pattern (25 bp):
GGAAGCTCGTGAGAGCCAAATAACG
Found at i:37364711 original size:10 final size:11
Alignment explanation
Indices: 37364691--37364719 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
37364681 GAATTAAATA
37364691 TCAATTCATAT
1 TCAATTCATAT
37364702 TCAATT-ATAT
1 TCAATTCATAT
37364712 TCAATTCA
1 TCAATTCA
37364720 CACCTTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (11 bp):
TCAATTCATAT
Found at i:37367602 original size:18 final size:19
Alignment explanation
Indices: 37367581--37367624 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
37367571 AATTAATTCC
*
37367581 TTATAAAT-TTTACATTTT
1 TTATAAATATATACATTTT
*
37367599 TTATAAATATATATATTTT
1 TTATAAATATATACATTTT
37367618 TTA-AAAT
1 TTATAAAT
37367625 CACGTCTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATAAATATATACATTTT
Found at i:37374408 original size:14 final size:14
Alignment explanation
Indices: 37374389--37374416 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37374379 TATATTAGTA
37374389 TTTTCTATTCTATT
1 TTTTCTATTCTATT
37374403 TTTTCTATTCTATT
1 TTTTCTATTCTATT
37374417 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:37374428 original size:5 final size:6
Alignment explanation
Indices: 37374413--37374645 Score: 158
Period size: 5 Copynumber: 43.2 Consensus size: 6
37374403 TTTTCTATTC
* *
37374413 TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
* * * *
37374457 TATT-C TATT-C TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
* * *
37374500 TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG -ATTAG TATT-C
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
* * *
37374543 TATT-C TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
* *
37374587 -ATTAG TATT-C TATT-C TATTAG TATTAG -ATTAG TATTAG --TTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
37374629 -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG T
37374646 TAGTGATCCC
Statistics
Matches: 196, Mismatches: 14, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.02
5 112 0.57
6 80 0.41
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:37374435 original size:27 final size:27
Alignment explanation
Indices: 37374405--37374622 Score: 436
Period size: 27 Copynumber: 8.1 Consensus size: 27
37374395 ATTCTATTTT
37374405 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374432 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374459 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374486 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374513 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374540 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374567 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374594 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
37374621 TT
1 TT
37374623 AGTTAGATTA
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.52
Consensus pattern (27 bp):
TTCTATTCTATTAGTATTAGATTAGTA
Found at i:37379667 original size:16 final size:16
Alignment explanation
Indices: 37379642--37379673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37379632 TCAAAATTAA
*
37379642 ACAAATTAATTTCTCT
1 ACAAAATAATTTCTCT
37379658 ACAAAATAATTTCTCT
1 ACAAAATAATTTCTCT
37379674 CTCTTAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (16 bp):
ACAAAATAATTTCTCT
Found at i:37392442 original size:43 final size:43
Alignment explanation
Indices: 37392384--37392506 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
37392374 GTTTACAAAC
*
37392384 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTAGAAA
* *****
37392427 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGC-ATTTTTTT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTAGAAA
* *
37392469 ACAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTT
37392507 TTATACAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTAGAAA
Found at i:37392514 original size:42 final size:42
Alignment explanation
Indices: 37392386--37392515 Score: 170
Period size: 42 Copynumber: 3.1 Consensus size: 42
37392376 TTACAAACAA
* ** * *
37392386 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAA
1 AAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTT-TTATAC
** *
37392429 AAACGCCGCTAAAGACCATGTTCTTTAGTGGCATTTTTTTAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTTTATAC
*
37392471 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTTTATAC
37392513 AAA
1 AAA
37392516 AACGCCACTA
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 42 0.56
43 33 0.44
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTTTATAC
Found at i:37392599 original size:14 final size:14
Alignment explanation
Indices: 37392576--37392609 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
37392566 GCCCTCCTGT
*
37392576 AGCAAAAATTCAAA
1 AGCAACAATTCAAA
37392590 AGCAACAATTCAAA
1 AGCAACAATTCAAA
37392604 AGCAAC
1 AGCAAC
37392610 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:37392862 original size:21 final size:21
Alignment explanation
Indices: 37392836--37392903 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
37392826 TTCTCTGCTT
*
37392836 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
37392857 TGCTTCCCTCGCTGCAG-CTGC
1 TGCTTCCCTCGCTGCAGCCT-C
* *
37392878 TGCTTCCCTCGCTTCCGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
37392899 TGCTT
1 TGCTT
37392904 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.03, C:0.44, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:37399529 original size:18 final size:18
Alignment explanation
Indices: 37399506--37399570 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
37399496 AATTTTATCT
37399506 ATTTATTTATAAAGACTA
1 ATTTATTTATAAAGACTA
*** *
37399524 ATTTATTTATTTATTTA-AA
1 ATTTATTTA--TAAAGACTA
*
37399543 ATTTTTTTATAAAGACTA
1 ATTTATTTATAAAGACTA
37399561 ATTTATTTAT
1 ATTTATTTAT
37399571 TTTTTGAGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
17 3 0.09
18 19 0.56
19 9 0.26
20 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTATTTATAAAGACTA
Found at i:37400711 original size:19 final size:19
Alignment explanation
Indices: 37400668--37400711 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37400658 CTGGACTACG
*
37400668 TTGGGGAACTATTAGGAAT
1 TTGGGGAAATATTAGGAAT
* * *
37400687 TAGGGGAAATTTTAGGGAT
1 TTGGGGAAATATTAGGAAT
37400706 TTGGGG
1 TTGGGG
37400712 GAGATGTCTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.39, T:0.32
Consensus pattern (19 bp):
TTGGGGAAATATTAGGAAT
Found at i:37401661 original size:229 final size:231
Alignment explanation
Indices: 37401074--37401736 Score: 1012
Period size: 229 Copynumber: 2.9 Consensus size: 231
37401064 TAAAACCAAC
* * *
37401074 TAAGGAAACGGCGTCGTTTTCCGTAACACCATTTCGATTTTG-AGGCGTTTATATATAAGCGCCA
1 TAAGAAAACGGCGCCGTTTTTCGTAACACCATTTCGATTTTGCA-GCGTTTATATATAAGCGCCA
* * * * *
37401138 CCAAATATAAGGTCAAACGCAGTCGTTTAAACCAAACTCCTGTAATCTTTAAAATATATTTGCGG
65 CTAAATATAAGGTCAAACGCAGTCGTTTAAAGCAAACTCCTATAATCTTTAAAATTTATTTGAGG
* * * * * *** *
37401203 CGTTTTGGGTGTAACGCCACAAATATC-CTTGAAAACGACGCCGTTT-CTGTAACAAAGAAAATA
130 CATTTCGGGTATAACGCCACTAATAACAAAGGAAAACGACGCCGTTTAC-GTAACAAAGAAAACA
*
37401266 TACTTGCGGCGTTTTATCTAAAACGCCACTAAATGTAA
194 TACTTGCGGCATTTTATCTAAAACGCCACTAAATGTAA
* * * * *
37401304 TAAGAAAATGGTGCCGTTTTTTGTAACACCATTTTCGAGTTTGCGGCGTTTATATATAAGCGCCA
1 TAAGAAAACGGCGCCGTTTTTCGTAACACCA-TTTCGATTTTGCAGCGTTTATATATAAGCGCCA
*
37401369 CTAAATATAAGGTCAAACGCAGTCGTTTAACGCAAACTCCTATAATCTTTAAAATTTATTTGAGG
65 CTAAATATAAGGTCAAACGCAGTCGTTTAAAGCAAACTCCTATAATCTTTAAAATTTATTTGAGG
37401434 CATTTCGGGTATAACGCCACTAATAACAAAGGAAAACGACGCCGTTTACGTAACAAAGAAAACAT
130 CATTTCGGGTATAACGCCACTAATAACAAAGGAAAACGACGCCGTTTACGTAACAAAGAAAACAT
*
37401499 ACTTGCGGCATTTTCTCTAAAACGCCACTAAATGTAA
195 ACTTGCGGCATTTTATCTAAAACGCCACTAAATGTAA
* *
37401536 TAA-AAAACGGCGCCGTTTTTCGTAACACCATTTCGATTTTGCAGCGTTTATATAT-AGTGACAC
1 TAAGAAAACGGCGCCGTTTTTCGTAACACCATTTCGATTTTGCAGCGTTTATATATAAGCGCCAC
*
37401599 TAAATATAAGGTCAAACGCAGTCGTTTAATGCAAACTCCTATAATCTTTAAAATTTATTTGAGGC
66 TAAATATAAGGTCAAACGCAGTCGTTTAAAGCAAACTCCTATAATCTTTAAAATTTATTTGAGGC
37401664 ATTTCGGGTATAACGCCACTAATAACAAAGGAAAACGACGCCGTTTACGTAACAAAGAAAACATA
131 ATTTCGGGTATAACGCCACTAATAACAAAGGAAAACGACGCCGTTTACGTAACAAAGAAAACATA
37401729 CTTGCGGC
196 CTTGCGGC
37401737 CCGTTTCCGT
Statistics
Matches: 396, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
229 143 0.36
230 48 0.12
231 135 0.34
232 69 0.17
233 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (231 bp):
TAAGAAAACGGCGCCGTTTTTCGTAACACCATTTCGATTTTGCAGCGTTTATATATAAGCGCCAC
TAAATATAAGGTCAAACGCAGTCGTTTAAAGCAAACTCCTATAATCTTTAAAATTTATTTGAGGC
ATTTCGGGTATAACGCCACTAATAACAAAGGAAAACGACGCCGTTTACGTAACAAAGAAAACATA
CTTGCGGCATTTTATCTAAAACGCCACTAAATGTAA
Found at i:37401748 original size:33 final size:33
Alignment explanation
Indices: 37401704--37401769 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
37401694 GAAAACGACG
37401704 CCGTTTACGTAACAAAGAAAACATACTTGCGGC
1 CCGTTTACGTAACAAAGAAAACATACTTGCGGC
*
37401737 CCGTTTCCGTAACAAAGAAAACATACTTGCGGC
1 CCGTTTACGTAACAAAGAAAACATACTTGCGGC
37401770 GTTTTATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (33 bp):
CCGTTTACGTAACAAAGAAAACATACTTGCGGC
Found at i:37402290 original size:7 final size:7
Alignment explanation
Indices: 37402278--37402314 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
37402268 AACTTAAAAA
*
37402278 CCCAAAT
1 CCCAAAC
37402285 CCCAAAC
1 CCCAAAC
37402292 CCCAAAC
1 CCCAAAC
37402299 CCCAAAC
1 CCCAAAC
*
37402306 CACAAAC
1 CCCAAAC
37402313 CC
1 CC
37402315 TTACCCCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.43, C:0.54, G:0.00, T:0.03
Consensus pattern (7 bp):
CCCAAAC
Found at i:37402631 original size:15 final size:16
Alignment explanation
Indices: 37402603--37402633 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37402593 CCCTAACCCG
37402603 ACCCCTATAACCCTAA
1 ACCCCTATAACCCTAA
37402619 ACCCCTA-AACCCTAA
1 ACCCCTATAACCCTAA
37402634 GTCTTAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (16 bp):
ACCCCTATAACCCTAA
Found at i:37402914 original size:18 final size:21
Alignment explanation
Indices: 37402891--37402939 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
37402881 ATTAATCACG
37402891 ATATTAATTTG-GTG-TTT-T
1 ATATTAATTTGTGTGATTTAT
* *
37402909 ATATTACTTTGTTTGATTTAT
1 ATATTAATTTGTGTGATTTAT
37402930 ATATTAATTT
1 ATATTAATTT
37402940 AGTCGAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 3 0.12
21 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
ATATTAATTTGTGTGATTTAT
Found at i:37403538 original size:113 final size:113
Alignment explanation
Indices: 37403289--37403620 Score: 331
Period size: 113 Copynumber: 2.9 Consensus size: 113
37403279 CGCTTCCAAA
* * * *
37403289 AAAACGCCGCTAAAGA-ACAAATCATTAGCGGCGCTTTTAAGAAAGCGCCGCTAAAGGCCCAAAA
1 AAAACGCCGCGAAAGATAC-GAGCATTAGCGGCGCTTTTAAAAAAGCGCCGCTAAAGGCCCAAAA
*
37403353 ACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG-TTTCTCAG
65 ACATAGAAAACGGCGTCGTTG-CCTTAGGTTTTTTGCGGCGCTTTCTCAG
* * * **
37403402 AAAACGCCGCGAAAGATATGAGCATTACCGGCGCTTTTAAAAAAGCGCCGCAAAAGGGACAAAAA
1 AAAACGCCGCGAAAGATACGAGCATTAGCGGCGCTTTTAAAAAAGCGCCGCTAAAGGCCCAAAAA
* * * *
37403467 C-TCGAAAACGACGTCGTTCGCATTAGGTTTTTTGCGGCGCTTT-TTAG
66 CATAGAAAACGGCGTCGTT-GCCTTAGGTTTTTTGCGGCGCTTTCTCAG
* * * * *
37403514 AAATCGCCGC-AAAG-TCCCCCGAGCATTAGCAGCGTTTTTATAAAAA-C-CCGCTAATGGCCCA
1 AAAACGCCGCGAAAGAT---ACGAGCATTAGCGGCGCTTTTA-AAAAAGCGCCGCTAAAGGCCCA
* * *
37403575 AAAACTTAGTAAACGGCGTCGTTGGCCTTA-TTTTTTTGCGGCGCTT
62 AAAACATAGAAAACGGCGTCGTT-GCCTTAGGTTTTTTGCGGCGCTT
37403621 GTTGTGAATC
Statistics
Matches: 181, Mismatches: 30, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
110 1 0.01
111 4 0.02
112 74 0.41
113 96 0.53
114 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (113 bp):
AAAACGCCGCGAAAGATACGAGCATTAGCGGCGCTTTTAAAAAAGCGCCGCTAAAGGCCCAAAAA
CATAGAAAACGGCGTCGTTGCCTTAGGTTTTTTGCGGCGCTTTCTCAG
Found at i:37403577 original size:112 final size:113
Alignment explanation
Indices: 37403319--37403620 Score: 314
Period size: 112 Copynumber: 2.7 Consensus size: 113
37403309 ATCATTAGCG
* *
37403319 GCGCTTTTAAGAAAGCGCCGCTAAAGGCCCAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTT
1 GCGCTTTTAAAAAAGCGCCGCTAAAGGCCCAAAAACATAGAAAACGGCGTCGTTG-CCTTAGGTT
* *
37403384 TTTTGCGGCG-TTTCTCAGAAAACGCCGCGAAAGATATGAGCATTACCG
65 TTTTGCGGCGCTTTCTCAGAAAACGCCGCGAAAGATACGAGCATTACCA
* ** * * *
37403432 GCGCTTTTAAAAAAGCGCCGCAAAAGGGACAAAAAC-TCGAAAACGACGTCGTTCGCATTAGGTT
1 GCGCTTTTAAAAAAGCGCCGCTAAAGGCCCAAAAACATAGAAAACGGCGTCGTT-GCCTTAGGTT
* * * *
37403496 TTTTGCGGCGCTTT-TTAGAAATCGCCGC-AAAG-TCCCCCGAGCATTAGCA
65 TTTTGCGGCGCTTTCTCAGAAAACGCCGCGAAAGAT---ACGAGCATTACCA
* * * * *
37403545 GCGTTTTTATAAAAA-C-CCGCTAATGGCCCAAAAACTTAGTAAACGGCGTCGTTGGCCTTA-TT
1 GCGCTTTTA-AAAAAGCGCCGCTAAAGGCCCAAAAACATAGAAAACGGCGTCGTT-GCCTTAGGT
37403607 TTTTTGCGGCGCTT
64 TTTTTGCGGCGCTT
37403621 GTTGTGAATC
Statistics
Matches: 157, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
110 1 0.01
111 4 0.03
112 74 0.47
113 73 0.46
114 5 0.03
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (113 bp):
GCGCTTTTAAAAAAGCGCCGCTAAAGGCCCAAAAACATAGAAAACGGCGTCGTTGCCTTAGGTTT
TTTGCGGCGCTTTCTCAGAAAACGCCGCGAAAGATACGAGCATTACCA
Found at i:37406276 original size:30 final size:32
Alignment explanation
Indices: 37406242--37406300 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
37406232 CAAGATCTAT
*
37406242 AAATATAAA-TAAAT-ATTTATATATAAAATA
1 AAATAAAAATTAAATAATTTATATATAAAATA
*
37406272 AAATAAAAATTAAATAATTTATATTTAAA
1 AAATAAAAATTAAATAATTTATATATAAA
37406301 TTGTTAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 5 0.20
32 12 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
AAATAAAAATTAAATAATTTATATATAAAATA
Found at i:37409635 original size:82 final size:82
Alignment explanation
Indices: 37409467--37409636 Score: 191
Period size: 82 Copynumber: 2.1 Consensus size: 82
37409457 ATTAAATCAA
* * * ** *
37409467 AATAAAATTGGTTAAACGGCGGGAATAAATCCCGAAACAGAATTCTTTGATTAAGTCTTCGTTTG
1 AATAAAATTGGTTAAACGACGGGAATAAATCCCGAAACAGAATTATTCGATTAAGTCTTAATTTA
* *
37409532 GAAACAAATCAAGATCT
66 GAAACAAATCAAAATCG
* * * *
37409549 AATAAAATTTGTTAAACGATGGGAATAAATCTCGAAACAG-ATTATTCGATTTAATTC-TAATTT
1 AATAAAATTGGTTAAACGACGGGAATAAATCCCGAAACAGAATTATTCGA-TTAAGTCTTAATTT
*
37409612 AGAAACAAAATTAAAATCG
65 AGAAAC-AAATCAAAATCG
37409631 AATAAA
1 AATAAA
37409637 TTCTATTAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
81 16 0.22
82 57 0.78
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (82 bp):
AATAAAATTGGTTAAACGACGGGAATAAATCCCGAAACAGAATTATTCGATTAAGTCTTAATTTA
GAAACAAATCAAAATCG
Found at i:37409723 original size:87 final size:88
Alignment explanation
Indices: 37409613--37410231 Score: 687
Period size: 87 Copynumber: 7.2 Consensus size: 88
37409603 TTCTAATTTA
* * * * * * * *
37409613 GAAACAAAAT-TAAAATCGAATAAATTCTATTAAACAGCGGGATTAGATCCCAG-AATAGATTTT
1 GAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAATAGATTTT
*
37409676 ATTTAATTTTAATTTCTCGTTTA
66 ATTTAATTTTAATTTCTCGTTTG
* *
37409699 GAAA-AAAATAAAAAAATGGAATAAAATC-AGTTGAACGGCGGGAATAAAACCC-GAAACAAATT
1 GAAACAAAAT-AAAAAATGGAATAAAATCTA-TTGAACGGCGGGAATAAAACCCAGAAATAGATT
37409761 TTATTTAATTTTAATTTCTCGTTTG
64 TTATTTAATTTTAATTTCTCGTTTG
* * * * *
37409786 GCAA-AAAATAAAAAATGGAATAAAATCTATTGAACAGCGAGAATAAAACCC-GAAACATATTTT
1 GAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAATAGATTTT
*
37409849 ATTTAATTTTAATTTCTCTTTTG
66 ATTTAATTTTAATTTCTCGTTTG
* * * * * *
37409872 GCAACAAAATAAAAAATGGAATAAAGTCTGTTTAATGGCGAGAATAAAACCCA-AAACT-GATTT
1 GAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAA-TAGATTT
37409935 TATTTAATTTTAATTTCTCGTTT-
65 TATTTAATTTTAATTTCTCGTTTG
* *
37409958 GACAACAAAATAAAAAATGGAAAAAAATCTGTTGAACGGCGGGAATAAAACCCA-AAATAGATTT
1 GA-AACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAATAGATTT
* * *
37410022 TATTTAATTTT-AGTACTTGTTTG
65 TATTTAATTTTAATTTCTCGTTTG
* * *
37410045 GAAACAAAATAAAAGATGGAATAAAATCTATTGAACGACGGGAAT-AAACCCTGAAATAGATTTT
1 GAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAATAGATTTT
* * *
37410109 ATTTTATTTTAA-TACTCATTTG
66 ATTTAATTTTAATTTCTCGTTTG
* * * * *
37410131 GAAACAAAAGAAAAAAATGGAATAAAATCTGTTGAACGG-GGGAA-CAAATCCTGAAATAGAGTT
1 GAAACAAAA-TAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAATAGA-TT
* * *
37410194 TTATTTAATTTTAA-TACTTGTTGG
64 TTATTTAATTTTAATTTCTCGTTTG
37410218 GAAACAAAATAAAA
1 GAAACAAAATAAAA
37410232 TATGAACGGC
Statistics
Matches: 466, Mismatches: 51, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
85 11 0.02
86 190 0.41
87 265 0.57
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (88 bp):
GAAACAAAATAAAAAATGGAATAAAATCTATTGAACGGCGGGAATAAAACCCAGAAATAGATTTT
ATTTAATTTTAATTTCTCGTTTG
Found at i:37409853 original size:173 final size:172
Alignment explanation
Indices: 37409666--37410231 Score: 676
Period size: 173 Copynumber: 3.3 Consensus size: 172
37409656 TAGATCCCAG
*
37409666 AATAGATTTTATTTAATTTTAATTTCTCGTTTAGAAAAAAATAAAAAAATGGAATAAAATCAGTT
1 AATAGATTTTATTTAATTTTAATTTCTCGTTTGGAAAAAAAT-AAAAAATGGAATAAAATCAGTT
*
37409731 GAACGGCGGGAATAAAACCCGAAACAAATTTTATTTAATTTTAATTTCTCGTTTGGCAA-AAAAT
65 GAACGGCGGGAATAAAACCCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTGGCAACAAAAT
* *
37409795 AAAAAATGGAATAAAATCTATTGAACAGCGAGAATAAAACCCGA
130 AAAAAATGGAATAAAATCTGTTGAAC-GCGGGAATAAAACCCGA
* * * * * *
37409839 AACATATTTTATTTAATTTTAATTTCTCTTTTGGCAACAAAATAAAAAATGGAATAAAGTCTGTT
1 AATAGATTTTATTTAATTTTAATTTCTCGTTTGG-AAAAAAATAAAAAATGGAATAAAATCAGTT
* * * * * *
37409904 TAATGGCGAGAATAAAACCCAAAACTGATTTTATTTAATTTTAATTTCTCGTTTGACAACAAAAT
65 GAACGGCGGGAATAAAACCCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTGGCAACAAAAT
* *
37409969 AAAAAATGGAAAAAAATCTGTTGAACGGCGGGAATAAAACCCAA
130 AAAAAATGGAATAAAATCTGTTGAAC-GCGGGAATAAAACCCGA
* * * *
37410013 AATAGATTTTATTTAATTTT-AGTACTTGTTTGGAAACAAAATAAAAGATGGAATAAAATCTA-T
1 AATAGATTTTATTTAATTTTAATTTCTCGTTTGGAAA-AAAATAAAAAATGGAATAAAATC-AGT
* * * * * *
37410076 TGAACGACGGGAAT-AAACCCTGAAATAGATTTTATTTTATTTTAA-TACTCATTTGGAAACAAA
64 TGAACGGCGGGAATAAAACCC-GAAACAGATTTTATTTAATTTTAATTTCTCGTTTGGCAACAAA
* * * * *
37410139 AGAAAAAAATGGAATAAAATCTGTTGAACGGGGGAACAAATCCTGA
128 A-TAAAAAATGGAATAAAATCTGTTGAACGCGGGAATAAAACCCGA
* * *
37410185 AATAGAGTTTTATTTAATTTTAA-TACTTGTTGGGAAACAAAATAAAA
1 AATAGA-TTTTATTTAATTTTAATTTCTCGTTTGGAAA-AAAATAAAA
37410232 TATGAACGGC
Statistics
Matches: 336, Mismatches: 49, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
172 41 0.12
173 225 0.67
174 70 0.21
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (172 bp):
AATAGATTTTATTTAATTTTAATTTCTCGTTTGGAAAAAAATAAAAAATGGAATAAAATCAGTTG
AACGGCGGGAATAAAACCCGAAACAGATTTTATTTAATTTTAATTTCTCGTTTGGCAACAAAATA
AAAAATGGAATAAAATCTGTTGAACGCGGGAATAAAACCCGA
Found at i:37410931 original size:20 final size:20
Alignment explanation
Indices: 37410908--37410949 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
37410898 TTAAATCCAT
*
37410908 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
*
37410928 TTGATTAGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
37410948 TT
1 TT
37410950 AGGATACGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:37424368 original size:5 final size:5
Alignment explanation
Indices: 37424360--37424409 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
37424350 TTTATGAATA
37424360 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
37424410 TCATATTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:37427307 original size:23 final size:22
Alignment explanation
Indices: 37427267--37427315 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
37427257 ATAGAAAAAG
*
37427267 ATATATATGCAACGATATATATT
1 ATATATATGAAACGATATATA-T
37427290 ATATATTATGAAAC-ATATATAT
1 ATATA-TATGAAACGATATATAT
37427312 ATAT
1 ATAT
37427316 TAATATTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (22 bp):
ATATATATGAAACGATATATAT
Found at i:37430468 original size:22 final size:22
Alignment explanation
Indices: 37430437--37430479 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37430427 TAGTGGCGTT
* *
37430437 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
37430459 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
37430480 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:37431177 original size:11 final size:10
Alignment explanation
Indices: 37431162--37431263 Score: 77
Period size: 10 Copynumber: 10.4 Consensus size: 10
37431152 ACATGTGGAA
37431162 AAAAAATTAT
1 AAAAAATTAT
37431172 -AAAAA--AT
1 AAAAAATTAT
37431179 AAAAAATTAT
1 AAAAAATTAT
37431189 AAAAAAATTAT
1 -AAAAAATTAT
* **
37431200 TAAATTTTAAT
1 AAAAAATT-AT
37431211 AAAAAATTAT
1 AAAAAATTAT
*
37431221 TAAAAATTAT
1 AAAAAATTAT
**
37431231 AAAATTTTAT
1 AAAAAATTAT
*
37431241 -AAAAATCAT
1 AAAAAATTAT
* *
37431250 AACAAATTCT
1 AAAAAATTAT
37431260 AAAA
1 AAAA
37431264 TGCATCAAAA
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 11 0.16
10 34 0.49
11 17 0.25
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:37431184 original size:17 final size:17
Alignment explanation
Indices: 37431162--37431194 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37431152 ACATGTGGAA
37431162 AAAAAATTATAAAAAAT
1 AAAAAATTATAAAAAAT
37431179 AAAAAATTATAAAAAA
1 AAAAAATTATAAAAAA
37431195 ATTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATTATAAAAAAT
Found at i:37431215 original size:31 final size:31
Alignment explanation
Indices: 37431161--37431245 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
37431151 GACATGTGGA
*
37431161 AAAAAAATTATAAAA---AATAAAAAATTAT
1 AAAAAAATTATAAAATTTTATAAAAAATTAT
*
37431189 AAAAAAATTATTAAATTTTAATAAAAAATTAT
1 AAAAAAATTATAAAATTTT-ATAAAAAATTAT
*
37431221 -TAAAAATTATAAAATTTTATAAAAA
1 AAAAAAATTATAAAATTTTATAAAAA
37431246 TCATAACAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.29
30 7 0.14
31 16 0.33
32 12 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAAAATTATAAAATTTTATAAAAAATTAT
Found at i:37431743 original size:29 final size:30
Alignment explanation
Indices: 37431673--37431744 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 30
37431663 TTTTATCGAG
* * **
37431673 TTTTATAATTTTT-TTCTAATTTTAAGTAT
1 TTTTATAATTTTTATTCAAAATTTAACAAT
37431702 TTTTATAA-TTTTATT-AAAATTTAACAAT
1 TTTTATAATTTTTATTCAAAATTTAACAAT
37431730 TTTTATAATTTTTAT
1 TTTTATAATTTTTAT
37431745 AACTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTATAATTTTTATTCAAAATTTAACAAT
Found at i:37431751 original size:10 final size:9
Alignment explanation
Indices: 37431673--37431778 Score: 56
Period size: 9 Copynumber: 11.4 Consensus size: 9
37431663 TTTTATCGAG
37431673 TTTTATAATTT
1 TTTTATAA--T
*
37431684 TTTTCTAAT
1 TTTTATAAT
*
37431693 TTTAAGT-AT
1 TTTTA-TAAT
37431702 TTTTATAA-
1 TTTTATAAT
*
37431710 TTTTATTAAAA
1 TTTTA-T-AAT
* *
37431721 TTTAACAAT
1 TTTTATAAT
37431730 TTTTATAAT
1 TTTTATAAT
*
37431739 TTTTATAAC
1 TTTTATAAT
*
37431748 TTTTATTGAT
1 TTTTA-TAAT
*
37431758 TTTTAT-TT
1 TTTTATAAT
*
37431766 TTTTATCAT
1 TTTTATAAT
37431775 TTTT
1 TTTT
37431779 CTGTCACATA
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
8 13 0.18
9 40 0.54
10 10 0.14
11 11 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:37432293 original size:25 final size:25
Alignment explanation
Indices: 37432238--37432295 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
37432228 ATATTAATGG
* *
37432238 TAAAATACTTAAAATTAATAGAAAA
1 TAAAATACTAAAAATAAATAGAAAA
*
37432263 TAAAAATACTAAAAATAAATTA-AGAA
1 T-AAAATACTAAAAATAAA-TAGAAAA
37432289 TAAAATA
1 TAAAATA
37432296 AAATAAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.25
26 19 0.68
27 2 0.07
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (25 bp):
TAAAATACTAAAAATAAATAGAAAA
Found at i:37433451 original size:11 final size:12
Alignment explanation
Indices: 37433435--37433464 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
37433425 TTAAAGAAAA
37433435 ATCATTAAA-TC
1 ATCATTAAATTC
37433446 ATCATTAAATTC
1 ATCATTAAATTC
37433458 ATCATTA
1 ATCATTA
37433465 TTCTTCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (12 bp):
ATCATTAAATTC
Done.