Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 116 of 202
Found at i:35566384 original size:28 final size:28
Alignment explanation
Indices: 35566167--35566384 Score: 294
Period size: 28 Copynumber: 7.8 Consensus size: 28
35566157 AACAGTATTG
* *
35566167 TGTGGGCCTTAGCCCAATACAGCAATAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
* * **
35566195 TGTGGGCCCTAGCCTAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
* **
35566223 -GATGGGTCTTAGCCCAATACAGTAACAA
1 TG-TGGGCCTTAGCCCAATACAACAACAA
* *
35566251 TGTGGGCCTTAGCCCAAAACATCAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
*
35566279 TGTGGGCCTTAGCCCAATACAAGAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
* *
35566307 TGTGGGCCTTAGCCCAACACAATAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
35566335 TGTGGGCCTTAGCCCAATACAACAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
35566363 TGTGGGCCTTAGCCCAATACAA
1 TGTGGGCCTTAGCCCAATACAA
35566385 TATCGGTATA
Statistics
Matches: 170, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
27 1 0.01
28 168 0.99
29 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAACAACAA
Found at i:35566384 original size:84 final size:85
Alignment explanation
Indices: 35566167--35566384 Score: 325
Period size: 84 Copynumber: 2.6 Consensus size: 85
35566157 AACAGTATTG
* * * * *
35566167 TGTGGGCCTTAGCCCAATACAGCAATAATGTGGGCCCTAGCCTAATAC-AGTAACAAGATGGGTC
1 TGTGGGCCTTAGCCCAATACAACAACAATGTGGGCCTTAGCCCAATACAAGTAACAAGATGGGCC
* *
35566231 TTAGCCCAATACAGTAACAA
66 TTAGCCCAACACAATAACAA
* *
35566251 TGTGGGCCTTAGCCCAAAACATCAACAATGTGGGCCTTAGCCCAATACAAG-AACAATG-TGGGC
1 TGTGGGCCTTAGCCCAATACAACAACAATGTGGGCCTTAGCCCAATACAAGTAACAA-GATGGGC
35566314 CTTAGCCCAACACAATAACAA
65 CTTAGCCCAACACAATAACAA
35566335 TGTGGGCCTTAGCCCAATACAACAACAATGTGGGCCTTAGCCCAATACAA
1 TGTGGGCCTTAGCCCAATACAACAACAATGTGGGCCTTAGCCCAATACAA
35566385 TATCGGTATA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 119 0.98
85 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (85 bp):
TGTGGGCCTTAGCCCAATACAACAACAATGTGGGCCTTAGCCCAATACAAGTAACAAGATGGGCC
TTAGCCCAACACAATAACAA
Found at i:35566771 original size:27 final size:27
Alignment explanation
Indices: 35566718--35566850 Score: 105
Period size: 27 Copynumber: 5.0 Consensus size: 27
35566708 ACATAAGGCC
35566718 ATAACAGTCATTTTATCTCCTA-G-GGGT
1 ATAACAGTCATTTTA-C-CCTATGAGGGT
*
35566745 ATAACAGTCATTTTACACTATGAGGGT
1 ATAACAGTCATTTTACCCTATGAGGGT
**
35566772 ATTTC-GATCATTTTACCCTATGAGGGT
1 ATAACAG-TCATTTTACCCTATGAGGGT
*** *
35566799 A-ATTTGGTCATTTTACCCTATGGGGGT
1 ATA-ACAGTCATTTTACCCTATGAGGGT
** *
35566826 ATTTCGGTCATTTTACCCTAT-AGGG
1 ATAACAGTCATTTTACCCTATGAGGG
35566851 GCAATTCGAT
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
25 3 0.03
26 6 0.07
27 80 0.89
28 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATGAGGGT
Found at i:35567001 original size:27 final size:27
Alignment explanation
Indices: 35566751--35567000 Score: 286
Period size: 27 Copynumber: 9.3 Consensus size: 27
35566741 GGGTATAACA
* * *
35566751 GTCATTTTACACTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * *
35566778 ATCATTTTACCCTATGAGGGTAATTTG
1 GTCATTTTACCCTATGGGGGTAATTCG
*
35566805 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* *
35566832 GTCATTTTACCCTATAGGGGCAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * * *
35566859 ATCCTTTTACCCTCTGGGGGTAATTTG
1 GTCATTTTACCCTATGGGGGTAATTCG
*
35566886 GTCATTTTACCCTATGGGGGCAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
*
35566913 ATCATTTTACCC-AGTGGGGGTAATTCG
1 GTCATTTTACCCTA-TGGGGGTAATTCG
* * *
35566940 GTTATTTTATCCTATAGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
* * * *
35566967 GTCATTTAATCCTGTAGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTAATTCG
35566994 GTCATTT
1 GTCATTT
35567001 ATTGACCTTT
Statistics
Matches: 190, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTAATTCG
Found at i:35573911 original size:16 final size:16
Alignment explanation
Indices: 35573890--35573939 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
35573880 ATGAATCCTT
35573890 TTGTGAATTAATTCAC
1 TTGTGAATTAATTCAC
**
35573906 TTGTGAA-TCCTT---
1 TTGTGAATTAATTCAC
35573918 TTGTGAATTAATTCAC
1 TTGTGAATTAATTCAC
35573934 TTGTGA
1 TTGTGA
35573940 TGTTCATGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
15 3 0.12
16 13 0.50
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (16 bp):
TTGTGAATTAATTCAC
Found at i:35573913 original size:28 final size:28
Alignment explanation
Indices: 35573881--35573939 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
35573871 GAATTAATTA
35573881 TGAATCCTTTTGTGAATTAATTCACTTG
1 TGAATCCTTTTGTGAATTAATTCACTTG
35573909 TGAATCCTTTTGTGAATTAATTCACTTG
1 TGAATCCTTTTGTGAATTAATTCACTTG
35573937 TGA
1 TGA
35573940 TGTTCATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (28 bp):
TGAATCCTTTTGTGAATTAATTCACTTG
Found at i:35576125 original size:19 final size:19
Alignment explanation
Indices: 35576103--35576145 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
35576093 ATTGAAAAAC
35576103 TAGTGAATTGTCTACTGGA
1 TAGTGAATTGTCTACTGGA
35576122 TAGTGAATTGTCTACTGGA
1 TAGTGAATTGTCTACTGGA
35576141 TAGTG
1 TAGTG
35576146 TGATAGTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (19 bp):
TAGTGAATTGTCTACTGGA
Found at i:35577798 original size:37 final size:35
Alignment explanation
Indices: 35577735--35577803 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
35577725 ATTCCAACAA
*
35577735 TAATATTATTTTAATAGTTTAATATTAAATTTAATC
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATC
*
35577771 TAATACTTATCTTAATAGTATT-TTATTAATTTA
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTA
35577804 TTATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 11 0.38
37 16 0.55
38 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATC
Found at i:35577937 original size:59 final size:62
Alignment explanation
Indices: 35577821--35577937 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
35577811 ATTGATTATC
* * * * *
35577821 TTAAAATTAAATTTCATTTAATGTTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAAAATTAAATTTAATCTAATATTTATCTTGTAGATAAACATTATATTAATTTAATAAGAT
* *
35577883 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATA
1 TTAAAATTAAATTTAATCTAATATTTATCTTGTAGATAAACATTATATTAATTTAATA
35577938 TTGAATTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
60 1 0.02
61 1 0.02
62 25 0.52
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (62 bp):
TTAAAATTAAATTTAATCTAATATTTATCTTGTAGATAAACATTATATTAATTTAATAAGAT
Found at i:35579942 original size:50 final size:50
Alignment explanation
Indices: 35579831--35580078 Score: 243
Period size: 50 Copynumber: 4.9 Consensus size: 50
35579821 ATTTGGGTAA
*
35579831 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ATCGAG---ATG
* *
35579887 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* ** * * * *
35579937 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * *
35579987 AGA-ACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-A-A-G
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGATG
* * *
35580036 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
35580079 GTTATTATCA
Statistics
Matches: 164, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 81 0.49
51 1 0.01
52 1 0.01
53 5 0.03
56 39 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:35583041 original size:40 final size:38
Alignment explanation
Indices: 35582944--35583045 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 38
35582934 ATCGAAATCC
*
35582944 TTATTATAATTATTGTAATTAT-AATTTAGGATCAAATA
1 TTATTATAATTA-TGTAATTATAAATTTAGGATCAAACA
* ** *
35582982 TTATTATAATTACTATAATTATAAATTTTTTGCTCAAACA
1 TTATTATAATTA-TGTAATTATAAA-TTTAGGATCAAACA
35583022 TTATTATAATTATGGTAATTATAA
1 TTATTATAATTAT-GTAATTATAA
35583046 CTATTATATT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 20 0.37
39 3 0.06
40 31 0.57
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (38 bp):
TTATTATAATTATGTAATTATAAATTTAGGATCAAACA
Found at i:35586480 original size:23 final size:23
Alignment explanation
Indices: 35586449--35586495 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
35586439 AAAAAAAAGC
*
35586449 AGAAAAAGCAAAAAGCGTAAAAA
1 AGAAAAAGCAAAAAGCGCAAAAA
*
35586472 AGAAGAAGCAAAAAGCGCAAAAA
1 AGAAAAAGCAAAAAGCGCAAAAA
35586495 A
1 A
35586496 AAAGTTGCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.68, C:0.11, G:0.19, T:0.02
Consensus pattern (23 bp):
AGAAAAAGCAAAAAGCGCAAAAA
Found at i:35592001 original size:31 final size:31
Alignment explanation
Indices: 35591964--35592024 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
35591954 AGATAATTTT
35591964 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
35591995 AAAGAGTTTTATTAGGATTCAATTACTCTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTT
35592025 TTAATTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:35608230 original size:25 final size:25
Alignment explanation
Indices: 35608201--35608318 Score: 157
Period size: 25 Copynumber: 4.7 Consensus size: 25
35608191 CGGATACTTC
35608201 ATAGCTCGTGAGAGCATACTGATTT
1 ATAGCTCGTGAGAGCATACTGATTT
* *
35608226 ATAGCTCATGAGAGCATACCGATTT
1 ATAGCTCGTGAGAGCATACTGATTT
*
35608251 ATAGCTCATGAGAGCATACTGATTT
1 ATAGCTCGTGAGAGCATACTGATTT
* *
35608276 ATAGCTCGTGGGAGCATA-TCGATCT
1 ATAGCTCGTGAGAGCATACT-GATTT
* *
35608301 ATAGCTCGAGTGAGCATA
1 ATAGCTCGTGAGAGCATA
35608319 TCAATTCACA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
24 1 0.01
25 83 0.99
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
ATAGCTCGTGAGAGCATACTGATTT
Found at i:35614187 original size:12 final size:12
Alignment explanation
Indices: 35614170--35614199 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35614160 CCACACACGC
35614170 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
35614182 CCGTGTGTTAGG
1 CCGTGTGCTAGG
35614194 CCGTGT
1 CCGTGT
35614200 AATTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:35620272 original size:710 final size:709
Alignment explanation
Indices: 35617698--35621535 Score: 7145
Period size: 709 Copynumber: 5.4 Consensus size: 709
35617688 NNNNNNNNNN
35617698 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
1 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
* *
35617763 CGTTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTAGTCGTACGTCGTTGAATT
66 CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
* *
35617828 TTCATCATTTCTTTACTCGATAAATTGTATAATTAACATATAAGTATTGATTCATTTTCAATAAA
131 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
35617893 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
196 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
*
35617958 TAACTTGCAGAAATTTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
261 TAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
35618023 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
326 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
35618088 ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
391 ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
*
35618153 TTCATAACATTGCCAATCAGAACACTTATCATTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
456 TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
* *
35618218 AACAATATCGAATACGTGGGAATCTCACACACTGTATGCTAATATATTCTCGAAACCATTTATTT
521 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
* *
35618283 CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCAGAAATGGGTCTGCTCACACAAGTTGTCAGT
586 CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
* * *
35618348 CAGAACGTAGTTACATGGTGCTGCTCACACATGCTGTAAGGTAACCACAACACATGACG
651 CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
*
35618407 GACACTCAGCCACCGGTAGGATGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
1 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
*
35618472 CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTTGTCGTACGTCGTTGAATT
66 CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
*
35618537 TTCATCAGTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
131 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
*
35618602 ATCATATAATAACATTCAATTTAATCAAATTTATACATAGTACATTTCATACAAACTTCCCTAGC
196 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
*
35618667 TAACTTGCAGAAATGTCAAAGTACAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
261 TAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
*
35618732 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCCTTAGAAATTGTCACCT
326 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
* *
35618797 ATATCAACTTTCATAATTTTCATGTATCATCATATCAAAGAATTTCATATATGCACATCCCTTAG
391 ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
35618862 TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
456 TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
35618927 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
521 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
*
35618992 CCTTCTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
586 CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
* *
35619057 CAAAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAGCACATGACG
651 CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
35619116 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
1 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
* *
35619181 CGTTTGTATCCTATATATTCTTAAGGTTTAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
66 CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
35619246 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
131 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
* *
35619311 ATCATATAATAACATTAAATTTAATCAAATTTATACATAGTACATTTCATACAAACTTCCCTAGC
196 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
* *
35619376 TAACTTGCAGAAATGTCAAAGTACAGGGGCATATCCACACCAGACATGTTAGTATACATGGTATA
261 TAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
35619441 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
326 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
*
35619506 ATATCAACTTTCATAATTTTCATGTATCATCATATCAAAGAATTTCATATATGCACATGCCTTAG
391 ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
* *
35619571 TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCATTGAATAACTTTA
456 TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
35619636 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
521 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
*
35619701 CCTTTGCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
586 CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
35619766 CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
651 CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
* *
35619825 GACACTCAGCCAGCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAGTGACATGT
1 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
*
35619890 CATTTGTATCCTATATATTGCTTAAGGTTCAAATGGGGCTAGATAGTCGTCTTACGTCGTTGAAT
66 CATTTGTATCCTATATATT-CTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAAT
*
35619955 TTTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTCATTCATTTTCAATAA
130 TTTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAA
35620020 AATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAG
195 AATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAG
*
35620085 CTAACTTCCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTAT
260 CTAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTAT
*
35620150 AAATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATAAACCATTAGAAATTGTCACC
325 AAATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACC
*
35620215 TATATGAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTA
390 TATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTA
*
35620280 GTTCATAACATTGCCAATCAGAACACTTATCGTTCATTCCCTTTGTATGCCCGTTGAATAACTTA
455 GTTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTA
35620345 AAACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATT
520 AAACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATT
*
35620410 TTCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAG
585 TCCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAG
*
35620475 TCAGAACGTAGTTACACGGTGCTGCTCACACCAGCTGTCAGGTAACCACAACACATGACG
650 TCAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
*
35620535 GACACTCAGCCACCGGTAGGACGTTCAAGACCGGCACCTAAAATACAGTAACCCTAATGACATGT
1 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
* *
35620600 CATTTGTAACATATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
66 CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
* *
35620665 TTCATCATTTCTTTATTCAATAAATTGTATAATTAACATATATGTATTGATTCACTTTCAATAAA
131 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
* *
35620730 ATCATATAATAACATTTAATTTAATCAAAATTATACGTAGTACATTTCATACAAACTTCCCTAGC
196 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
35620795 TAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
261 TAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
*
35620860 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACAAGAACCATTAGAAATTGTCACCT
326 AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
35620925 ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
391 ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
* *
35620990 TTCATAACATTGCCATTCAGAACACTTATCGTTTCTTCCCTTTGTATGCCCGTTGAATAACTTAA
456 TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
35621055 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
521 AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
35621120 CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
586 CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
*
35621185 CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAAACACAACACATGACG
651 CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
35621244 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
1 GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
*
35621309 CATTTGTATCCTATATATTTTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
66 CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
*
35621374 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATACA
131 TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
*
35621439 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCAAACAAACTTCCCTAGC
196 ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
35621504 TAACTTGCAGAAATGTCAAAGTATAGGGGCAT
261 TAACTTGCAGAAATGTCAAAGTATAGGGGCAT
35621536 TTTGGTAATT
Statistics
Matches: 3039, Mismatches: 89, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
709 2352 0.77
710 687 0.23
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (709 bp):
GACACTCAGCCACCGGTAGGACGTTCAAGACCAGCACCTAAAATACAGTAACCCTAATGACATGT
CATTTGTATCCTATATATTCTTAAGGTTCAAATGGGGCTAGATAGTCGTCGTACGTCGTTGAATT
TTCATCATTTCTTTATTCGATAAATTGTATAATTAACATATATGTATTGATTCATTTTCAATAAA
ATCATATAATAACATTCAATTTAATCAAAATTATACATAGTACATTTCATACAAACTTCCCTAGC
TAACTTGCAGAAATGTCAAAGTATAGGGGCATATCCACACCAAACATGTTAGTATACATGGTATA
AATCCTAGGCAAAAATAACATATATATCCATTGATCTCGACATGAACCATTAGAAATTGTCACCT
ATATCAACTTTCATAATTTTCATGTATCAACATATCAAAGAATTTCATATATGCACATGCCTTAG
TTCATAACATTGCCAATCAGAACACTTATCGTTCCTTCCCTTTGTATGCCCGTTGAATAACTTAA
AACAATATCGAATACGCGGGAATCTCACACACTGTATGCTAATATATGCTCGAAACCATTTATTT
CCTTTTCCTTTACATAGATTCTCTCCCTCGAGCCATAAATGGGTCTGCTCACACAAGCTGTCAGT
CAGAACGTAGTTACACGGTGCTGCTCACACAAGCTGTCAGGTAACCACAACACATGACG
Found at i:35629549 original size:22 final size:22
Alignment explanation
Indices: 35629501--35629552 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
35629491 TACTTCATGG
* * *
35629501 AGTGTGAACACATTTATGTTTT
1 AGTGTGAACACACTTAAGTGTT
35629523 AGTGTGAACA-ACTTAAGTGTT
1 AGTGTGAACACACTTAAGTGTT
35629544 AGGTGTGAA
1 A-GTGTGAA
35629553 TCTGTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (22 bp):
AGTGTGAACACACTTAAGTGTT
Found at i:35644021 original size:25 final size:25
Alignment explanation
Indices: 35643992--35644043 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
35643982 CCAATATGAG
35643992 ATCAAATTCTCCAAAAGGTAATTCC
1 ATCAAATTCTCCAAAAGGTAATTCC
*
35644017 ATCAAATTCTCTAAAAGGTAATTCC
1 ATCAAATTCTCCAAAAGGTAATTCC
35644042 AT
1 AT
35644044 TAGATCTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (25 bp):
ATCAAATTCTCCAAAAGGTAATTCC
Found at i:35656996 original size:2 final size:2
Alignment explanation
Indices: 35656989--35657017 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35656979 ACAGCTTTAC
35656989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35657018 AAGGAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35657788 original size:15 final size:15
Alignment explanation
Indices: 35657765--35657826 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
35657755 CGAATAAAAT
35657765 TTTAAATTTTTATAA
1 TTTAAATTTTTATAA
*
35657780 TTTATATTTTTATAA
1 TTTAAATTTTTATAA
* *
35657795 TTTTAAAGTATTA-AA
1 -TTTAAATTTTTATAA
*
35657810 -TTAAAATTTTATAA
1 TTTAAATTTTTATAA
35657824 TTT
1 TTT
35657827 TAGAGTGAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 18 0.47
16 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTAAATTTTTATAA
Found at i:35657849 original size:31 final size:29
Alignment explanation
Indices: 35657787--35657852 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
35657777 TAATTTATAT
*
35657787 TTTTATAATTTTAAAGTATTAAATTAAAA
1 TTTTATAATTTTAAAGTATTAAAGTAAAA
* **
35657816 TTTTATAATTTTAGAGTGAGTTAAAGTGTAA
1 TTTTATAATTTTAAAGT-A-TTAAAGTAAAA
35657847 TTTTAT
1 TTTTAT
35657853 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.52
30 1 0.03
31 14 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (29 bp):
TTTTATAATTTTAAAGTATTAAAGTAAAA
Found at i:35664591 original size:12 final size:12
Alignment explanation
Indices: 35664574--35664598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35664564 GATCAAACTG
35664574 ATAAAAATGTAA
1 ATAAAAATGTAA
35664586 ATAAAAATGTAA
1 ATAAAAATGTAA
35664598 A
1 A
35664599 CGTTAAAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAAAAATGTAA
Found at i:35666897 original size:17 final size:17
Alignment explanation
Indices: 35666880--35666912 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35666870 ATAATATTAT
35666880 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
35666896 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
35666913 CTTATCTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:35679143 original size:29 final size:29
Alignment explanation
Indices: 35679092--35679154 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
35679082 ATCAACAATT
*
35679092 GAAAAGGGATAGCTTCGGCTATCGAATAC
1 GAAAAGGGATAGCTTCGACTATCGAATAC
* * *
35679121 GAAAAGGGATAGCTTCGATTATCGATTAT
1 GAAAAGGGATAGCTTCGACTATCGAATAC
35679150 GAAAA
1 GAAAA
35679155 TTGATGGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
GAAAAGGGATAGCTTCGACTATCGAATAC
Found at i:35679192 original size:30 final size:30
Alignment explanation
Indices: 35679158--35679216 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
35679148 ATGAAAATTG
* *
35679158 ATGGTGAAGGCCATCGAACTATGAAAAGGA
1 ATGGTGAAGACCATCAAACTATGAAAAGGA
* *
35679188 ATGGTGACGACCATCAAATTATGAAAAGG
1 ATGGTGAAGACCATCAAACTATGAAAAGG
35679217 GATAGCTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.19
Consensus pattern (30 bp):
ATGGTGAAGACCATCAAACTATGAAAAGGA
Found at i:35680673 original size:23 final size:23
Alignment explanation
Indices: 35680638--35680681 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
35680628 AATGGACAAT
35680638 ATGTGTGTTTTGA-ATTGATTTTA
1 ATGTGTGTTTTGATA-TGATTTTA
35680661 ATGTGT-TTATTGATATGATTT
1 ATGTGTGTT-TTGATATGATTT
35680682 GAAAAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.11
23 16 0.84
24 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (23 bp):
ATGTGTGTTTTGATATGATTTTA
Found at i:35682569 original size:8 final size:8
Alignment explanation
Indices: 35682543--35682583 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
35682533 TCAACAATTT
35682543 ATAATAAA
1 ATAATAAA
* *
35682551 TTAAAAAA
1 ATAATAAA
35682559 ATAATAAA
1 ATAATAAA
35682567 ATAATAAA
1 ATAATAAA
35682575 ATAATAAA
1 ATAATAAA
35682583 A
1 A
35682584 GTTTCCTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:35683369 original size:19 final size:17
Alignment explanation
Indices: 35683336--35683371 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
35683326 AAATTATTAG
35683336 TAAAATATTATAAAAAT
1 TAAAATATTATAAAAAT
35683353 TAAATATATTCATAAAAAT
1 TAAA-ATATT-ATAAAAAT
35683372 AATTAAGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATATTATAAAAAT
Found at i:35686424 original size:21 final size:21
Alignment explanation
Indices: 35686399--35686441 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35686389 TGGGACTTAA
35686399 AAGTTAAAA-GTAAAGTAAATC
1 AAGTTAAAATGTAAA-TAAATC
*
35686420 AAGTTAAAATTTAAATAAATC
1 AAGTTAAAATGTAAATAAATC
35686441 A
1 A
35686442 TGTAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (21 bp):
AAGTTAAAATGTAAATAAATC
Found at i:35686451 original size:22 final size:21
Alignment explanation
Indices: 35686409--35686457 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
35686399 AAGTTAAAAG
*
35686409 TAAAGTAAATCAAGTTAAAATT
1 TAAA-TAAATCAAGTAAAAATT
*
35686431 TAAATAAATCATGTAATAAATT
1 TAAATAAATCAAGTAA-AAATT
*
35686453 AAAAT
1 TAAAT
35686458 GGAATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (21 bp):
TAAATAAATCAAGTAAAAATT
Found at i:35687150 original size:10 final size:10
Alignment explanation
Indices: 35687137--35687175 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
35687127 AAGTTAAAAG
35687137 ACTAAAATTA
1 ACTAAAATTA
35687147 ACTAAAATTA
1 ACTAAAATTA
*
35687157 ACTAAAA-AA
1 ACTAAAATTA
35687166 ACTAAAATTA
1 ACTAAAATTA
35687176 TAAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (10 bp):
ACTAAAATTA
Found at i:35690664 original size:79 final size:79
Alignment explanation
Indices: 35690529--35690687 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
35690519 TGAAAAGATC
*
35690529 GTCCTATTTTTATGATGCTTTTATTGGTCTTGCATTGTATCTTTTACACTTCACATTCAAGCTAA
1 GTCCTATTTTTATGATGCTTTTATTGCTCTTGCATTGTATCTTTTACACTTCACATTCAAGCTAA
35690594 AAATGAATATGAAA
66 AAATGAATATGAAA
*
35690608 GTCCTATTTTTATGATGCTTTTATTGCTCTTGCATTGTATCTTTTACACTTTACATTCAAGCTAA
1 GTCCTATTTTTATGATGCTTTTATTGCTCTTGCATTGTATCTTTTACACTTCACATTCAAGCTAA
35690673 AAATGAATATGAAA
66 AAATGAATATGAAA
35690687 G
1 G
35690688 AGACATCAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (79 bp):
GTCCTATTTTTATGATGCTTTTATTGCTCTTGCATTGTATCTTTTACACTTCACATTCAAGCTAA
AAATGAATATGAAA
Found at i:35692722 original size:19 final size:19
Alignment explanation
Indices: 35692686--35692727 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
35692676 CTAAATTATG
*
35692686 TTAAGTAATTAAGATTT-A
1 TTAAGTAATTAACATTTAA
*
35692704 TTAAGTTAATTAACCTTTAA
1 TTAAG-TAATTAACATTTAA
35692724 TTAA
1 TTAA
35692728 CATATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (19 bp):
TTAAGTAATTAACATTTAA
Found at i:35698222 original size:19 final size:19
Alignment explanation
Indices: 35698200--35698243 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
35698190 CATTACAATT
35698200 TAACCTATACATGCCATTA
1 TAACCTATACATGCCATTA
35698219 TAACCTATACATGCCATTA
1 TAACCTATACATGCCATTA
35698238 TAACCT
1 TAACCT
35698244 TGGCTAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (19 bp):
TAACCTATACATGCCATTA
Found at i:35711622 original size:101 final size:101
Alignment explanation
Indices: 35711447--35711649 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
35711437 TAGCAAATCC
35711447 CTTGGACCTTCTTGTTGTACTTAGCCGTAGGCTAAGTACTAGCTTTTGGTTAACTTCCTGGGTTT
1 CTTGGACCTTCTTGTTGTACTTAGCCGTAGGCTAAGTACTAGCTTTTGGTTAACTTCCTGGGTTT
35711512 CATTGAGTTCACTCAATTGGCCTGATAGAGTGAACT
66 CATTGAGTTCACTCAATTGGCCTGATAGAGTGAACT
35711548 CTTGGACCTTCTTGTTGTACTTAGCCGTAGGCTAAGTACTAGCTTTTGGTTAACTTCCTGGGTTT
1 CTTGGACCTTCTTGTTGTACTTAGCCGTAGGCTAAGTACTAGCTTTTGGTTAACTTCCTGGGTTT
35711613 CATTGAGTTCACTCAATTGGCCTGATAGAGTGAACT
66 CATTGAGTTCACTCAATTGGCCTGATAGAGTGAACT
35711649 C
1 C
35711650 AATGACTATG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (101 bp):
CTTGGACCTTCTTGTTGTACTTAGCCGTAGGCTAAGTACTAGCTTTTGGTTAACTTCCTGGGTTT
CATTGAGTTCACTCAATTGGCCTGATAGAGTGAACT
Found at i:35714393 original size:51 final size:51
Alignment explanation
Indices: 35714225--35714411 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 51
35714215 AAAAGTGAAA
* *
35714225 GTGATGGTCACGTGTGTAGTACTTTGTGCAGGCTACTACGTGTACCAGAATG
1 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATG
* * * * * * *
35714277 AT-A-GGTCGCATCTGTAGTACTATGTGCAGGCTACTACGCGTACTGGATA
1 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATG
* * * * * *
35714326 GTTACGATCACGTGTGTGGTACTATGTGTAGGCTACTACGTGTATC-GAATG
1 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATG
35714377 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTA
1 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTA
35714412 TTATGTGAAC
Statistics
Matches: 107, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
49 5 0.05
50 35 0.33
51 65 0.61
52 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (51 bp):
GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATG
Found at i:35714479 original size:45 final size:45
Alignment explanation
Indices: 35714425--35714513 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
35714415 TGTGAACCAA
* *
35714425 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
35714470 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
35714514 AGTATATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:35717575 original size:41 final size:41
Alignment explanation
Indices: 35717509--35717778 Score: 326
Period size: 41 Copynumber: 6.6 Consensus size: 41
35717499 GAGTGTAAAC
* * * *
35717509 AGGGGCACGTATGTGCTATTCAGGGGTATCGAAGTACAAAT
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
* * *
35717550 AGTGGCACATATGTGGAATTTAGGGGTACCAAAGTACAAA-
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
35717590 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
** * * * *
35717631 AGTAGCACGTATGTTCAATTTAGGGATACTAAAGTACAAAC
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
* * * *
35717672 AGGGGCATGTATGTGTAATTCAGGGGTACCGAAGTACAAAT
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
* * * *
35717713 AGGGGCACGTGTGTGCAATTCAGGGGTACCGAAGTACAAAC
1 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
35717754 AGGGGCACACGTATGTGCAATTTAG
1 AGGGG--CACGTATGTGCAATTTAG
35717779 TGGTTAATAT
Statistics
Matches: 194, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 37 0.19
41 141 0.73
43 16 0.08
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
Found at i:35717644 original size:81 final size:82
Alignment explanation
Indices: 35717505--35717775 Score: 373
Period size: 82 Copynumber: 3.3 Consensus size: 82
35717495 ACTAGAGTGT
* * * *
35717505 AAACAGGGGCACGTATGTGCTATTCAGGGGTATCGAAGTACAAATAGTGGCACATATGTGGAATT
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAGTGGCACGTATGTGCAATT
35717570 TAGGGGTACCAAAGTAC
66 TAGGGGTACCAAAGTAC
* * * *
35717587 AAA-AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGTAGCACGTATGTTCAATT
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAGTGGCACGTATGTGCAATT
* *
35717651 TAGGGATACTAAAGTAC
66 TAGGGGTACCAAAGTAC
* * * *
35717668 AAACAGGGGCATGTATGTGTAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTGTGTGCAATT
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAGTGGCACGTATGTGCAATT
* *
35717733 CAGGGGTACCGAAGTAC
66 TAGGGGTACCAAAGTAC
35717750 AAACAGGGGCACACGTATGTGCAATT
1 AAACAGGGG--CACGTATGTGCAATT
35717776 TAGTGGTTAA
Statistics
Matches: 162, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 71 0.44
82 78 0.48
84 13 0.08
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.23
Consensus pattern (82 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAATAGTGGCACGTATGTGCAATT
TAGGGGTACCAAAGTAC
Found at i:35717758 original size:20 final size:20
Alignment explanation
Indices: 35717692--35717758 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
35717682 ATGTGTAATT
35717692 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * ** * *
35717712 TAGGGGCA-CGTGTGTGCAATT
1 CAGGGGTACCG-AAGTACAA-A
35717733 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
35717753 CAGGGG
1 CAGGGG
35717759 CACACGTATG
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.53
21 11 0.34
22 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.36, T:0.15
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:35717791 original size:21 final size:21
Alignment explanation
Indices: 35717765--35717807 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
35717755 GGGGCACACG
*
35717765 TATGTGCAATTTAGTGGTTAA
1 TATGTGCAATTTAGTGATTAA
35717786 TATGTGCAATTTAGTGATTAA
1 TATGTGCAATTTAGTGATTAA
35717807 T
1 T
35717808 TAACTCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TATGTGCAATTTAGTGATTAA
Found at i:35719063 original size:27 final size:27
Alignment explanation
Indices: 35719033--35719113 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
35719023 ACCGAATGCA
* *
35719033 CCTCGATGGGTAAAATTACCGAAATAC
1 CCTCGATGGGTAAAATTACTGAAACAC
* *
35719060 CCTCAATGGGTAATATTACTGAAACAC
1 CCTCGATGGGTAAAATTACTGAAACAC
*
35719087 CCCCGATGGGTAAAATTACTGAAACAC
1 CCTCGATGGGTAAAATTACTGAAACAC
35719114 AAAATTACCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (27 bp):
CCTCGATGGGTAAAATTACTGAAACAC
Found at i:35719395 original size:26 final size:26
Alignment explanation
Indices: 35719366--35719458 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 26
35719356 CTTTGTTATG
35719366 TTACTGATACTGGCAGCTCTGCTGCA
1 TTACTGATACTGGCAGCTCTGCTGCA
** * * * **
35719392 TTACTTTTACTGGTAGCTTTGTTGTG
1 TTACTGATACTGGCAGCTCTGCTGCA
* *
35719418 TTACT-ATTACTGGTAGCTCTGCTACA
1 TTACTGA-TACTGGCAGCTCTGCTGCA
*
35719444 TTACTGTTACTGGCA
1 TTACTGATACTGGCA
35719459 TATTGCTGCG
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
TTACTGATACTGGCAGCTCTGCTGCA
Found at i:35719406 original size:52 final size:52
Alignment explanation
Indices: 35719341--35719456 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 52
35719331 TTGCCACAAA
*
35719341 TACTGTTACTGGTAACTTTGTTATGTTACTGA-TACTGGCAGCTCTGCTGCAT
1 TACTGTTACTGGTAACTTTGTTATGTTACT-ATTACTGGCAGCTCTGCTACAT
* * * *
35719393 TACTTTTACTGGTAGCTTTGTTGTGTTACTATTACTGGTAGCTCTGCTACAT
1 TACTGTTACTGGTAACTTTGTTATGTTACTATTACTGGCAGCTCTGCTACAT
35719445 TACTGTTACTGG
1 TACTGTTACTGG
35719457 CATATTGCTG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.02
52 56 0.98
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (52 bp):
TACTGTTACTGGTAACTTTGTTATGTTACTATTACTGGCAGCTCTGCTACAT
Found at i:35719611 original size:30 final size:30
Alignment explanation
Indices: 35719576--35719691 Score: 124
Period size: 30 Copynumber: 3.9 Consensus size: 30
35719566 TGCATTTGCA
35719576 CTGTTACTGTATTGGGCAAAGGCCCACACT
1 CTGTTACTGTATTGGGCAAAGGCCCACACT
* * *
35719606 TTGTTACTATATTGGGCTAAGGCCCACACT
1 CTGTTACTGTATTGGGCAAAGGCCCACACT
* * * * *
35719636 CTATTACTGTATTGGGCTATGGCCTACACA
1 CTGTTACTGTATTGGGCAAAGGCCCACACT
* * **
35719666 CTGGTACTGTATAGGGCTTAGGCCCA
1 CTGTTACTGTATTGGGCAAAGGCCCA
35719692 GACTGATTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (30 bp):
CTGTTACTGTATTGGGCAAAGGCCCACACT
Found at i:35719683 original size:60 final size:60
Alignment explanation
Indices: 35719579--35719691 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
35719569 ATTTGCACTG
** * *
35719579 TTACTGTATTGGGCAAAGGCCCACACTTTGTTACTATATTGGGCTAAGGCCCACACTCTA
1 TTACTGTATTGGGCAAAGGCCCACACACTGGTACTATATAGGGCTAAGGCCCACACTCTA
* * * * *
35719639 TTACTGTATTGGGCTATGGCCTACACACTGGTACTGTATAGGGCTTAGGCCCA
1 TTACTGTATTGGGCAAAGGCCCACACACTGGTACTATATAGGGCTAAGGCCCA
35719692 GACTGATTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (60 bp):
TTACTGTATTGGGCAAAGGCCCACACACTGGTACTATATAGGGCTAAGGCCCACACTCTA
Found at i:35725972 original size:21 final size:21
Alignment explanation
Indices: 35725905--35725972 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
35725895 GAAGTACAAA
35725905 CAGGGGCACGTATGTGAAATT
1 CAGGGGCACGTATGTGAAATT
* * * *
35725926 CAGCGGTAC-TGAAGT-ACAA-A
1 CAGGGGCACGT-ATGTGA-AATT
35725946 CAGGGGCACGTATGTGAAATT
1 CAGGGGCACGTATGTGAAATT
35725967 CAGGGG
1 CAGGGG
35725973 TACTGAAGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (21 bp):
CAGGGGCACGTATGTGAAATT
Found at i:35725992 original size:20 final size:20
Alignment explanation
Indices: 35725967--35726027 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
35725957 ATGTGAAATT
35725967 CAGGGGTACTGAAGTACAAG
1 CAGGGGTACTGAAGTACAAG
* * *
35725987 CAGGGGCACAT-ATGTTCAATG
1 CAGGGGTAC-TGAAGTACAA-G
*
35726008 CAGGGGTACCGAAGTACAAG
1 CAGGGGTACTGAAGTACAAG
35726028 TAAGGGTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.16
Consensus pattern (20 bp):
CAGGGGTACTGAAGTACAAG
Found at i:35726027 original size:41 final size:41
Alignment explanation
Indices: 35725820--35726026 Score: 243
Period size: 41 Copynumber: 5.0 Consensus size: 41
35725810 ACTAGAGTGT
* * * * *
35725820 AAACAAGGGCACATATATGCAATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
* * * * * *
35725861 AAACAGGGGAACGCATGTGCATTTCAAGGCTATTGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
* *
35725902 AAACAGGGGCACGTATGTGAAATTCAGCGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
*
35725943 AAACAGGGGCACGTATGTGAAATTCAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
* * * * *
35725984 AAGCAGGGGCACATATGTTCAATGCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
35726025 AA
1 AA
35726027 GTAAGGGTAT
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
Found at i:35730795 original size:7 final size:8
Alignment explanation
Indices: 35730769--35730806 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
35730759 GTGAATCGGT
*
35730769 AAAAGCCG
1 AAAAGCCA
35730777 AAAAGCCA
1 AAAAGCCA
35730785 AAAAGCCA
1 AAAAGCCA
*
35730793 AAAAGTCA
1 AAAAGCCA
35730801 AAAAGC
1 AAAAGC
35730807 AAGAAATACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.61, C:0.21, G:0.16, T:0.03
Consensus pattern (8 bp):
AAAAGCCA
Found at i:35734463 original size:16 final size:17
Alignment explanation
Indices: 35734444--35734489 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
35734434 CGAAAAAGCC
35734444 GAAAAGCTGAAAAGT-A
1 GAAAAGCTGAAAAGTCA
* *
35734460 GAAAAGTTAAAAAGTCA
1 GAAAAGCTGAAAAGTCA
*
35734477 -AAAAACTGAAAAG
1 GAAAAGCTGAAAAG
35734490 CCAAAAAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.61, C:0.07, G:0.20, T:0.13
Consensus pattern (17 bp):
GAAAAGCTGAAAAGTCA
Found at i:35736512 original size:21 final size:21
Alignment explanation
Indices: 35736464--35736506 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
35736454 GGTAATTTTG
**
35736464 AAATTAATTTGAAATTAAAAC
1 AAATTAAAGTGAAATTAAAAC
35736485 AAATTAAAGTGAAATTAAAAC
1 AAATTAAAGTGAAATTAAAAC
35736506 A
1 A
35736507 TTTTAACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (21 bp):
AAATTAAAGTGAAATTAAAAC
Found at i:35737483 original size:40 final size:40
Alignment explanation
Indices: 35737437--35737728 Score: 345
Period size: 40 Copynumber: 7.3 Consensus size: 40
35737427 CTCTATTCGA
* *
35737437 CGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGCTTGG
1 CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
* *
35737477 CATGTTTCGGTTGGATGAGCTCTTATGAGCTTCTGTTTGG
1 CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
* * * *
35737517 CATGTTTCAGTTGGATCAACTCTTATGAGCTTCTGTTTGT
1 CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
* * * *
35737557 CGTGTTTTC-GTTGGATCAGCTATTATGAGATTTTATTTGG
1 CGTG-TTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
* ** * *
35737597 TGTGTTTCAATTTGATCAGCTCTTATGAGCTTTTGTTTGG
1 CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
* *
35737637 TGTTTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
1 CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
* * * *
35737677 CGTGTTTCGATTGGATGAACTCTTATGAGCTTCTATTTGG
1 CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
*
35737717 TGTGTTT-GGTTG
1 CGTGTTTCGGTTG
35737729 ATCTGATGAT
Statistics
Matches: 216, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
39 8 0.04
40 204 0.94
41 4 0.02
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.46
Consensus pattern (40 bp):
CGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG
Found at i:35744684 original size:50 final size:50
Alignment explanation
Indices: 35744564--35744802 Score: 282
Period size: 50 Copynumber: 4.6 Consensus size: 50
35744554 ATTTGGGTAA
* * * *
35744564 AGAGATCCCACGTAAGACCATGTCTGGGACATGGCATTGACATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATG
* *
35744620 ATAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
35744670 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
35744720 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CGAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATG
** *
35744770 AGAACATCCCATGTAAGACCATGTGTGGGACAT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACAT
35744803 AGCTTTGGCA
Statistics
Matches: 163, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.01
50 94 0.58
51 26 0.16
53 3 0.02
55 2 0.01
56 36 0.22
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:35744750 original size:100 final size:103
Alignment explanation
Indices: 35744564--35744813 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 103
35744554 ATTTGGGTAA
* * *
35744564 AGAGATCCCACGTAAGACCATGTCTGGGACATGGCATTGACATCCTTGAGATCATGATAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
*
35744629 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATG
63 CTGTAAGACCATGTCTGGGACATGGCATGGGCA-CGAACATG
* *
35744670 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCTG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTG
35744732 TAAGACCATGTCTGGGACATGGCATGGGCACGAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACGAACATG
* * * *
35744770 AGAACATCCCATGTAAGACCATGTGTGGGACATAGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
35744814 GTTTTTACCA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 2 0.02
100 50 0.38
101 35 0.27
103 3 0.02
105 2 0.02
106 38 0.29
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTG
TAAGACCATGTCTGGGACATGGCATGGGCACGAACATG
Found at i:35751482 original size:50 final size:50
Alignment explanation
Indices: 35751370--35751611 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 50
35751360 ATTTGGGTAA
* *
35751370 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATG
* * *
35751426 ATAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
35751476 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * * *
35751526 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGTATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
**
35751576 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
35751612 TTTGGCATGT
Statistics
Matches: 160, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
50 90 0.56
51 28 0.17
53 3 0.02
55 2 0.01
56 37 0.23
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:35751565 original size:100 final size:104
Alignment explanation
Indices: 35751370--35751619 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
35751360 ATTTGGGTAA
*
35751370 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGATAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGA--ATGAGAGGTCCC
* * *
35751435 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
64 CCATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
* * *
35751476 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCA-CC-T-AG-ATGAGAGGTCCCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGAATGAGAGGTCCCCC
* *
35751537 GTAAGACCATGTCTGGGACATGGTATGGGCACCAACATG
66 ATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
* *
35751576 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
35751620 GTTTTTACCA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 49 0.38
101 36 0.28
103 2 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGAATGAGAGGTCCCCC
ATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
Found at i:35766041 original size:12 final size:12
Alignment explanation
Indices: 35766024--35766053 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35766014 TCCCACACGC
35766024 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
35766036 CCGTGTGCTAGG
1 CCGTGTGCCAGG
35766048 CCGTGT
1 CCGTGT
35766054 AACAGCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:35785602 original size:12 final size:12
Alignment explanation
Indices: 35785585--35785613 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35785575 AACCAAACCT
35785585 TTGTTCCTTTAA
1 TTGTTCCTTTAA
35785597 TTGTTCCTTTAA
1 TTGTTCCTTTAA
35785609 TTGTT
1 TTGTT
35785614 GCTCGATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (12 bp):
TTGTTCCTTTAA
Found at i:35791310 original size:14 final size:14
Alignment explanation
Indices: 35791282--35791310 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35791272 GCTTAGTGGC
35791282 TTTTGACTTGATTT
1 TTTTGACTTGATTT
35791296 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
35791309 TT
1 TT
35791311 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:35818785 original size:50 final size:49
Alignment explanation
Indices: 35818668--35818799 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 49
35818658 TAAGTGGTAG
* * *
35818668 TTTATCTGCAAATCAATGGTGGCTTGTCCACAAAATGTTTCAGTGGCAG
1 TTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAATATTTCAGTGGCAA
* * * * * *
35818717 TATATATGCATA-CTAGTGGTGGCGTGTCTACAAAGTATTATCAGTGGCAA
1 TTTATCTGCAAATC-AGTGGTGGCTTGTCCACAAAATATT-TCAGTGGCAA
35818767 TTTATCTGCAAATCAGTGGTGGCTTGTCCACAA
1 TTTATCTGCAAATCAGTGGTGGCTTGTCCACAA
35818800 GTGGTGTTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.02
49 29 0.44
50 35 0.53
51 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (49 bp):
TTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAATATTTCAGTGGCAA
Found at i:35825867 original size:3 final size:3
Alignment explanation
Indices: 35825859--35825890 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35825849 GGCTTCAGTA
35825859 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
35825891 AACTGATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:35831773 original size:14 final size:14
Alignment explanation
Indices: 35831754--35831780 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35831744 CTTTATTTAT
35831754 TTAAATAAAATATC
1 TTAAATAAAATATC
35831768 TTAAATAAAATAT
1 TTAAATAAAATAT
35831781 TAAAGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAATAAAATATC
Found at i:35831967 original size:29 final size:29
Alignment explanation
Indices: 35831913--35831968 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
35831903 GCTTTTAAAG
* *
35831913 ATATTTACAAAAAGAGACAGCTAATTTCA
1 ATATTTACAAAAAGAGACACCAAATTTCA
35831942 ATATTTACAAAAAGA-ACAACCAAATTT
1 ATATTTACAAAAAGAGAC-ACCAAATTT
35831969 TGCACATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (29 bp):
ATATTTACAAAAAGAGACACCAAATTTCA
Found at i:35836308 original size:19 final size:19
Alignment explanation
Indices: 35836260--35836308 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
35836250 TTCAATCTCA
*
35836260 TTTTC-AAACTCTCTTTCT
1 TTTTCAAAACTCTCTTTAT
* *
35836278 TTTTCCACACTCTCTTTAT
1 TTTTCAAAACTCTCTTTAT
*
35836297 TTTTGAAAACTC
1 TTTTCAAAACTC
35836309 ACTCTTACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.20, C:0.27, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTTCAAAACTCTCTTTAT
Found at i:35842913 original size:50 final size:50
Alignment explanation
Indices: 35842806--35843002 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 50
35842796 TTAAGTGAAT
* **
35842806 GAGGTCCCATGTAGGACCATGTCTGGGACATGGCATTGGCTTCATTGAGATTATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACCGAG---ATGA
* *
35842862 GAGGTCCCATGTAAGACCATCTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
35842912 GAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * * *
35842962 GAACTCCCATGTAAAACCATATCTGGGATATGCCATTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35843003 GTACAGAAAA
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 78 0.66
53 5 0.04
56 36 0.30
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:35843269 original size:12 final size:12
Alignment explanation
Indices: 35843252--35843290 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35843242 ATGAGTTATT
35843252 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
35843264 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
35843276 TAAGTGAGTAAG
1 TAAGTAAGCAAG
35843288 TAA
1 TAA
35843291 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:35844575 original size:21 final size:19
Alignment explanation
Indices: 35844519--35844572 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
35844509 TTTAAATTTC
35844519 TTTTTCTCTCATTTCTTTT
1 TTTTTCTCTCATTTCTTTT
**
35844538 TTCATCTCTCAATTTCTTTT
1 TTTTTCTCTC-ATTTCTTTT
*
35844558 ATTTTTCACTCATTT
1 -TTTTTCTCTCATTT
35844573 TCTCTCATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.29
20 13 0.46
21 7 0.25
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTCTCTCATTTCTTTT
Found at i:35846104 original size:36 final size:36
Alignment explanation
Indices: 35846063--35846138 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
35846053 TCATTAACTA
35846063 GTATTATTACAAGCACTAATTTCTTTGTTAACTCTT
1 GTATTATTACAAGCACTAATTTCTTTGTTAACTCTT
*
35846099 GTATTATTACAAGCACTAATTTCTTTTTTAACTCTT
1 GTATTATTACAAGCACTAATTTCTTTGTTAACTCTT
35846135 GTAT
1 GTAT
35846139 CATATTCAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.49
Consensus pattern (36 bp):
GTATTATTACAAGCACTAATTTCTTTGTTAACTCTT
Found at i:35846636 original size:53 final size:53
Alignment explanation
Indices: 35846578--35846686 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
35846568 ACACTCATGC
35846578 ACATTAATTAATTGAACATGAAACTTAAATCACCTTATTTAAAATGAAAATAA
1 ACATTAATTAATTGAACATGAAACTTAAATCACCTTATTTAAAATGAAAATAA
*
35846631 ACATTAATTAATTGAACATGCAACTTAAATCACCTTATTTAAAATGAAAATAA
1 ACATTAATTAATTGAACATGAAACTTAAATCACCTTATTTAAAATGAAAATAA
35846684 ACA
1 ACA
35846687 CACTTTAACT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (53 bp):
ACATTAATTAATTGAACATGAAACTTAAATCACCTTATTTAAAATGAAAATAA
Found at i:35846931 original size:50 final size:52
Alignment explanation
Indices: 35846814--35846932 Score: 161
Period size: 50 Copynumber: 2.3 Consensus size: 52
35846804 ATGAACAAAT
* ** * *
35846814 GAGTTACTTAATGCATAACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTTAACTAACATGA
*
35846866 GAGTTGCATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTTAACTAACATGA
*
35846916 GAGTTACATAGTGCATG
1 GAGTTACATAATGCATG
35846933 ACTTTATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 27 0.46
51 11 0.19
52 21 0.36
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:35848514 original size:13 final size:13
Alignment explanation
Indices: 35848498--35848564 Score: 107
Period size: 13 Copynumber: 5.2 Consensus size: 13
35848488 ACTAAGTAGG
35848498 GTCACACGGCTGT
1 GTCACACGGCTGT
*
35848511 GTCACATGGCTGT
1 GTCACACGGCTGT
*
35848524 GTCACACGCCTGT
1 GTCACACGGCTGT
35848537 GTCACACGGCTGT
1 GTCACACGGCTGT
*
35848550 GTCACACGCCTGT
1 GTCACACGGCTGT
35848563 GT
1 GT
35848565 GCCAGGCCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.25
Consensus pattern (13 bp):
GTCACACGGCTGT
Found at i:35858676 original size:74 final size:74
Alignment explanation
Indices: 35858548--35858695 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 74
35858538 TAACTGATTC
*
35858548 CAACCAAATAGTCACCTGCAAGCATTTATTAACAAACACACTAAAACACATTTTAACACACTAAA
1 CAACCAAATAGTCACCTGCAAGCATTTATTAACAAACACACTAAAAAACATTTTAACACACTAAA
35858613 CTTAATAAG
66 CTTAATAAG
* ** * * *
35858622 CAACTAAATAGTCATTTGCAAGCATTTATTAACAAATACATTAAAAAACTTTTTAACACACTAAA
1 CAACCAAATAGTCACCTGCAAGCATTTATTAACAAACACACTAAAAAACATTTTAACACACTAAA
35858687 CTTAATAAG
66 CTTAATAAG
35858696 TTTAATTAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.27
Consensus pattern (74 bp):
CAACCAAATAGTCACCTGCAAGCATTTATTAACAAACACACTAAAAAACATTTTAACACACTAAA
CTTAATAAG
Found at i:35861407 original size:50 final size:50
Alignment explanation
Indices: 35861296--35861542 Score: 223
Period size: 50 Copynumber: 4.8 Consensus size: 50
35861286 ATTTGGGTAA
*
35861296 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
35861352 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
35861402 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCA-CGGCCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATG
* * * * *
35861452 AGA-ACTCCCATATAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
35861501 AAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35861543 TGTTATTATC
Statistics
Matches: 161, Mismatches: 25, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 75 0.47
51 2 0.01
53 3 0.02
55 1 0.01
56 40 0.25
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:35864649 original size:15 final size:16
Alignment explanation
Indices: 35864616--35864658 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
35864606 TCACCTTTTC
*
35864616 CTTTTTTTT-TTCATT
1 CTTTTTTTTCTTCATA
35864631 CTTTTTTTTCTT-ATA
1 CTTTTTTTTCTTCATA
35864646 CTTTTTCTTTCTT
1 CTTTTT-TTTCTT
35864659 TTCTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTTTTTCTTCATA
Found at i:35867571 original size:45 final size:45
Alignment explanation
Indices: 35867501--35867592 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
35867491 GCTGCCGAAT
*
35867501 TTTAAAGGATGTATAATGATTTCCTTTAAATGATATAACAGCTCC
1 TTTAAAGGATGTATAATGATTTCCTTTAAATGATATAACAGCCCC
* * *
35867546 TTTAAATGATGTATAATG-TTGTCCTTTAATTGATGTAACAGCCCC
1 TTTAAAGGATGTATAATGATT-TCCTTTAAATGATATAACAGCCCC
35867591 TT
1 TT
35867593 GTATGTAGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (45 bp):
TTTAAAGGATGTATAATGATTTCCTTTAAATGATATAACAGCCCC
Found at i:35867758 original size:74 final size:74
Alignment explanation
Indices: 35867662--35867809 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
35867652 TAATTGATTC
*
35867662 CAACCAAATAGTCACCTGCAAGCATTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
1 CAACCAAATAGTCACCTGCAAGCAGTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
35867727 CTTAATAAG
66 CTTAATAAG
* *
35867736 CAACTAAATAGTCACCTGCAAGCAGTTATTAACAAACACATTAAAACACATTTTAACACACTAAA
1 CAACCAAATAGTCACCTGCAAGCAGTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
*
35867801 CTTATTAAG
66 CTTAATAAG
35867810 TTTAATTAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (74 bp):
CAACCAAATAGTCACCTGCAAGCAGTTATTAACAAACACATTAAAACACATTTAAACACACTAAA
CTTAATAAG
Found at i:35873124 original size:210 final size:210
Alignment explanation
Indices: 35872749--35873171 Score: 724
Period size: 210 Copynumber: 2.0 Consensus size: 210
35872739 CCTTGAACTC
35872749 TCGAACATACTCCCCCATTGTGCCTCATTGCGTAAGCCATTGAAACTTTGCTCGAGCTTCCTCCT
1 TCGAACATACTCCCCCATTGTGCCTCATTGCGTAAGCCATTGAAACTTTGCTCGAGCTTCCTCCT
* *
35872814 CGCCAAATTTTGGATAAAACTACCCATTTAACTCATGTTGGAACTCTTCCCACATCCGAATCTCA
66 CACCAAATTCTGGATAAAACTACCCATTTAACTCATGTTGGAACTCTTCCCACATCCGAATCTCA
* *
35872879 CTATGCCTTTTATCTGTGGACTTGCCTCACCACCATAAAAGCGCAATATCATTAAGAAACATGGA
131 CTATGCCTTTTATCTGTGGACCTGCCTCACCACCATAAAAGCGCAATATCATTAAGAAACATAGA
35872944 AGTAGTATTTACTTA
196 AGTAGTATTTACTTA
* *
35872959 TCGAACATACTCCCTCATTGTGCCTCATTGCGTAAGCTATTGAAACTTTGCTCGAGCTTCGC-CC
1 TCGAACATACTCCCCCATTGTGCCTCATTGCGTAAGCCATTGAAACTTTGCTCGAGCTTC-CTCC
*
35873023 TCACCAAATTCTGGATAAAACTACCCCA-TTAACTCATGTTGGAACTCTTCCCATATCCGAATCT
65 TCACCAAATTCTGGATAAAACTA-CCCATTTAACTCATGTTGGAACTCTTCCCACATCCGAATCT
* *
35873087 CACTATGCCTTTTATCTGTGGACCTGCCTCGCCACCATAAAAGCGCAATATCGTTAAGAAACATA
129 CACTATGCCTTTTATCTGTGGACCTGCCTCACCACCATAAAAGCGCAATATCATTAAGAAACATA
*
35873152 GAAGTTGTATTTACTTA
194 GAAGTAGTATTTACTTA
35873169 TCG
1 TCG
35873172 CATCCTCTAT
Statistics
Matches: 201, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
210 196 0.98
211 5 0.02
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (210 bp):
TCGAACATACTCCCCCATTGTGCCTCATTGCGTAAGCCATTGAAACTTTGCTCGAGCTTCCTCCT
CACCAAATTCTGGATAAAACTACCCATTTAACTCATGTTGGAACTCTTCCCACATCCGAATCTCA
CTATGCCTTTTATCTGTGGACCTGCCTCACCACCATAAAAGCGCAATATCATTAAGAAACATAGA
AGTAGTATTTACTTA
Found at i:35875636 original size:27 final size:28
Alignment explanation
Indices: 35875582--35875643 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
35875572 AAATTAAATT
* *
35875582 TATAAAACCCTAAAATTAACAACGTTAA
1 TATAAAACCCTAAAATCAACAACATTAA
35875610 TATAAAACCCT-AAATCATAC-ACATTAA
1 TATAAAACCCTAAAATCA-ACAACATTAA
35875637 TATAAAA
1 TATAAAA
35875644 TTATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.26
Consensus pattern (28 bp):
TATAAAACCCTAAAATCAACAACATTAA
Found at i:35876520 original size:11 final size:11
Alignment explanation
Indices: 35876506--35876530 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35876496 TTAAATTTTG
35876506 TAATAATTAAT
1 TAATAATTAAT
35876517 TAATAATTAAT
1 TAATAATTAAT
35876528 TAA
1 TAA
35876531 ATCTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATTAAT
Found at i:35897635 original size:26 final size:27
Alignment explanation
Indices: 35897584--35897640 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
35897574 AAATGTTGTT
*
35897584 AAATGACCGAAATACCCTCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
35897611 AAATGACCAAAATACCC-CTAGGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
35897637 AAAT
1 AAAT
35897641 TACCGTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.16
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCAAAGGGTA
Found at i:35900703 original size:34 final size:34
Alignment explanation
Indices: 35900665--35900740 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
35900655 AGATTTAAAC
35900665 AAATTAATTACTAACACTTATTTAAGCTAAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
* *
35900699 AAATTAATTACTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
*
35900733 AAGTTAAT
1 AAATTAAT
35900741 GAACTAACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.36
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTAAACTA
Found at i:35902660 original size:12 final size:12
Alignment explanation
Indices: 35902645--35902723 Score: 52
Period size: 12 Copynumber: 6.6 Consensus size: 12
35902635 TTTTCTCTCA
*
35902645 CTTTTTCGATTT
1 CTTTTTCGTTTT
* *
35902657 CTTTTTCGCTTG
1 CTTTTTCGTTTT
** *
35902669 CAATTTCTTTTT
1 CTTTTTCGTTTT
35902681 CTTTTTCGTTTT
1 CTTTTTCGTTTT
* *
35902693 CTATTTCTTTTT
1 CTTTTTCGTTTT
**
35902705 CACTTTC-TATTT
1 CTTTTTCGT-TTT
35902717 CTTTTTC
1 CTTTTTC
35902724 TTCCTCTTCG
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
11 1 0.02
12 49 0.98
ACGTcount: A:0.08, C:0.20, G:0.05, T:0.67
Consensus pattern (12 bp):
CTTTTTCGTTTT
Found at i:35902679 original size:42 final size:42
Alignment explanation
Indices: 35902630--35902724 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
35902620 TTTTCTTTTT
* *
35902630 TTTCTTTTTCTCTCACTTTTTCGATTTCTTTTTCGCTTGCAA
1 TTTCTTTTTCTCTCACGTTTTCGATTTCTTTTTCACTTGCAA
* ** * * *
35902672 TTTCTTTTTCTTTTTCGTTTTCTATTTCTTTTTCACTTTCTA
1 TTTCTTTTTCTCTCACGTTTTCGATTTCTTTTTCACTTGCAA
35902714 TTTCTTTTTCT
1 TTTCTTTTTCT
35902725 TCCTCTTCGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.07, C:0.21, G:0.04, T:0.67
Consensus pattern (42 bp):
TTTCTTTTTCTCTCACGTTTTCGATTTCTTTTTCACTTGCAA
Found at i:35902692 original size:7 final size:6
Alignment explanation
Indices: 35902672--35902725 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
35902662 TCGCTTGCAA
* * ** *
35902672 TTTCTT TTTCTT TTTCGT TTTCTA TTTCTT TTTCAC TTTCTA TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
35902720 TTTCTT
1 TTTCTT
35902726 CCTCTTCGTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:35902693 original size:18 final size:18
Alignment explanation
Indices: 35902672--35902723 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
35902662 TCGCTTGCAA
* **
35902672 TTTCTTTTTCTTTTTCGT
1 TTTCTATTTCTTTTTCAC
35902690 TTTCTATTTCTTTTTCAC
1 TTTCTATTTCTTTTTCAC
35902708 TTTCTATTTCTTTTTC
1 TTTCTATTTCTTTTTC
35902724 TTCCTCTTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTCTATTTCTTTTTCAC
Found at i:35902698 original size:24 final size:24
Alignment explanation
Indices: 35902654--35902705 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35902644 ACTTTTTCGA
35902654 TTTCTTTTTCGCTTGCAATTTCTT
1 TTTCTTTTTCGCTTGCAATTTCTT
* * *
35902678 TTTCTTTTTCGTTTTCTATTTCTT
1 TTTCTTTTTCGCTTGCAATTTCTT
35902702 TTTC
1 TTTC
35902706 ACTTTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTCTTTTTCGCTTGCAATTTCTT
Found at i:35903723 original size:10 final size:10
Alignment explanation
Indices: 35903696--35903736 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
35903686 AAAATACAAC
35903696 TTGATTTTCTT
1 TTGATTTT-TT
35903707 TTGATTTTTT
1 TTGATTTTTT
*
35903717 TTTA-TTTTT
1 TTGATTTTTT
35903726 TTGATTTTTT
1 TTGATTTTTT
35903736 T
1 T
35903737 CACGTTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 8 0.30
10 11 0.41
11 8 0.30
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.80
Consensus pattern (10 bp):
TTGATTTTTT
Found at i:35905252 original size:37 final size:33
Alignment explanation
Indices: 35905180--35905244 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
35905170 TTAAACAAAT
35905180 TAATTACTAACACTTATTTAAGCTGAACTAAAA
1 TAATTACTAACACTTATTTAAGCTGAACTAAAA
* *
35905213 TAATTACTAACACTTATTTGAGCTGAAGTAAA
1 TAATTACTAACACTTATTTAAGCTGAACTAAA
35905245 GTTAATAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (33 bp):
TAATTACTAACACTTATTTAAGCTGAACTAAAA
Found at i:35910018 original size:11 final size:11
Alignment explanation
Indices: 35909999--35910041 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
35909989 CCATTAATTA
* *
35909999 ACCGCACCACC
1 ACCGGACCACT
35910010 ACCGGACCACT
1 ACCGGACCACT
*
35910021 GCCGGACCACT
1 ACCGGACCACT
35910032 ACCGTGACCA
1 ACCG-GACCA
35910042 TCACTCTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.26, C:0.49, G:0.19, T:0.07
Consensus pattern (11 bp):
ACCGGACCACT
Found at i:35923699 original size:17 final size:17
Alignment explanation
Indices: 35923670--35923702 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35923660 TAGAATTCGT
35923670 TTGAGTAAATTATTTAA
1 TTGAGTAAATTATTTAA
35923687 TTGAG-AAATTTATTTA
1 TTGAGTAAA-TTATTTA
35923703 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
TTGAGTAAATTATTTAA
Found at i:35926814 original size:5 final size:5
Alignment explanation
Indices: 35926794--35926830 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
35926784 AAAATAATTA
*
35926794 TTTAT TTT-T ATTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
35926831 GGAAGTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:35938708 original size:22 final size:22
Alignment explanation
Indices: 35938663--35938708 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
35938653 CGTATGCTAA
* * * *
35938663 ATTTGTGATAAATATGTTTTTG
1 ATTTGTGATAAAAAAGATTATG
35938685 ATTTGTGATAAAAAAGATTATG
1 ATTTGTGATAAAAAAGATTATG
35938707 AT
1 AT
35938709 GTGATGAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (22 bp):
ATTTGTGATAAAAAAGATTATG
Found at i:35940017 original size:30 final size:30
Alignment explanation
Indices: 35939981--35940045 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
35939971 ATCAATTGGT
35939981 AAGATTAACAAAAGATAAATAAAAGAATAG
1 AAGATTAACAAAAGATAAATAAAAGAATAG
35940011 AAGATTAACAAAAGATAAATAAAAGAATAG
1 AAGATTAACAAAAGATAAATAAAAGAATAG
35940041 AAGAT
1 AAGAT
35940046 AAAGATAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (30 bp):
AAGATTAACAAAAGATAAATAAAAGAATAG
Found at i:35956204 original size:20 final size:20
Alignment explanation
Indices: 35956179--35956224 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
35956169 AATTAAACCG
35956179 AGCTCAAACGAGCTGAATTA
1 AGCTCAAACGAGCTGAATTA
***
35956199 AGCTCATGTGAGCTGAATTA
1 AGCTCAAACGAGCTGAATTA
*
35956219 AACTCA
1 AGCTCA
35956225 GGTGAGCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
AGCTCAAACGAGCTGAATTA
Found at i:35956229 original size:20 final size:20
Alignment explanation
Indices: 35956188--35956232 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
35956178 GAGCTCAAAC
* *
35956188 GAGCTGAATTAAGCTCATGT
1 GAGCTGAATTAAACTCAGGT
35956208 GAGCTGAATTAAACTCAGGT
1 GAGCTGAATTAAACTCAGGT
35956228 GAGCT
1 GAGCT
35956233 AAACCGAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (20 bp):
GAGCTGAATTAAACTCAGGT
Found at i:35962365 original size:13 final size:13
Alignment explanation
Indices: 35962347--35962374 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35962337 TCGTTGACCA
35962347 CATTTAACATGGT
1 CATTTAACATGGT
35962360 CATTTAACATGGT
1 CATTTAACATGGT
35962373 CA
1 CA
35962375 ATTTTCCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (13 bp):
CATTTAACATGGT
Found at i:35964041 original size:41 final size:41
Alignment explanation
Indices: 35963984--35964171 Score: 304
Period size: 41 Copynumber: 4.6 Consensus size: 41
35963974 CATTGAATGT
* *
35963984 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCGCTGATCAAA
1 AAGGGGTAGCTAAGTGCAGATTCCCCGAAACGCTGATCAAA
*
35964025 AAGGGGTAGCTAAGTGCAGATTCCCCGAATCGCTGATCAAA
1 AAGGGGTAGCTAAGTGCAGATTCCCCGAAACGCTGATCAAA
* *
35964066 AAGGGGTAGCTAAGTGCAGATTCCCCAAAACTCTGATCAAA
1 AAGGGGTAGCTAAGTGCAGATTCCCCGAAACGCTGATCAAA
* * *
35964107 AAGGGGTTGCTAAGTGCAAATTCCCCGAAACTCTGATCAAA
1 AAGGGGTAGCTAAGTGCAGATTCCCCGAAACGCTGATCAAA
35964148 AAGGGGTAGCTAAGTGCAGATTCC
1 AAGGGGTAGCTAAGTGCAGATTCC
35964172 TTAAGGGGTT
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 138 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (41 bp):
AAGGGGTAGCTAAGTGCAGATTCCCCGAAACGCTGATCAAA
Found at i:35964185 original size:26 final size:26
Alignment explanation
Indices: 35964148--35964197 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35964138 TCTGATCAAA
35964148 AAGGGGTAGCTAAGTGCAGATTCCTT
1 AAGGGGTAGCTAAGTGCAGATTCCTT
* *
35964174 AAGGGGTTGCTAAGTGCTGATTCC
1 AAGGGGTAGCTAAGTGCAGATTCC
35964198 CCGAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (26 bp):
AAGGGGTAGCTAAGTGCAGATTCCTT
Found at i:35964230 original size:42 final size:42
Alignment explanation
Indices: 35964174--35964327 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
35964164 CAGATTCCTT
* *
35964174 AAGGGGTTGCTAAGTGCTGATTCC-CCGAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATA
* * * * * *
35964215 AAGGTGGTTGATAAGTGTTGATTCCAGCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTAT-A
* * * *
35964259 AAGGGGTTGCTATGTGCTAATTCC-CCGTATCACTGATTAT-
1 AAGGGGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATA
* *
35964299 AAGTGGTTGCTAAGCGCTGATTCCACCGA
1 AAGGGGTTGCTAAGTGCTGATTCCACCGA
35964328 GTAACGGTTA
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 20 0.22
41 7 0.08
42 30 0.34
43 27 0.30
44 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATA
Found at i:35973760 original size:76 final size:75
Alignment explanation
Indices: 35973622--35973761 Score: 165
Period size: 76 Copynumber: 1.9 Consensus size: 75
35973612 CCGTTATTTA
* * * *
35973622 GCTCTTATGAGCATCCAGTTATATGGCTCTCACGGGCTTCCCAATAGTTGGCTCTCATGAGCTTT
1 GCTCTTATGAGCATCCAGTTATATGGCTCTCACGAGCTTCCCAATAGTTGCCTCGCAAGAGCTTT
35973687 TCAATTAATG
66 TCAATTAATG
* * * * * *
35973697 GCTCTTTTGAGCTTCCCGTT-TATGGCTCTCGTATGAGCTTCCCGATATTTGCCTCGCAAGAGCT
1 GCTCTTATGAGCATCCAGTTATATGGCTCTC--ACGAGCTTCCCAATAGTTGCCTCGCAAGAGCT
35973761 T
64 T
35973762 CCCGTTATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
74 10 0.19
75 17 0.32
76 26 0.49
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (75 bp):
GCTCTTATGAGCATCCAGTTATATGGCTCTCACGAGCTTCCCAATAGTTGCCTCGCAAGAGCTTT
TCAATTAATG
Found at i:35993887 original size:20 final size:20
Alignment explanation
Indices: 35993862--35993915 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
35993852 TGAACCCTTC
35993862 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
35993882 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
*
35993902 TATTTACTTACTTT
1 CATTTACTTACTTT
35993916 AGCTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:36007073 original size:16 final size:15
Alignment explanation
Indices: 36007052--36007087 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
36007042 GGAGGAAAAG
36007052 AAATGAAAAAATAATA
1 AAATGAAAAAATAA-A
36007068 AAATGAAAAAATAAA
1 AAATGAAAAAATAAA
36007083 AAATG
1 AAATG
36007088 TAAAGCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (15 bp):
AAATGAAAAAATAAA
Found at i:36011405 original size:22 final size:21
Alignment explanation
Indices: 36011360--36011416 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
36011350 GTGGAGGTCT
**
36011360 ACACGCCCATGTGAAAGAGGC
1 ACACGCCTGTGTGAAAGAGGC
* *
36011381 ACATGCCTGTGTGAGAGAAGGC
1 ACACGCCTGTGTGAAAG-AGGC
*
36011403 ACACGGCTGTGTGA
1 ACACGCCTGTGTGA
36011417 TGATGACACA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.16
Consensus pattern (21 bp):
ACACGCCTGTGTGAAAGAGGC
Found at i:36017206 original size:34 final size:32
Alignment explanation
Indices: 36017158--36017236 Score: 122
Period size: 34 Copynumber: 2.4 Consensus size: 32
36017148 CTCTACATTG
*
36017158 CTTAATCAATCTTCCATGATCTCCAATTCGTCC
1 CTTAATCAAGCTTCCATGATCTCCAATTCGT-C
36017191 ACTTAATCAAGCTTCCATGATCTCCAATTCGTC
1 -CTTAATCAAGCTTCCATGATCTCCAATTCGTC
*
36017224 CTTGATCAAGCTT
1 CTTAATCAAGCTT
36017237 GGAACTTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 12 0.28
33 1 0.02
34 30 0.70
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.35
Consensus pattern (32 bp):
CTTAATCAAGCTTCCATGATCTCCAATTCGTC
Found at i:36022665 original size:3 final size:3
Alignment explanation
Indices: 36022657--36022701 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
36022647 TTTTTGCCTT
* * *
36022657 TGC TGC TGC TGC TGC TGC TGC TGC TGG TGT TGT TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
36022702 AGTTGCTGCG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.27, G:0.36, T:0.38
Consensus pattern (3 bp):
TGC
Found at i:36022701 original size:27 final size:27
Alignment explanation
Indices: 36022663--36022721 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
36022653 CCTTTGCTGC
*
36022663 TGCTGCTGCTGCTGCTGCTG-GTGTTGT
1 TGCTGCTGCTGCAGCTGCTGCGT-TTGT
*
36022690 TGCTGCTGCTGCAGTTGCTGCGTTTGT
1 TGCTGCTGCTGCAGCTGCTGCGTTTGT
36022717 TGCTG
1 TGCTG
36022722 AGGAGATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.02, C:0.22, G:0.36, T:0.41
Consensus pattern (27 bp):
TGCTGCTGCTGCAGCTGCTGCGTTTGT
Found at i:36022706 original size:15 final size:15
Alignment explanation
Indices: 36022660--36022710 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
36022650 TTGCCTTTGC
*
36022660 TGCTGCTGCTGCTGC
1 TGCTGCTGCTGCTGT
* *
36022675 TGCTGCTGGTGTTGT
1 TGCTGCTGCTGCTGT
*
36022690 TGCTGCTGCTGCAGT
1 TGCTGCTGCTGCTGT
36022705 TGCTGC
1 TGCTGC
36022711 GTTTGTTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.02, C:0.25, G:0.35, T:0.37
Consensus pattern (15 bp):
TGCTGCTGCTGCTGT
Found at i:36025454 original size:35 final size:35
Alignment explanation
Indices: 36025408--36025486 Score: 149
Period size: 35 Copynumber: 2.3 Consensus size: 35
36025398 CGGGTTCGGG
36025408 CCGGGCCCGAAAAATTTTCGGCCCGACTCTTAGGC
1 CCGGGCCCGAAAAATTTTCGGCCCGACTCTTAGGC
36025443 CCGGGCCCGAAAAATTTTCGGCCCGACTCTTAGGC
1 CCGGGCCCGAAAAATTTTCGGCCCGACTCTTAGGC
*
36025478 CTGGGCCCG
1 CCGGGCCCG
36025487 GCCCGGCCCG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.18, C:0.35, G:0.28, T:0.19
Consensus pattern (35 bp):
CCGGGCCCGAAAAATTTTCGGCCCGACTCTTAGGC
Found at i:36026145 original size:20 final size:21
Alignment explanation
Indices: 36026116--36026169 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
36026106 AGAAATATAT
*
36026116 AAAAATATCTAAAT-ATTTTC
1 AAAAATATCTAAATAATTTTA
*
36026136 AAATATATCTAAATAATTTTA
1 AAAAATATCTAAATAATTTTA
*
36026157 AAAAATATATAAA
1 AAAAATATCTAAA
36026170 AATAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATATCTAAATAATTTTA
Found at i:36026191 original size:31 final size:30
Alignment explanation
Indices: 36026145--36026206 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
36026135 CAAATATATC
36026145 TAAATAATTTTAAAAAATATATAAAAATAAA
1 TAAATAATTTTAAAAAAT-TATAAAAATAAA
*
36026176 TAAAT-ATTTTCAAAAAATTATAATAATAAA
1 TAAATAATTTT-AAAAAATTATAAAAATAAA
36026206 T
1 T
36026207 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAATAATTTTAAAAAATTATAAAAATAAA
Found at i:36026215 original size:30 final size:29
Alignment explanation
Indices: 36026150--36026216 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
36026140 ATATCTAAAT
36026150 AATTTTAAAAAATATATAAAAATAAATAA
1 AATTTTAAAAAATATATAAAAATAAATAA
* *
36026179 ATATTTTCAAAAAAT-TATAATAATAAATTTA
1 A-ATTTT-AAAAAATATATAAAAATAAA-TAA
36026210 AATTTTA
1 AATTTTA
36026217 TATTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 2 0.06
30 21 0.64
31 10 0.30
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AATTTTAAAAAATATATAAAAATAAATAA
Found at i:36026426 original size:15 final size:15
Alignment explanation
Indices: 36026408--36026438 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36026398 TGCAAAACTT
36026408 GGGCTTGGAAAAAGA
1 GGGCTTGGAAAAAGA
36026423 GGGCTTGGAAAAAGA
1 GGGCTTGGAAAAAGA
36026438 G
1 G
36026439 ATGATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.42, T:0.13
Consensus pattern (15 bp):
GGGCTTGGAAAAAGA
Found at i:36030522 original size:54 final size:54
Alignment explanation
Indices: 36030455--36030625 Score: 180
Period size: 54 Copynumber: 3.2 Consensus size: 54
36030445 GTCACACGCT
* * *** *
36030455 CGTGTGTTAGGCCGTGTAACTCTCGTAATAGCCCCACACGCTTGTGTGGCAGGC
1 CGTGTGCTAGGCCGTGTAACTCTCGAAATAGCCCCACACGCCCATGTGCCAGGC
** * *
36030509 CGTGTGCTAGGCCGTGTAACTCTCGAAATAGCTTCACATGCCCATGTGCCTGGC
1 CGTGTGCTAGGCCGTGTAACTCTCGAAATAGCCCCACACGCCCATGTGCCAGGC
* * * ** * *
36030563 CGTGTGCTAGGCCATATAACTCTAGAAATAGCTTCACATGCCCATGTGCTAGGC
1 CGTGTGCTAGGCCGTGTAACTCTCGAAATAGCCCCACACGCCCATGTGCCAGGC
*
36030617 CATGTGCTA
1 CGTGTGCTA
36030626 CCTAACTTGC
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.26
Consensus pattern (54 bp):
CGTGTGCTAGGCCGTGTAACTCTCGAAATAGCCCCACACGCCCATGTGCCAGGC
Found at i:36031549 original size:36 final size:36
Alignment explanation
Indices: 36031498--36031616 Score: 127
Period size: 36 Copynumber: 3.3 Consensus size: 36
36031488 AATCCCACCA
* *
36031498 AAACACACCAGATGCTCATAAGAGCTAGTCCATCCG
1 AAACACACCAAATGCTCATAAGAGCTAATCCATCCG
* *
36031534 AAACACACCAAATGCTCATAGGAGCTAAT-CATCTG
1 AAACACACCAAATGCTCATAAGAGCTAATCCATCCG
* ** *
36031569 GAATGCACC-AATGGCTCCA-AAGAGCTAATCCAACCG
1 AAACACACCAAAT-GCT-CATAAGAGCTAATCCATCCG
36031605 AAACACACCAAA
1 AAACACACCAAA
36031617 ACAGAGAGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
34 3 0.05
35 23 0.35
36 38 0.58
37 2 0.03
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.15
Consensus pattern (36 bp):
AAACACACCAAATGCTCATAAGAGCTAATCCATCCG
Found at i:36034578 original size:108 final size:108
Alignment explanation
Indices: 36034389--36034610 Score: 349
Period size: 108 Copynumber: 2.1 Consensus size: 108
36034379 GGTACTACTA
*
36034389 GAGTCAACCAGAATAATAGCTTCAAGATGACCAATTCTAGTTGACAATCGCATTGTATTGTGATT
1 GAGTCAACCAGAATAATAGCTTCAAGATGACCAATTCTAGCTGACAATCGCATTGTATTGTGATT
* *
36034454 TTGGGGCCCATTGAGAGCATGTAGGGACAGAACTGGTGCTATT
66 TTGGGACCCATTGAGAGCATATAGGGACAGAACTGGTGCTATT
* *
36034497 GAGTCAACCTGAATAATAGCTTCAAGATGACCAATTCTAGCTGACAA-CATCATTGTATTGTGAG
1 GAGTCAACCAGAATAATAGCTTCAAGATGACCAATTCTAGCTGACAATC-GCATTGTATTGTGA-
* *
36034561 TTTT-GGACCCGTTGAGAGCATATAGGGATAGAACTGGTGCTATT
64 TTTTGGGACCCATTGAGAGCATATAGGGACAGAACTGGTGCTATT
36034605 GAGTCA
1 GAGTCA
36034611 GCTTCACATT
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
107 1 0.01
108 100 0.95
109 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (108 bp):
GAGTCAACCAGAATAATAGCTTCAAGATGACCAATTCTAGCTGACAATCGCATTGTATTGTGATT
TTGGGACCCATTGAGAGCATATAGGGACAGAACTGGTGCTATT
Found at i:36036722 original size:6 final size:6
Alignment explanation
Indices: 36036653--36036707 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
36036643 TTATATTTAT
36036653 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
36036701 TTAATA T
1 TTAATA T
36036708 AAAATTTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:36036765 original size:51 final size:52
Alignment explanation
Indices: 36036709--36036866 Score: 178
Period size: 52 Copynumber: 2.9 Consensus size: 52
36036699 TATTAATATA
36036709 AAATTTATTATTATATTTTTTGAAAATATTTATTTATTTCTAT-T-TATTTTT
1 AAATTTATTATTATATTTTTTGAAAATATTTATTTATTTCTATATGT-TTTTT
* *
36036760 AAATTTTATATATTATTATTTATTGTCAAAAATATATT-TTTATTTTTATATGTTTTTT
1 AAA-TTTAT-TATTA-TATTT-TT-T-GAAAATAT-TTATTTATTTCTATATGTTTTTT
* * *
36036818 AAATTTATTATTTTATTTTTTGAAAATATTTATGTATTTGTATATGTTT
1 AAATTTATTATTATATTTTTTGAAAATATTTATTTATTTCTATATGTTT
36036867 CCTTGAATTT
Statistics
Matches: 91, Mismatches: 6, Indels: 19
0.78 0.05 0.16
Matches are distributed among these distances:
51 5 0.05
52 27 0.30
53 6 0.07
54 7 0.08
55 7 0.08
56 5 0.05
57 22 0.24
58 11 0.12
59 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (52 bp):
AAATTTATTATTATATTTTTTGAAAATATTTATTTATTTCTATATGTTTTTT
Found at i:36038743 original size:25 final size:25
Alignment explanation
Indices: 36038715--36038767 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
36038705 AAAAAGTTTA
36038715 GCATAACAAAGT-AACACATGACTTC
1 GCATAACAAAGTAAAC-CATGACTTC
* *
36038740 GCATAACAATGTAAACCATGAGTTC
1 GCATAACAAAGTAAACCATGACTTC
36038765 GCA
1 GCA
36038768 CAAAAACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.21
Consensus pattern (25 bp):
GCATAACAAAGTAAACCATGACTTC
Found at i:36039491 original size:15 final size:15
Alignment explanation
Indices: 36039471--36039504 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
36039461 AAACATTTTC
36039471 AAATGTGCTTATTGA
1 AAATGTGCTTATTGA
*
36039486 AAATGTGCTTGTTGA
1 AAATGTGCTTATTGA
36039501 AAAT
1 AAAT
36039505 CATAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (15 bp):
AAATGTGCTTATTGA
Done.