Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 155 of 195
Found at i:25902061 original size:96 final size:98
Alignment explanation
Indices: 25901940--25902169 Score: 236
Period size: 101 Copynumber: 2.4 Consensus size: 98
25901930 GCTAGGCAAT
* * * *
25901940 TTTCATTGGGTGCTAGCTAATCTGGGCTTAAAATTGGA-T-GT-C-AGCAAAGCTGGGCTTAAAA
1 TTTCATTGGGTGCTAGGTAAACTGGGCTTAAAATTGCATTAGTACTAGCAAAGCTAGGCTTAAAA
* *
25902001 TCTTATTAGGTACC-ACATAATTTAAGGCTAAAACC
66 TCTCATGAGGTACCTA-ATAATTT-AGGCTAAAA-C
* * * *
25902036 TTTCTTTGGGTGCTAGGTAAACTGGGTTTAAAATTTCATTGAGTACTAGCTAAGCTAGGCTTAAA
1 TTTCATTGGGTGCTAGGTAAACTGGGCTTAAAATTGCATT-AGTACTAGCAAAGCTAGGCTTAAA
* * *
25902101 ATCTCATGGGGTGCCTAATAATTTAGGCTTAAAC
65 ATCTCATGAGGTACCTAATAATTTAGGCTAAAAC
* * * *
25902135 TTTCCTTGGATGCCAGGTAAACTTGGCTTAAAATT
1 TTTCATTGGGTGCTAGGTAAACTGGGCTTAAAATT
25902170 TTATTGAGTG
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
96 32 0.29
97 1 0.01
99 33 0.30
100 9 0.08
101 34 0.31
102 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (98 bp):
TTTCATTGGGTGCTAGGTAAACTGGGCTTAAAATTGCATTAGTACTAGCAAAGCTAGGCTTAAAA
TCTCATGAGGTACCTAATAATTTAGGCTAAAAC
Found at i:25902095 original size:159 final size:158
Alignment explanation
Indices: 25901782--25902075 Score: 351
Period size: 158 Copynumber: 1.9 Consensus size: 158
25901772 GAGCTTAAAA
* *
25901782 TTTCATTGGGTGCCAGCTAAGTTGAGCTTAAAATTAGGTGCCGACTAAGCTAAGCTTAAAATCTC
1 TTTCATTGGGTGCCAGCTAAGTTGAGCTTAAAATTAGGTGCAGACAAAGCTAAGCTTAAAATCTC
* ** *
25901847 ATTGGGTTTCAAATAATATAGGCTTAAACCTTTCCTTGGGTGCCAGATAAACTGAGCTTAAAATT
66 ATTAGGTACCAAATAATATAGGCTAAAACCTTTCCTTGGGTGCCAGATAAACTGAGCTTAAAATT
* *
25901912 TCATTACATGCCAATTAAGCTAGGCAAT
131 TCATTACATACCAACTAAGCTAGGCAAT
* * **
25901940 TTTCATTGGGTGCTAGCTAA-TCTGGGCTTAAAATT-GGATGTCAG-CAAAGCTGGGCTTAAAAT
1 TTTCATTGGGTGCCAGCTAAGT-TGAGCTTAAAATTAGG-TG-CAGACAAAGCTAAGCTTAAAAT
* * * * * * * *
25902002 CTTATTAGGTACCACATAATTTAAGGCTAAAACCTTTCTTTGGGTGCTAGGTAAACTGGGTTTAA
63 CTCATTAGGTACCAAATAATAT-AGGCTAAAACCTTTCCTTGGGTGCCAGATAAACTGAGCTTAA
25902067 AATTTCATT
127 AATTTCATT
25902076 GAGTACTAGC
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
157 3 0.03
158 64 0.56
159 47 0.41
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (158 bp):
TTTCATTGGGTGCCAGCTAAGTTGAGCTTAAAATTAGGTGCAGACAAAGCTAAGCTTAAAATCTC
ATTAGGTACCAAATAATATAGGCTAAAACCTTTCCTTGGGTGCCAGATAAACTGAGCTTAAAATT
TCATTACATACCAACTAAGCTAGGCAAT
Found at i:25902176 original size:99 final size:101
Alignment explanation
Indices: 25901986--25902202 Score: 269
Period size: 99 Copynumber: 2.2 Consensus size: 101
25901976 GATGTCAGCA
* * * * *
25901986 AAGCTGGGCTTAAAATCTTATTAGGTACCACATAATTTAAGGCTAAAACCTTTCTTTGGGTGCTA
1 AAGCTGGGCTTAAAATCTCATGAGGTACCACATAATTTAAGGCTAAAACCTTTCCTTGGATGCCA
*
25902051 GGTAAACTGGGTTTAAAATTTCATTGAGTACTAGCT
66 GGTAAACTGGGCTTAAAATTTCATTGAGTACTAGCT
* * * *
25902087 AAGCTAGGCTTAAAATCTCATGGGGTGCCTA-ATAATTT-AGGCTTAAA-CTTTCCTTGGATGCC
1 AAGCTGGGCTTAAAATCTCATGAGGTACC-ACATAATTTAAGGCTAAAACCTTTCCTTGGATGCC
* * * *
25902149 AGGTAAACTTGGCTTAAAATTTTATTGAGTGCTAGGT
65 AGGTAAACTGGGCTTAAAATTTCATTGAGTACTAGCT
*
25902186 AAGTTGGGCTTAAAATC
1 AAGCTGGGCTTAAAATC
25902203 CTTTTATGGT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
99 59 0.60
100 8 0.08
101 31 0.31
102 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (101 bp):
AAGCTGGGCTTAAAATCTCATGAGGTACCACATAATTTAAGGCTAAAACCTTTCCTTGGATGCCA
GGTAAACTGGGCTTAAAATTTCATTGAGTACTAGCT
Found at i:25902186 original size:33 final size:33
Alignment explanation
Indices: 25902036--25902201 Score: 106
Period size: 33 Copynumber: 5.0 Consensus size: 33
25902026 GGCTAAAACC
* * * *
25902036 TTTCTTTGGGTGCTAGGTAAACTGGGTTTAAAA
1 TTTCATTGAGTGCTAGGTAAACTTGGCTTAAAA
* * * *
25902069 TTTCATTGAGTACTAGCTAAGCTAGGCTTAAAA
1 TTTCATTGAGTGCTAGGTAAACTTGGCTTAAAA
* * * * * *
25902102 TCTCATGGGGTGCCTA-AT-AATTTAGGCTTAAAC
1 TTTCATTGAGTG-CTAGGTAAACTT-GGCTTAAAA
* *
25902135 TTTCCTTG-GATGCCAGGTAAACTTGGCTTAAAA
1 TTTCATTGAG-TGCTAGGTAAACTTGGCTTAAAA
* *
25902168 TTTTATTGAGTGCTAGGT-AAGTTGGGCTTAAAA
1 TTTCATTGAGTGCTAGGTAAACTT-GGCTTAAAA
25902201 T
1 T
25902202 CCTTTTATGG
Statistics
Matches: 99, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
32 9 0.09
33 82 0.83
34 8 0.08
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (33 bp):
TTTCATTGAGTGCTAGGTAAACTTGGCTTAAAA
Found at i:25902429 original size:22 final size:22
Alignment explanation
Indices: 25902404--25902474 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
25902394 ACTTTTTTAG
*
25902404 CTAATTTGAGCTTATGTGCCAA
1 CTAATCTGAGCTTATGTGCCAA
* *
25902426 CTAATCTGGGCTTAAGTGCCAA
1 CTAATCTGAGCTTATGTGCCAA
* *
25902448 CTAAACT-AGACTTATGTGCCAG
1 CTAATCTGAG-CTTATGTGCCAA
25902470 CTAAT
1 CTAAT
25902475 TTAGGCTTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (22 bp):
CTAATCTGAGCTTATGTGCCAA
Found at i:25902483 original size:22 final size:22
Alignment explanation
Indices: 25902413--25902483 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
25902403 GCTAATTTGA
*
25902413 GCTTATGTGCCAACTAATCTGG
1 GCTTATGTGCCAACTAATCTAG
* *
25902435 GCTTAAGTGCCAACTAAACTAG
1 GCTTATGTGCCAACTAATCTAG
* * *
25902457 ACTTATGTGCCAGCTAATTTAG
1 GCTTATGTGCCAACTAATCTAG
25902479 GCTTA
1 GCTTA
25902484 CGCACCAGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (22 bp):
GCTTATGTGCCAACTAATCTAG
Found at i:25902496 original size:44 final size:44
Alignment explanation
Indices: 25902414--25902498 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
25902404 CTAATTTGAG
* **
25902414 CTTATGTGCCAACTAATCTGGGCTTAAGTGCCAACTAAACTAGA
1 CTTATGTGCCAACTAATCTAGGCTTAAGCACCAACTAAACTAGA
* * * *
25902458 CTTATGTGCCAGCTAATTTAGGCTTACGCACCAGCTAAACT
1 CTTATGTGCCAACTAATCTAGGCTTAAGCACCAACTAAACT
25902499 GGGCTTAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
CTTATGTGCCAACTAATCTAGGCTTAAGCACCAACTAAACTAGA
Found at i:25903608 original size:26 final size:26
Alignment explanation
Indices: 25903572--25903632 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
25903562 ACCCATTCAT
25903572 TTCTTTTCTTT-TTCCTTATTT-CATTC
1 TTCTTTTCTTTCTT--TTATTTCCATTC
*
25903598 TTCTTTTCTTTCTTTTTTTTCCATTC
1 TTCTTTTCTTTCTTTTATTTCCATTC
25903624 TT-TTTTCTT
1 TTCTTTTCTT
25903633 CGAGTGGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 12 0.38
26 18 0.56
27 2 0.06
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (26 bp):
TTCTTTTCTTTCTTTTATTTCCATTC
Found at i:25904076 original size:12 final size:13
Alignment explanation
Indices: 25904059--25904088 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25904049 GTCAATACTA
25904059 TTTTTCT-TTTCT
1 TTTTTCTCTTTCT
25904071 TTTTTCTCTTTCT
1 TTTTTCTCTTTCT
25904084 TTTTT
1 TTTTT
25904089 TTGATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTCTTTCT
Found at i:25904096 original size:21 final size:22
Alignment explanation
Indices: 25904072--25904119 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
25904062 TTCTTTTCTT
25904072 TTTTCTC-TTTCTTTTTTTTGA
1 TTTTCTCATTTCTTTTTTTTGA
* *
25904093 TTTT-TCATTTTTTTTTTTTGG
1 TTTTCTCATTTCTTTTTTTTGA
25904114 TTTTCT
1 TTTTCT
25904120 TACATGCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.87
22 1 0.04
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTTCTCATTTCTTTTTTTTGA
Found at i:25904969 original size:12 final size:10
Alignment explanation
Indices: 25904941--25904983 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
25904931 AATTTAAAAC
25904941 TTTCTTTTTT
1 TTTCTTTTTT
25904951 TTGT-TTTTTT
1 TT-TCTTTTTT
*
25904961 CTCTCTTTTTT
1 -TTTCTTTTTT
25904972 TTTCTTTTTT
1 TTTCTTTTTT
25904982 TT
1 TT
25904984 AGGCATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:25908190 original size:29 final size:29
Alignment explanation
Indices: 25908139--25908206 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
25908129 AATTTCTCAT
25908139 TAAATTTT-TTTTTCAATCATAGCTACAA
1 TAAATTTTATTTTTCAATCATAGCTACAA
* * * * *
25908167 TAACTTTTATTTTTCACTCGTAGCTATAG
1 TAAATTTTATTTTTCAATCATAGCTACAA
25908196 TAAATTTTATT
1 TAAATTTTATT
25908207 ATTATTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (29 bp):
TAAATTTTATTTTTCAATCATAGCTACAA
Found at i:25910607 original size:23 final size:23
Alignment explanation
Indices: 25910564--25910612 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
25910554 GGAAAAGTTG
* *
25910564 AAAGTATTAATTTTTTCTTAAATA
1 AAAGAATTAAATTTTTCTTAAA-A
25910588 AAAGAATTAAATTTTT-TTAAAA
1 AAAGAATTAAATTTTTCTTAAAA
25910610 AAA
1 AAA
25910613 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 5 0.22
24 14 0.61
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAGAATTAAATTTTTCTTAAAA
Found at i:25914861 original size:24 final size:24
Alignment explanation
Indices: 25914791--25914862 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
25914781 ATATTTAATT
* *
25914791 ATAAAAATAAATAAT-AAAATAACA
1 ATAAAAATAAA-AGTAAAAATAAAA
* * *
25914815 ATAATAAT-AAGGTAATAACTAAAA
1 ATAAAAATAAAAGTAA-AAATAAAA
25914839 ATAAAAATAAAAGTAAAAATAAAA
1 ATAAAAATAAAAGTAAAAATAAAA
25914863 CAATGGGCCT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
22 1 0.03
23 3 0.08
24 27 0.73
25 6 0.16
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (24 bp):
ATAAAAATAAAAGTAAAAATAAAA
Found at i:25924624 original size:2 final size:2
Alignment explanation
Indices: 25924617--25924673 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
25924607 AGCTTCAAAT
* * * * *
25924617 TA TA TA TA TA TA TA TA TA TA TA TG TG TG TG TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25924659 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
25924674 TATTTTGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25926201 original size:6 final size:6
Alignment explanation
Indices: 25926185--25926240 Score: 67
Period size: 6 Copynumber: 8.8 Consensus size: 6
25926175 ATATGGATTT
* *
25926185 TTTTTA TTTTTTA TTTTATTA TTATTA TTATTA TTTTTA TTTTTA TTTTTA
1 TTTTTA -TTTTTA -TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
25926236 TTTTT
1 TTTTT
25926241 TGGCAAAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
6 31 0.67
7 12 0.26
8 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:25926206 original size:3 final size:3
Alignment explanation
Indices: 25926195--25926237 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
25926185 TTTTTATTTT
* * *
25926195 TTA TT- TTA TTA TTA TTA TTA TTA TTT TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25926238 TTTTGGCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (3 bp):
TTA
Found at i:25928001 original size:2 final size:2
Alignment explanation
Indices: 25927996--25928026 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25927986 GCTCCAGCTG
25927996 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25928027 CTTTTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25928358 original size:3 final size:3
Alignment explanation
Indices: 25928350--25928379 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25928340 TTGTAGCTTC
25928350 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25928380 GATCATTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25930541 original size:17 final size:19
Alignment explanation
Indices: 25930516--25930556 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25930506 ATTTTTACTT
25930516 TTTTGCTATT-TGTTTTTA
1 TTTTGCTATTATGTTTTTA
*
25930534 TTTT-CTATTAATTTTTTTA
1 TTTTGCTATT-ATGTTTTTA
25930553 TTTT
1 TTTT
25930557 TTAATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTGCTATTATGTTTTTA
Found at i:25933199 original size:61 final size:62
Alignment explanation
Indices: 25933134--25933281 Score: 151
Period size: 61 Copynumber: 2.4 Consensus size: 62
25933124 ATTCACAACC
* ** * *
25933134 AATTTTTAGATTCT-CAAAGA-TTTCAAATTTGCAAAAAATTTCAAATTTTCAATTTTGCAAG
1 AATTTTTAGATT-TGCAAAAATTTTCAAATTCACAAAAAATTTCAAAATTTCAATTTTGCAAA
* * * *
25933195 AA-TTTTATATTTGCAAAAATTTTTAGATTCACAAAAATTTTCAAAATTTCAATTTTGCAAA
1 AATTTTTAGATTTGCAAAAATTTTCAAATTCACAAAAAATTTCAAAATTTCAATTTTGCAAA
* * *
25933256 AA-TTTCATATTTGTAAAAATTTTCAA
1 AATTTTTAGATTTGCAAAAATTTTCAA
25933282 GTTCGCAAGG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 13 0.18
61 58 0.81
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (62 bp):
AATTTTTAGATTTGCAAAAATTTTCAAATTCACAAAAAATTTCAAAATTTCAATTTTGCAAA
Found at i:25933218 original size:18 final size:18
Alignment explanation
Indices: 25933187--25933235 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
25933177 AATTTTCAAT
* *
25933187 TTTGCAAGAA-TTTTATA
1 TTTGCAAAAATTTTTAGA
25933204 TTTGCAAAAATTTTTAGA
1 TTTGCAAAAATTTTTAGA
**
25933222 TTCACAAAAATTTT
1 TTTGCAAAAATTTT
25933236 CAAAATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (18 bp):
TTTGCAAAAATTTTTAGA
Found at i:25933259 original size:17 final size:17
Alignment explanation
Indices: 25933237--25933277 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25933227 AAAAATTTTC
25933237 AAAATTTCA-ATTTTGCA
1 AAAATTTCATA-TTTGCA
*
25933254 AAAATTTCATATTTGTA
1 AAAATTTCATATTTGCA
25933271 AAAATTT
1 AAAATTT
25933278 TCAAGTTCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (17 bp):
AAAATTTCATATTTGCA
Found at i:25933259 original size:79 final size:79
Alignment explanation
Indices: 25933094--25933260 Score: 182
Period size: 79 Copynumber: 2.1 Consensus size: 79
25933084 TTCAGATTCA
* * *
25933094 CAAAAATTTTCAATTTCGCAAGAATTTCATATTCACAACCAATTTTTAGATTCTCAAAGATTTCA
1 CAAAAATTTTCAATTTCGCAAGAATTTCATATTCACAACAAATTTTTAGATTCACAAAAATTTCA
25933159 AATTTGCAAAAAATTT
66 AATTTGC--AAAATTT
* * **
25933175 C--AAATTTTCAATTTTGCAAGAATTTTATATTTGCAA-AAATTTTTAGATTCACAAAAATTTTC
1 CAAAAATTTTCAATTTCGCAAGAATTTCATATTCACAACAAATTTTTAGATTCACAAAAA-TTTC
*
25933237 AAAATTT-C-AATTTT
65 -AAATTTGCAAAATTT
25933251 GCAAAAATTT
1 -CAAAAATTT
25933261 CATATTTGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
76 5 0.07
77 1 0.01
78 18 0.25
79 42 0.58
80 6 0.08
81 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (79 bp):
CAAAAATTTTCAATTTCGCAAGAATTTCATATTCACAACAAATTTTTAGATTCACAAAAATTTCA
AATTTGCAAAATTT
Found at i:25933295 original size:18 final size:19
Alignment explanation
Indices: 25933274--25933355 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 19
25933264 ATTTGTAAAA
25933274 ATTTTCAAG-TTCGCAAGG
1 ATTTTCAAGATTCGCAAGG
* **
25933292 A-TTT-GAGATTCATAAGG
1 ATTTTCAAGATTCGCAAGG
*
25933309 ATTTTC-AGATTTGCAAGG
1 ATTTTCAAGATTCGCAAGG
* *
25933327 A-TTTCAA-ATTTGCAAGA
1 ATTTTCAAGATTCGCAAGG
25933344 ATTTTCAA-ATTC
1 ATTTTCAAGATTC
25933356 ACAAAAAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
16 2 0.04
17 25 0.49
18 24 0.47
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (19 bp):
ATTTTCAAGATTCGCAAGG
Found at i:25933367 original size:18 final size:18
Alignment explanation
Indices: 25933327--25933423 Score: 54
Period size: 18 Copynumber: 5.4 Consensus size: 18
25933317 ATTTGCAAGG
** *
25933327 ATTTCAAATTTGCAAGAA
1 ATTTCAAATTCACAAAAA
*
25933345 TTTTCAAATTCACAAAAA
1 ATTTCAAATTCACAAAAA
* **
25933363 ATTTCATATTGGCAAAAA
1 ATTTCAAATTCACAAAAA
* * *
25933381 TTTTCAAAATT--TAAAAG
1 ATTTC-AAATTCACAAAAA
* *
25933398 ATTTCAAATTCATAAGAA
1 ATTTCAAATTCACAAAAA
*
25933416 TTTTCAAA
1 ATTTCAAA
25933424 ATTTCAATTT
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
16 5 0.08
17 8 0.13
18 43 0.72
19 4 0.07
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (18 bp):
ATTTCAAATTCACAAAAA
Found at i:25933417 original size:26 final size:25
Alignment explanation
Indices: 25933388--25933470 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
25933378 AAATTTTCAA
*
25933388 AATTTAAAAGATTTCAAATTCATAAG
1 AATTTAAAA-ATTTCAAATTCACAAG
* *
25933414 AATTTTCAAAATTTCAATTTCACAAG
1 AA-TTTAAAAATTTCAAATTCACAAG
* * * *
25933440 AATTTTCAAATTTTTAATTTCACAAG
1 AA-TTTAAAAATTTCAAATTCACAAG
25933466 AATTT
1 AATTT
25933471 GATTCTTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
25 3 0.06
26 42 0.82
27 6 0.12
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (25 bp):
AATTTAAAAATTTCAAATTCACAAG
Found at i:25933503 original size:31 final size:31
Alignment explanation
Indices: 25933419--25933532 Score: 112
Period size: 31 Copynumber: 3.8 Consensus size: 31
25933409 ATAAGAATTT
*
25933419 TCAAAATTTCAATTTCACAAGAA--T--TT-
1 TCAAAATTTCAGTTTCACAAGAATTTGATTC
* * *
25933445 TCAAATTTTTAATTTCACAAGAATTTGATTC
1 TCAAAATTTCAGTTTCACAAGAATTTGATTC
* * * *
25933476 TTAATATTTCAGTTTCGCAAGAGTTTGATTC
1 TCAAAATTTCAGTTTCACAAGAATTTGATTC
*
25933507 TCAAAATTTTAGTTTCACAAGAATTT
1 TCAAAATTTCAGTTTCACAAGAATTT
25933533 TGGTTATCAA
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 21 0.30
28 1 0.01
30 2 0.03
31 45 0.65
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (31 bp):
TCAAAATTTCAGTTTCACAAGAATTTGATTC
Found at i:25933881 original size:44 final size:45
Alignment explanation
Indices: 25933831--25934150 Score: 156
Period size: 44 Copynumber: 7.4 Consensus size: 45
25933821 CATATTCAAG
25933831 TTCAAAGATTCACATTCAAGAAATTTTAGAA-TTTCACATCT-AAA
1 TTCAAAGATTCACATTCAAGAAATTTTA-AAGTTTCACATCTAAAA
* *
25933875 TTCAAAGGTTCACATTCAAGAAATTTTAAAGTTTCATATCTAAAAA
1 TTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCT-AAAA
* * * *
25933921 TTCAAATATTCACATTTAAG----TTCAAAGATTCACAT-TAAAGAAA
1 TTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCT--A-AAA
* * * * * * *
25933964 TTTTAGAGTTTCACA-TC--TAAA-TTCAAA-TATTCATAT-TCAAA
1 -TTCAAAGATTCACATTCAAGAAATTTTAAAGT-TTCACATCTAAAA
* *
25934005 TTCAAAGATTGACATTCAAGAAATTTTAGAGTTTCACATCT-AAA
1 TTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCTAAAA
* * * ** * * *
25934049 TTCAAATATT-ACATT-AAAAAAATTTAGGGGTTCACATCCAACA
1 TTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCTAAAA
* * * * * *
25934092 TTTAAAGATTCATA-TAAAAAAACTTTAAAATTCTCAC-T-TAAAA
1 TTCAAAGATTCACATTCAAGAAATTTTAAAGTT-TCACATCTAAAA
* *
25934135 CTCAAAGATTCTCATT
1 TTCAAAGATTCACATT
25934151 TGAAAATTCT
Statistics
Matches: 209, Mismatches: 46, Indels: 42
0.70 0.15 0.14
Matches are distributed among these distances:
40 10 0.05
41 6 0.03
42 33 0.16
43 38 0.18
44 96 0.46
45 6 0.03
46 20 0.10
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (45 bp):
TTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCTAAAA
Found at i:25933933 original size:66 final size:63
Alignment explanation
Indices: 25933863--25934066 Score: 293
Period size: 64 Copynumber: 3.2 Consensus size: 63
25933853 ATTTTAGAAT
* * *
25933863 TTCACATCTAAATTCAAAGGTTCACATTCAAGAAATTTTAAAGTTTCATATCTAAAAATTCAAAT
1 TTCACAT-TAAATTCAAAGATTCACATTCAAGAAATTTTAGAGTTTCACATCT--AAATTCAAAT
25933928 A
63 A
* *
25933929 TTCACATTTAAGTTCAAAGATTCACATTAAAGAAATTTTAGAGTTTCACATCTAAATTCAAATA
1 TTCACA-TTAAATTCAAAGATTCACATTCAAGAAATTTTAGAGTTTCACATCTAAATTCAAATA
* *
25933993 TTCATATTCAAATTCAAAGATTGACATTCAAGAAATTTTAGAGTTTCACATCTAAATTCAAATA
1 TTCACATT-AAATTCAAAGATTCACATTCAAGAAATTTTAGAGTTTCACATCTAAATTCAAATA
25934057 TT-ACATTAAA
1 TTCACATTAAA
25934067 AAAATTTAGG
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
62 3 0.02
63 6 0.05
64 70 0.56
66 46 0.37
67 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (63 bp):
TTCACATTAAATTCAAAGATTCACATTCAAGAAATTTTAGAGTTTCACATCTAAATTCAAATA
Found at i:25934002 original size:110 final size:110
Alignment explanation
Indices: 25933761--25934003 Score: 369
Period size: 110 Copynumber: 2.2 Consensus size: 110
25933751 TTCATATCCA
* * * * *
25933761 AAATTCCAAAGATTTACATTTACGTAATTTTAAAGTTTCACATCTAAAAATTCAAATATTCATAT
1 AAATT-CAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCTAAAAATTCAAATATTCACAT
*
25933826 TCAAGTTCAAAGATTCACATTCAAGAAATTTTAGAATTTCACATCT
65 TCAAGTTCAAAGATTCACATTAAAGAAATTTTAGAATTTCACATCT
* *
25933872 AAATTCAAAGGTTCACATTCAAGAAATTTTAAAGTTTCATATCTAAAAATTCAAATATTCACATT
1 AAATTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCTAAAAATTCAAATATTCACATT
* *
25933937 TAAGTTCAAAGATTCACATTAAAGAAATTTTAGAGTTTCACATCT
66 CAAGTTCAAAGATTCACATTAAAGAAATTTTAGAATTTCACATCT
* *
25933982 AAATTCAAATATTCATATTCAA
1 AAATTCAAAGATTCACATTCAA
25934004 ATTCAAAGAT
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 114 0.96
111 5 0.04
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (110 bp):
AAATTCAAAGATTCACATTCAAGAAATTTTAAAGTTTCACATCTAAAAATTCAAATATTCACATT
CAAGTTCAAAGATTCACATTAAAGAAATTTTAGAATTTCACATCT
Found at i:25934021 original size:20 final size:20
Alignment explanation
Indices: 25933808--25934023 Score: 78
Period size: 20 Copynumber: 10.1 Consensus size: 20
25933798 TCACATCTAA
* *
25933808 AAATTCAAATATTCATATTC
1 AAATTCAAAGATTCACATTC
*
25933828 AAGTTCAAAGATTCACATTC
1 AAATTCAAAGATTCACATTC
* *
25933848 AAGAAATTTTAGAA-TTTCACA-TC
1 ---AAA-TTCA-AAGATTCACATTC
*
25933871 TAAATTCAAAGGTTCACATTC
1 -AAATTCAAAGATTCACATTC
* * * *
25933892 AAGAAATTTTAAAGTTTCATATCTAA
1 ---AAA-TTCAAAGATTCACAT-T-C
* *
25933918 AAATTCAAATATTCACATTT
1 AAATTCAAAGATTCACATTC
* *
25933938 AAGTTCAAAGATTCACATTAAAG
1 AAATTCAAAGATTCACATT---C
* * *
25933961 AAATTTTAGAGTTTCACA-TC
1 AAA-TTCAAAGATTCACATTC
* *
25933981 TAAATTCAAATATTCATATTC
1 -AAATTCAAAGATTCACATTC
*
25934002 AAATTCAAAGATTGACATTC
1 AAATTCAAAGATTCACATTC
25934022 AA
1 AA
25934024 GAAATTTTAG
Statistics
Matches: 143, Mismatches: 35, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
19 2 0.01
20 71 0.50
21 11 0.08
22 11 0.08
23 13 0.09
24 32 0.22
25 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (20 bp):
AAATTCAAAGATTCACATTC
Found at i:25934084 original size:42 final size:42
Alignment explanation
Indices: 25934001--25934118 Score: 121
Period size: 42 Copynumber: 2.7 Consensus size: 42
25933991 TATTCATATT
* * *
25934001 CAAATTCAAAGATTGACATTCAAGAAATTTTAGAGTTTCACATC
1 CAAATTCAAAGATT-ACATT-AAAAAAATTTAGAGGTTCACATC
* * *
25934045 TAAATTCAAATATTACATTAAAAAAATTTAGGGGTTCACATC
1 CAAATTCAAAGATTACATTAAAAAAATTTAGAGGTTCACATC
*
25934087 CAACATTTAAAGATT-CATATAAAAAAACTTTA
1 CAA-ATTCAAAGATTACAT-TAAAAAAA-TTTA
25934119 AAATTCTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
42 24 0.39
43 22 0.35
44 16 0.26
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (42 bp):
CAAATTCAAAGATTACATTAAAAAAATTTAGAGGTTCACATC
Found at i:25934110 original size:43 final size:43
Alignment explanation
Indices: 25934001--25934118 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
25933991 TATTCATATT
* * * * *
25934001 CAAATTCAAAGATTGACATTCAAGAAATTTTAGAGTTTCACATC
1 CAAATTCAAAGATT-ACATTAAAAAAACTTTAGGGGTTCACATC
* *
25934045 TAAATTCAAATATTACATTAAAAAAA-TTTAGGGGTTCACATC
1 CAAATTCAAAGATTACATTAAAAAAACTTTAGGGGTTCACATC
*
25934087 CAACATTTAAAGATT-CATATAAAAAAACTTTA
1 CAA-ATTCAAAGATTACAT-TAAAAAAACTTTA
25934119 AAATTCTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
42 19 0.31
43 27 0.44
44 16 0.26
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (43 bp):
CAAATTCAAAGATTACATTAAAAAAACTTTAGGGGTTCACATC
Found at i:25936886 original size:20 final size:20
Alignment explanation
Indices: 25936833--25936888 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
25936823 TATTCTTGCT
25936833 TTCAATAAA-TAAATTACTA
1 TTCAATAAATTAAATTACTA
* * *
25936852 TTAAATACATGAAATTACTA
1 TTCAATAAATTAAATTACTA
25936872 -TCAATCAAATTAAATTA
1 TTCAAT-AAATTAAATTA
25936889 ACTTAATTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (20 bp):
TTCAATAAATTAAATTACTA
Found at i:25941824 original size:8 final size:8
Alignment explanation
Indices: 25941811--25941843 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
25941801 GTTTTATGAA
25941811 TTGATCAT
1 TTGATCAT
25941819 TTGATCAT
1 TTGATCAT
25941827 TTGATCAT
1 TTGATCAT
*
25941835 TTAATCAT
1 TTGATCAT
25941843 T
1 T
25941844 GATAACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (8 bp):
TTGATCAT
Found at i:25942678 original size:145 final size:145
Alignment explanation
Indices: 25942511--25942775 Score: 476
Period size: 145 Copynumber: 1.8 Consensus size: 145
25942501 TTCATTCATG
*
25942511 AAAATTTATTTGTTAATACTGAAAATGAAACCATTATAAATTGTATAGGTTTTACATAACAAGTT
1 AAAATTTATTTGTTAATACTGAAAATGAAACCATTATAAATTGTATAGGTATTACATAACAAGTT
* *
25942576 TGTTATTCATAAAATTGAAATTTTCTTAATAAAACGTGACAAATACAAAGATTAATAATAAATTT
66 TGTTATTCATAAAATTGAAATTTTCTTAATAAAACATAACAAATACAAAGATTAATAATAAATTT
25942641 TCTTCATAAAATGTA
131 TCTTCATAAAATGTA
* *
25942656 AAAATTTATTTGTTAATGCTGAAAATGAAACTATTATAAATTGTATAGGTATTACATAACAAGTT
1 AAAATTTATTTGTTAATACTGAAAATGAAACCATTATAAATTGTATAGGTATTACATAACAAGTT
*
25942721 TGTTATTCATAAAATTGAAATTTTCTTAATAAAACATAACAAATACCAAGATTAA
66 TGTTATTCATAAAATTGAAATTTTCTTAATAAAACATAACAAATACAAAGATTAA
25942776 GAATTTATTT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 114 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.37
Consensus pattern (145 bp):
AAAATTTATTTGTTAATACTGAAAATGAAACCATTATAAATTGTATAGGTATTACATAACAAGTT
TGTTATTCATAAAATTGAAATTTTCTTAATAAAACATAACAAATACAAAGATTAATAATAAATTT
TCTTCATAAAATGTA
Found at i:25945056 original size:20 final size:21
Alignment explanation
Indices: 25944999--25945056 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
25944989 TGTTTAATTA
* *
25944999 ATAACTTAGTAATTAATTATTG
1 ATAACTTAAT-ATTAATTAGTG
*
25945021 AAAACTTAA-ATGTAATTAGT-
1 ATAACTTAATAT-TAATTAGTG
25945041 ATAACTTAATATTAAT
1 ATAACTTAATATTAAT
25945057 CATCAATAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 14 0.47
21 9 0.30
22 7 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
ATAACTTAATATTAATTAGTG
Found at i:25945214 original size:44 final size:44
Alignment explanation
Indices: 25945164--25945264 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
25945154 AAGTGACAAC
* *
25945164 TTAATAGTTAATTATTGATAATTTAGTAATAAATCA-ATGATAAT
1 TTAATAGTTAATTAGTGATAATTTAATAATAAATCAGATG-TAAT
* * * *
25945208 TTAATAGTAAATTAGTGATAATTTAATATTAAATCAGTTGTAGT
1 TTAATAGTTAATTAGTGATAATTTAATAATAAATCAGATGTAAT
25945252 TTAATAG-TAATTA
1 TTAATAGTTAATTA
25945265 AATATAGTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 5 0.10
44 42 0.86
45 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (44 bp):
TTAATAGTTAATTAGTGATAATTTAATAATAAATCAGATGTAAT
Found at i:25945254 original size:22 final size:22
Alignment explanation
Indices: 25945150--25945261 Score: 100
Period size: 22 Copynumber: 5.1 Consensus size: 22
25945140 ACTTAACAAA
* * *
25945150 AAATAAGTGACAACTTAATAGT
1 AAATCAGTGATAATTTAATAGT
* * * * *
25945172 TAATTATTGATAATTTAGTAAT
1 AAATCAGTGATAATTTAATAGT
*
25945194 AAATCAATGATAATTTAATAGT
1 AAATCAGTGATAATTTAATAGT
* *
25945216 AAATTAGTGATAATTTAATATT
1 AAATCAGTGATAATTTAATAGT
*
25945238 AAATCAGTTG-TAGTTTAATAGT
1 AAATCAG-TGATAATTTAATAGT
25945260 AA
1 AA
25945262 TTAAATATAG
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
22 69 0.97
23 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.39
Consensus pattern (22 bp):
AAATCAGTGATAATTTAATAGT
Found at i:25945345 original size:22 final size:21
Alignment explanation
Indices: 25945319--25945370 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
25945309 ACTTAGTAGA
*
25945319 AAATCATCGATAACATAATAGT
1 AAATCAT-GACAACATAATAGT
* *
25945341 TAATCAATGACAACTTAATAGT
1 AAATC-ATGACAACATAATAGT
25945363 AAATCATG
1 AAATCATG
25945371 TATAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.80
23 2 0.08
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATCATGACAACATAATAGT
Found at i:25945380 original size:22 final size:21
Alignment explanation
Indices: 25945355--25945581 Score: 72
Period size: 22 Copynumber: 10.6 Consensus size: 21
25945345 CAATGACAAC
25945355 TTAATAGTAAATCATGTATAAT
1 TTAATAGTAAATCAT-TATAAT
* *
25945377 TTAATA-TAAAACAATAATAAT
1 TTAATAGTAAATC-ATTATAAT
** *
25945398 TTTGTAGTAAATCATATATACT
1 TTAATAGTAAATCAT-TATAAT
* * *
25945420 TTAGT-GATAATTCAATAATAAT
1 TTAATAG-TAAATC-ATTATAAT
* *
25945442 TT--TGAGATAAATAATTAAAAAT
1 TTAAT-AG-TAAATCATT-ATAAT
* * * *
25945464 TAAATAGTAAATCAATGATGAC
1 TTAATAGTAAATC-ATTATAAT
* * *
25945486 ATAATAATAAAT-ATATAAAAT
1 TTAATAGTAAATCAT-TATAAT
*
25945507 ATAATAGTAAATCATTGATAAT
1 TTAATAGTAAATCATT-ATAAT
* *
25945529 TTAATAATAAAT--TGATAAT
1 TTAATAGTAAATCATTATAAT
* * * *
25945548 ATACTAGTAAATAACTAATAAT
1 TTAATAGTAAATCA-TTATAAT
*
25945570 GTAATAGTAAAT
1 TTAATAGTAAAT
25945582 TACTGATAAC
Statistics
Matches: 149, Mismatches: 39, Indels: 34
0.67 0.18 0.15
Matches are distributed among these distances:
19 14 0.09
20 4 0.03
21 33 0.22
22 91 0.61
23 6 0.04
24 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (21 bp):
TTAATAGTAAATCATTATAAT
Found at i:25945442 original size:44 final size:43
Alignment explanation
Indices: 25945359--25945453 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 43
25945349 GACAACTTAA
*
25945359 TAGTAAATCATGTATAATTTAATATAAAACAATAATAATTTTG
1 TAGTAAATCATATATAATTTAATATAAAACAATAATAATTTTG
* * **
25945402 TAGTAAATCATATATACTTTAGTGATAATTCAATAATAATTTTG
1 TAGTAAATCATATATAATTTAAT-ATAAAACAATAATAATTTTG
25945446 -AGATAAAT
1 TAG-TAAAT
25945454 AATTAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 22 0.49
44 23 0.51
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (43 bp):
TAGTAAATCATATATAATTTAATATAAAACAATAATAATTTTG
Found at i:25945569 original size:41 final size:41
Alignment explanation
Indices: 25945487--25945583 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
25945477 AATGATGACA
* * * *
25945487 TAATAATAAATATATAAAATATAATAGTAAATCATTGATAATT
1 TAATAATAAAT-TAT-AAATATAATAGTAAATAACTAATAATG
*
25945530 TAATAATAAATTGAT-AATATACTAGTAAATAACTAATAATG
1 TAATAATAAATT-ATAAATATAATAGTAAATAACTAATAATG
*
25945571 TAATAGTAAATTA
1 TAATAATAAATTA
25945584 CTGATAACTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 1 0.02
41 32 0.68
42 1 0.02
43 13 0.28
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (41 bp):
TAATAATAAATTATAAATATAATAGTAAATAACTAATAATG
Found at i:25945590 original size:22 final size:22
Alignment explanation
Indices: 25945504--25945590 Score: 81
Period size: 22 Copynumber: 4.1 Consensus size: 22
25945494 AAATATATAA
* *
25945504 AATATAATAGTAAATCATTGAT
1 AATATAATAGTAAATTACTGAT
* *
25945526 AATTTAATAATAAA-T--TGAT
1 AATATAATAGTAAATTACTGAT
* * *
25945545 AATATACTAGTAAATAACTAAT
1 AATATAATAGTAAATTACTGAT
*
25945567 AATGTAATAGTAAATTACTGAT
1 AATATAATAGTAAATTACTGAT
25945589 AA
1 AA
25945591 CTTAGTTTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
19 15 0.30
22 35 0.70
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
AATATAATAGTAAATTACTGAT
Found at i:25945631 original size:19 final size:19
Alignment explanation
Indices: 25945607--25945644 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25945597 TTTAAACAAG
* *
25945607 TGATAATTTAGTAATAAAT
1 TGATAACTTAATAATAAAT
25945626 TGATAACTTAATAATAAAT
1 TGATAACTTAATAATAAAT
25945645 CAGTAATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (19 bp):
TGATAACTTAATAATAAAT
Found at i:25945644 original size:85 final size:85
Alignment explanation
Indices: 25945484--25945711 Score: 216
Period size: 85 Copynumber: 2.7 Consensus size: 85
25945474 ATCAATGATG
* *
25945484 ACATAATAATAAATATA-TAA-AA-TATAA-TAGTAAATCATTGATAATTTAATAATAAATTGAT
1 ACATAATAATAAAT-TACTAATAACT-TAATTA-TAAATCAGTGATAATTTAGTAATAAATTGAT
* *
25945545 AATATACTAGTAAATAACTAATA
63 AATATAATAATAAATAACTAATA
** * * * *
25945568 ATGTAATAGTAAATTACTGATAACTTAGTTTTAAA-CAAGTGATAATTTAGTAATAAATTGATAA
1 ACATAATAATAAATTACTAATAACTTAATTATAAATC-AGTGATAATTTAGTAATAAATTGATAA
* *
25945632 CT-TAATAATAAATCAGTAATA
65 -TATAATAATAAATAACTAATA
* * * * *
25945653 ACATAATAATACATTATTAATAATTTAATTATAAATCGGTGATAATTGAGTAATAAATT
1 ACATAATAATAAATTACTAATAACTTAATTATAAATCAGTGATAATTTAGTAATAAATT
25945712 AGTTAATCAT
Statistics
Matches: 114, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
83 2 0.02
84 14 0.12
85 94 0.82
86 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (85 bp):
ACATAATAATAAATTACTAATAACTTAATTATAAATCAGTGATAATTTAGTAATAAATTGATAAT
ATAATAATAAATAACTAATA
Found at i:25945681 original size:22 final size:22
Alignment explanation
Indices: 25945628--25945689 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
25945618 TAATAAATTG
25945628 ATAACTTAATAATAAATCAGTA
1 ATAACTTAATAATAAATCAGTA
* * * *
25945650 ATAACATAATAATACATTATTA
1 ATAACTTAATAATAAATCAGTA
* *
25945672 ATAATTTAATTATAAATC
1 ATAACTTAATAATAAATC
25945690 GGTGATAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAGTA
Found at i:25945814 original size:22 final size:22
Alignment explanation
Indices: 25945733--25945850 Score: 71
Period size: 22 Copynumber: 5.4 Consensus size: 22
25945723 GATTATATTT
* * * *
25945733 TAGTAAATCATTAGTAAATTAG
1 TAGTAAATCACTAATAACTTAA
* * *
25945755 TAGTAAATCAGTTATAACTTTA
1 TAGTAAATCACTAATAACTTAA
* *
25945777 TAATAACTCA-TCAATAACTTAA
1 TAGTAAATCACT-AATAACTTAA
25945799 TAGTAAATCACTAATAA--TAA
1 TAGTAAATCACTAATAACTTAA
* * * *
25945819 GTGGCAAATCCCTCATAACTTAA
1 -TAGTAAATCACTAATAACTTAA
*
25945842 TAGCAAATC
1 TAGTAAATC
25945851 CTTCATAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
20 3 0.04
21 14 0.19
22 53 0.72
23 4 0.05
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.32
Consensus pattern (22 bp):
TAGTAAATCACTAATAACTTAA
Found at i:25945851 original size:22 final size:22
Alignment explanation
Indices: 25945790--25945858 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
25945780 TAACTCATCA
* * *
25945790 ATAACTTAATAGTAAATCACTA
1 ATAACTTAATAGCAAATCCCTC
*
25945812 ATAA--TAAGTGGCAAATCCCTC
1 ATAACTTAA-TAGCAAATCCCTC
*
25945833 ATAACTTAATAGCAAATCCTTC
1 ATAACTTAATAGCAAATCCCTC
25945855 ATAA
1 ATAA
25945859 AAAATTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 13 0.34
22 19 0.50
23 3 0.08
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAACTTAATAGCAAATCCCTC
Found at i:25945968 original size:33 final size:33
Alignment explanation
Indices: 25945927--25945998 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
25945917 ACAACTGATA
25945927 ATTTAATTGTTAATTATTGATAACTTTTATTAT
1 ATTTAATTGTTAATTATTGATAACTTTTATTAT
25945960 ATTTAATTGTTAATTATTGATAACTTTTATTAT
1 ATTTAATTGTTAATTATTGATAACTTTTATTAT
25945993 ATTTAA
1 ATTTAA
25945999 AGTTATCAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.57
Consensus pattern (33 bp):
ATTTAATTGTTAATTATTGATAACTTTTATTAT
Found at i:25946323 original size:21 final size:21
Alignment explanation
Indices: 25946299--25946411 Score: 83
Period size: 21 Copynumber: 5.4 Consensus size: 21
25946289 AGAAATTACA
*
25946299 AAAATTTTATGAAAGATTATC
1 AAAATTTTATCAAAGATTATC
* *
25946320 AAAATTGTATCAATAG-TTACC
1 AAAATTTTATCAA-AGATTATC
* *
25946341 AAAATTATATCATAAG-TTACC
1 AAAATTTTATCA-AAGATTATC
** *
25946362 AATAA-TGCATCGAAGATTATC
1 AA-AATTTTATCAAAGATTATC
25946383 AAAATTTTATCAAA-AGTTATC
1 AAAATTTTATCAAAGA-TTATC
25946404 -AAATTTTA
1 AAAATTTTA
25946412 CTTATATTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
20 14 0.19
21 56 0.75
22 5 0.07
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (21 bp):
AAAATTTTATCAAAGATTATC
Found at i:25947342 original size:2 final size:2
Alignment explanation
Indices: 25947335--25947362 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25947325 GTGGACCAAC
25947335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25947363 CCCCACCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25947719 original size:3 final size:3
Alignment explanation
Indices: 25947711--25947832 Score: 55
Period size: 3 Copynumber: 43.3 Consensus size: 3
25947701 TTCTTTGGCG
* * * * * *
25947711 TAT TAT TAT TAA TAT TAG CAT TAT TA- TAT TA- TAT CA- TAG TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
25947756 ATAT TA- TAT TA- TAT TAA TAC TAT T-G TAT TTT TAT CAT TAT TAG
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
25947799 TA- TAT TA- TAT CA- TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25947833 TACGTTTTTT
Statistics
Matches: 86, Mismatches: 23, Indels: 20
0.67 0.18 0.16
Matches are distributed among these distances:
2 15 0.17
3 69 0.80
4 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:25947742 original size:5 final size:5
Alignment explanation
Indices: 25947732--25947828 Score: 67
Period size: 5 Copynumber: 19.2 Consensus size: 5
25947722 ATATTAGCAT
* * * *
25947732 TATTA TATTA TATCA TAGTA TAATA TATTA TATTA TATTA -A-TA CTATTG
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* *
25947781 TATT- T-TTA TCATTA TTAGTA TATTA TATCA TATTA TTATTA TTATTA
1 TATTA TATTA T-ATTA -TATTA TATTA TATTA TATTA -TATTA -TATTA
25947828 T
1 T
25947829 TATTTACGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
3 4 0.05
4 3 0.04
5 48 0.65
6 18 0.24
7 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:25947811 original size:19 final size:19
Alignment explanation
Indices: 25947710--25947825 Score: 74
Period size: 18 Copynumber: 6.5 Consensus size: 19
25947700 TTTCTTTGGC
*
25947710 GTATTATTAT-TAATATTA
1 GTATTATTATATCATATTA
* *
25947728 GCATTATTATATTATATCATA
1 GTATTATTATATCATAT--TA
* *
25947749 GTA-TAATATATTATATTA
1 GTATTATTATATCATATTA
25947767 -TATTA--ATA-C-TATT-
1 GTATTATTATATCATATTA
25947780 GTATT-TT-TATCATTATTA
1 GTATTATTATATCA-TATTA
25947798 GTA-TATTATATCATATTA
1 GTATTATTATATCATATTA
*
25947816 TTATTATTAT
1 GTATTATTAT
25947826 TATTATTTAC
Statistics
Matches: 78, Mismatches: 6, Indels: 27
0.70 0.05 0.24
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 3 0.04
17 7 0.09
18 25 0.32
19 16 0.21
20 12 0.15
21 4 0.05
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
GTATTATTATATCATATTA
Found at i:25948897 original size:15 final size:17
Alignment explanation
Indices: 25948866--25948903 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
25948856 AATAAAAAAT
25948866 ATAATAAATCTTTTC-AA
1 ATAA-AAATCTTTTCAAA
25948883 ATAAAAATC-TTTCAAA
1 ATAAAAATCTTTTCAAA
25948899 ATAAA
1 ATAAA
25948904 TTCATGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAAAATCTTTTCAAA
Found at i:25949675 original size:45 final size:43
Alignment explanation
Indices: 25949604--25949687 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 43
25949594 TATTTGCTAT
25949604 TTTCTTTTTTTATTGTGTATACTTGCTTAATTATTCATTTGTC
1 TTTCTTTTTTTATTGTGTATACTTGCTTAATTATTCATTTGTC
*
25949647 TTTCTTTTTATTCATTGCT-TATATTTGCTTAATTATTCATT
1 TTTCTTTTT-TT-ATTG-TGTATACTTGCTTAATTATTCATT
25949688 GTATATATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
43 9 0.24
44 2 0.05
45 25 0.68
46 1 0.03
ACGTcount: A:0.18, C:0.12, G:0.07, T:0.63
Consensus pattern (43 bp):
TTTCTTTTTTTATTGTGTATACTTGCTTAATTATTCATTTGTC
Found at i:25960327 original size:114 final size:114
Alignment explanation
Indices: 25960102--25960398 Score: 323
Period size: 114 Copynumber: 2.6 Consensus size: 114
25960092 GGCATTGTCC
* * *
25960102 CGATCATTCATTTACGACTTTGACTCAGTCTTGGTCACTCTCAGACTCGTCG-TATCATCCCAAT
1 CGATCATTCATTTACGACCTCGACTCAGTCTTGGTCACTCTCAGACTCGT-GACATCATCCCAAT
* * * *
25960166 TATTCGATTTCGGCTTAGGTTAGATCACTTTCAAACTCGCGACATCATCT
65 CATTCGATTTCGACTCAGGTTAGATCACTTTCAAACTCACGACATCATCT
* * *
25960216 CGATCATTTATTTATGACCTCGACT-AGGTCTTGGTCACTCTCAGACTCATGACATCATCCCAAT
1 CGATCATTCATTTACGACCTCGACTCA-GTCTTGGTCACTCTCAGACTCGTGACATCATCCCAAT
* * **
25960280 CATTCGATCTT-GACTCAGGTTAGATCA-TTCTCAGACTCATGGTATCATCT
65 CATTCGAT-TTCGACTCAGGTTAGATCACTT-TCAAACTCACGACATCATCT
* * * *** * * *
25960330 CGGTAATTCATTTACGACCTCGACTCAATCTTGGTTGTTATCAGACTCGCGACATCATCCCAGTC
1 CGATCATTCATTTACGACCTCGACTCAGTCTTGGTCACTCTCAGACTCGTGACATCATCCCAATC
25960395 ATTC
66 ATTC
25960399 ATTCATAACT
Statistics
Matches: 152, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
113 4 0.03
114 145 0.95
115 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (114 bp):
CGATCATTCATTTACGACCTCGACTCAGTCTTGGTCACTCTCAGACTCGTGACATCATCCCAATC
ATTCGATTTCGACTCAGGTTAGATCACTTTCAAACTCACGACATCATCT
Found at i:25960423 original size:174 final size:174
Alignment explanation
Indices: 25960200--25960538 Score: 400
Period size: 174 Copynumber: 1.9 Consensus size: 174
25960190 TCACTTTCAA
* * * *
25960200 ACTCGCGACATCATCTCGATCATTTATTTATGACCTCGACTAGGTCTTGGTCACTCTCAG-AC-T
1 ACTCGCGACATCATCCCGATCATTCATTCATAACCTCGACTAGGTCTTGGTCACTCT-AGAACTT
* * * * *
25960263 -CATGACATCATCCCAATCATTCGATCTTGACTCAGGTTAGATCATTCTCAGACTCATGGTATCA
65 ACA-G-CATCATCACAATCATTCGATCTTGACTCAAGTCAGATCATTCTCAGACTCACGGCATCA
*
25960327 TCTCGGTAATTCATTTACGACCTCGACTCAATCTTGGTTGTTATCAG
128 TCTCGATAATTCATTTACGACCTCGACTCAATCTTGGTTGTTATCAG
* *
25960374 ACTCGCGACATCATCCC-AGTCATTCATTCATAACTTTGACTCA-GTCTTGGTCACTCTAGAACT
1 ACTCGCGACATCATCCCGA-TCATTCATTCATAACCTCGACT-AGGTCTTGGTCACTCTAGAACT
* * * * *
25960437 TACAGCATCGTCATAATCATTTGATCTTGGCTCAAGTCAGATCTTTCTCAGACTCACGGCATCAT
64 TACAGCATCATCACAATCATTCGATCTTGACTCAAGTCAGATCATTCTCAGACTCACGGCATCAT
* * * * *
25960502 CTTGATCATTCATTTACGACTTGGACTCGATCTTGGT
129 CTCGATAATTCATTTACGACCTCGACTCAATCTTGGT
25960539 CACTTTCAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
173 3 0.02
174 130 0.94
175 3 0.02
176 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (174 bp):
ACTCGCGACATCATCCCGATCATTCATTCATAACCTCGACTAGGTCTTGGTCACTCTAGAACTTA
CAGCATCATCACAATCATTCGATCTTGACTCAAGTCAGATCATTCTCAGACTCACGGCATCATCT
CGATAATTCATTTACGACCTCGACTCAATCTTGGTTGTTATCAG
Found at i:25960850 original size:113 final size:115
Alignment explanation
Indices: 25960370--25960851 Score: 388
Period size: 113 Copynumber: 4.2 Consensus size: 115
25960360 TTGGTTGTTA
* * * *
25960370 TCAGACTCGCGACATCATCCCAGTCATTCATTCATAACTTTGACTCAGTCTTGGTCACTCT-AGA
1 TCAGACTCGCGGCATCATCCCAGTCATTCATTTATAACCTTGACTCAATCTTGGTCACTCTCAGA
* * * * ** * *
25960434 ACTTACAGCATCGTCATAATCATTTGATCTTGGCTCAAGTCAGATCTTTC
66 ACTCACAGCATCATCCTAATCATTCGATCTCAGCTCAAGTCAAATCATTC
* ** ** * *
25960484 TCAGACTCACGGCATCAT-CTTGATCATTCATTTACGA-CTTGGACTCGATCTTGGTCACTTTCA
1 TCAGACTCGCGGCATCATCCCAG-TCATTCATTTATAACCTT-GACTCAATCTTGGTCACTCTCA
**** * * * *
25960547 -AACTTGTGGCATTAT-CTCAATCATTTGATATCAGCTCAAGT-TAATCATTC
64 GAACTCACAGCATCATCCT-AATCATTCGATCTCAGCTCAAGTCAAATCATTC
* * ** * * ** *
25960597 TCGGACTCGTGGCATCATCTTAGTCATTCGTTTATGACCTCAACTCGATCTTGGTCACTCTC-GA
1 TCAGACTCGCGGCATCATCCCAGTCATTCATTTATAACCTTGACTCAATCTTGGTCACTCTCAGA
** * * * * *
25960661 ACTCATGGCATCATCCCAATCATTCGATCTCAGCTTAGGTTAGATCATTC
66 ACTCACAGCATCATCCTAATCATTCGATCTCAGCTCAAGTCAAATCATTC
** * *
25960711 TTGGACTCGCGGCATCGTCCCGGTCATTCATTTATAACCTT-ACTCAATCTTGGTCACTCTCAG-
1 TCAGACTCGCGGCATCATCCCAGTCATTCATTTATAACCTTGACTCAATCTTGGTCACTCTCAGA
* * * ** *
25960774 ACTCGCAGCATCATCCTAGTTATTCGATCTTGGCTCATGTCAAATCATTC
66 ACTCACAGCATCATCCTAATCATTCGATCTCAGCTCAAGTCAAATCATTC
*
25960824 TCAAACTCGCGGCATCATCCCAGTCATT
1 TCAGACTCGCGGCATCATCCCAGTCATT
25960852 TTTAGACTCA
Statistics
Matches: 288, Mismatches: 70, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
113 168 0.58
114 119 0.41
115 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (115 bp):
TCAGACTCGCGGCATCATCCCAGTCATTCATTTATAACCTTGACTCAATCTTGGTCACTCTCAGA
ACTCACAGCATCATCCTAATCATTCGATCTCAGCTCAAGTCAAATCATTC
Found at i:25961122 original size:3 final size:3
Alignment explanation
Indices: 25961116--25961170 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
25961106 TATTATATCA
*
25961116 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25961164 TAT TAT T
1 TAT TAT T
25961171 TACGTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25967687 original size:26 final size:26
Alignment explanation
Indices: 25967657--25967712 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
25967647 ATTAATAACC
25967657 TTAACCTTTGTTAAATTAGTGCACAA
1 TTAACCTTTGTTAAATTAGTGCACAA
*
25967683 TTAACCTTTGTTGAATTAGTGCACAA
1 TTAACCTTTGTTAAATTAGTGCACAA
25967709 TTAA
1 TTAA
25967713 TCCATTTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (26 bp):
TTAACCTTTGTTAAATTAGTGCACAA
Found at i:25969454 original size:26 final size:26
Alignment explanation
Indices: 25969424--25969475 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
25969414 AAAATTAAAT
25969424 AAAAAAGGTTATAAT-AAAAATATTTAC
1 AAAAAA-G-TATAATAAAAAATATTTAC
*
25969451 AAAAAAGTCTAATAAAAAATATTTA
1 AAAAAAGTATAATAAAAAATATTTA
25969476 TTGAAAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 12 0.52
27 6 0.26
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAAAAGTATAATAAAAAATATTTAC
Found at i:25969678 original size:36 final size:35
Alignment explanation
Indices: 25969636--25969734 Score: 128
Period size: 36 Copynumber: 2.8 Consensus size: 35
25969626 CTATCTTCCC
*
25969636 TCCTTTTTTTTTTCTTCCCTTTATGTTGAGCTATT
1 TCCTTTTTTTTTTCTTCCCTTTATGTTGAGCTAAT
* * *
25969671 TCCCTTTTTTTATTCTTCTCTTTTTGTTGAGCTAAT
1 T-CCTTTTTTTTTTCTTCCCTTTATGTTGAGCTAAT
* *
25969707 TCCTTTTATTTTT-TTCCCTTTCTGTTGA
1 TCCTTTTTTTTTTCTTCCCTTTATGTTGA
25969735 AAATATTTGC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 13 0.24
35 11 0.20
36 31 0.56
ACGTcount: A:0.09, C:0.20, G:0.08, T:0.63
Consensus pattern (35 bp):
TCCTTTTTTTTTTCTTCCCTTTATGTTGAGCTAAT
Found at i:25969989 original size:28 final size:28
Alignment explanation
Indices: 25969931--25969989 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
25969921 TTTTGTATTG
* **
25969931 TTTAGGTTTTTGTTTGAATCTTTTGTTA
1 TTTAGGGTTTTGTTTGAATCTTTTGCAA
*
25969959 TTTAGGGTTTTGTTTTAAT-TTGTTGCAA
1 TTTAGGGTTTTGTTTGAATCTT-TTGCAA
25969987 TTT
1 TTT
25969990 TAAGGTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.15, C:0.03, G:0.19, T:0.63
Consensus pattern (28 bp):
TTTAGGGTTTTGTTTGAATCTTTTGCAA
Found at i:25970811 original size:334 final size:328
Alignment explanation
Indices: 25970216--25970896 Score: 798
Period size: 332 Copynumber: 2.1 Consensus size: 328
25970206 TGTACATGTG
* * * *
25970216 CATCTTATCATAATATCAAAATCTAAATTGATTTATTTCTATATTTATAATTGTATAAAGTTAGA
1 CATCTCATCATAATGTCAAAATCTAAATTGATCTAGTTCTATATTTATAATTGTATAAAGTT--A
* * * *
25970281 AAATTGACTTTTAGAGGTGCAAATTGTGTTTTAGGTAACAAAATGTAAATTTAAATTGTAACTTT
64 AAATTGACTTTTAGAGGTGAAAATTGTGTTTTAGGTAACAAAATGTAAATGTAAATTATAACTAT
* * * ** ** *
25970346 TTAAGTTTGTACTTGATGAGTAAAATCTTATGTGATATAAGGTAGGTAGGTATTGATAATTTATA
129 TTAAGTTTGTACTTGATGAATAAAATCTTATCTAATATAAAATAGACAAGTATTGATAATTTATA
* * *
25970411 GGATTGTAAGAATTTATATGGATGTGTACATAATGCTTATATAATATGTACATAGTGATCTTTGA
194 GGATTGTAAGAACTTATATAGATGTGTACATAATGCTTATACAATATGTACATAGTGATCTTTGA
* * * * *
25970476 TATGTATACTGTC-CTTTTGGGATATATACATAGTAGTTATA-GAATATATATATATCTAGATAT
259 TATGTACACT-ACGCTTTTAGGATATATACATAGTAGCTATATG---ATATATACATCTAGATAT
25970539 AAGTATATCTA
320 AAGTATA--TA
* * * *
25970550 CATCTCATTATAATGTCAAAATTTTAATTGATCTAGTTCTATATTTATAATTGTATAAAGTT-TA
1 CATCTCATCATAATGTCAAAATCTAAATTGATCTAGTTCTATATTTATAATTGTATAAAGTTAAA
* *
25970614 ATTGAGGGTTTTAGAGGT-AAAACTTGTG-TTTAGGGTAA-AAAATTTAAATGTAAATTATAACT
66 ATTGA--CTTTTAGAGGTGAAAA-TTGTGTTTTA-GGTAACAAAATGTAAATGTAAATTATAACT
** * *
25970676 ATTTAAGTTTGTGGTTGATGAATAAAATCTTATCTAATATAAAATAGACAAGTATTGGTACTTTA
127 ATTTAAGTTTGTACTTGATGAATAAAATCTTATCTAATATAAAATAGACAAGTATTGATAATTTA
* * * * * * *
25970741 TAGGGTTGTATGAACTTATATAAGATGTGTACATAGTGTTTATACATTATGTATATAGTGCTCAT
192 TAGGATTGTAAGAACTTATAT-AGATGTGTACATAATGCTTATACAATATGTACATAGTGATC-T
* * *
25970806 TTGATATGTACACTACGCTTTTAGGATATGTACATAGTAGCTATATGATATGTACATCTTGATAT
255 TTGATATGTACACTACGCTTTTAGGATATATACATAGTAGCTATATGATATATACATCTAGATAT
25970871 AAGTATATA
320 AAGTATATA
25970880 CATCTCATCATAATGTC
1 CATCTCATCATAATGTC
25970897 TATATCATAA
Statistics
Matches: 294, Mismatches: 45, Indels: 20
0.82 0.13 0.06
Matches are distributed among these distances:
330 18 0.06
331 6 0.02
332 120 0.41
333 55 0.19
334 94 0.32
335 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (328 bp):
CATCTCATCATAATGTCAAAATCTAAATTGATCTAGTTCTATATTTATAATTGTATAAAGTTAAA
ATTGACTTTTAGAGGTGAAAATTGTGTTTTAGGTAACAAAATGTAAATGTAAATTATAACTATTT
AAGTTTGTACTTGATGAATAAAATCTTATCTAATATAAAATAGACAAGTATTGATAATTTATAGG
ATTGTAAGAACTTATATAGATGTGTACATAATGCTTATACAATATGTACATAGTGATCTTTGATA
TGTACACTACGCTTTTAGGATATATACATAGTAGCTATATGATATATACATCTAGATATAAGTAT
ATA
Found at i:25975160 original size:176 final size:177
Alignment explanation
Indices: 25974833--25975174 Score: 490
Period size: 176 Copynumber: 1.9 Consensus size: 177
25974823 GAACATCAAA
* * * * * *
25974833 TTACTGTATTAAAATAAATTATAATTCAATGCATTTTACTCTTAGTGGTCAAATGCTCTTTTGAT
1 TTACTATAATAAAACAAATTATAATTCAATGCATTTCACTCTTAGTGGTCAAATACCCTTTTGAT
** * *
25974898 GACAGAAGGCAACAAAGAACAATTGATATGTGTGTTATTTAAGCTGTTAAATTCAAACTTATTAT
66 GACAGAAAACAACAAAGAACAATTGATATGTGTGTTATTTAAGCTATGAAATTCAAACTTATTAT
*
25974963 GAGTCTCAATTAGAACCATCATGACAAGGATTGTTTTTATATTTAGT
131 AAGTCTCAATTAGAACCATCATGACAAGGATTGTTTTTATATTTAGT
* * *
25975010 TTACTATAATAAAACAAATTGTGATTCAATGCATTTCACTCTTAGTGGTC-AATACCCTTTTGGT
1 TTACTATAATAAAACAAATTATAATTCAATGCATTTCACTCTTAGTGGTCAAATACCCTTTTGAT
*
25975074 GATAGAAAACAACAAAGAAC-ATTCGATATGTGTGTTATTTAAGCTATGAAATTCAAACTTATTA
66 GACAGAAAACAACAAAGAACAATT-GATATGTGTGTTATTTAAGCTATGAAATTCAAACTTATTA
* * * *
25975138 TAAGTTTCAATTGGAGCCATCATGACCAGGATTGTTT
130 TAAGTCTCAATTAGAACCATCATGACAAGGATTGTTT
25975175 CCACGTTTAG
Statistics
Matches: 145, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
175 3 0.02
176 98 0.68
177 44 0.30
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (177 bp):
TTACTATAATAAAACAAATTATAATTCAATGCATTTCACTCTTAGTGGTCAAATACCCTTTTGAT
GACAGAAAACAACAAAGAACAATTGATATGTGTGTTATTTAAGCTATGAAATTCAAACTTATTAT
AAGTCTCAATTAGAACCATCATGACAAGGATTGTTTTTATATTTAGT
Found at i:25980352 original size:10 final size:10
Alignment explanation
Indices: 25980337--25980368 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
25980327 ATACACTTGG
25980337 AACAATGACA
1 AACAATGACA
25980347 AACAATGACA
1 AACAATGACA
*
25980357 AACAATTACA
1 AACAATGACA
25980367 AA
1 AA
25980369 AAAGAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.12
Consensus pattern (10 bp):
AACAATGACA
Found at i:25983952 original size:21 final size:20
Alignment explanation
Indices: 25983919--25983958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25983909 AAAATGAGAA
25983919 ATTTTAGAGATTTTAAATGT
1 ATTTTAGAGATTTTAAATGT
* *
25983939 ATTTTGGAGGATTTTTAATG
1 ATTTTAGA-GATTTTAAATG
25983959 CTAAAAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (20 bp):
ATTTTAGAGATTTTAAATGT
Found at i:25985831 original size:11 final size:10
Alignment explanation
Indices: 25985809--25985854 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
25985799 TTTTGTTAGA
25985809 AGTTAAAGTT
1 AGTTAAAGTT
25985819 AGTTAAGAGTT
1 AGTTAA-AGTT
*
25985830 AGTTAAAGGT
1 AGTTAAAGTT
* *
25985840 AGTTGAAGTA
1 AGTTAAAGTT
25985850 AGTTA
1 AGTTA
25985855 TTTCGATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 20 0.67
11 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (10 bp):
AGTTAAAGTT
Found at i:25987034 original size:53 final size:53
Alignment explanation
Indices: 25986946--25987050 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 53
25986936 ACTTTATAGG
* *
25986946 TGTATATGTTGAAGTGGACTACAGAAGACTAAGATGGTCCACATCGGTATGGT
1 TGTATATGTTGAAGTGGACTAAAGAAGACTAAGATGGTCCACATAGGTATGGT
* * *
25986999 TGTATATGTT-AGAGTGGACTAAA-AGAGATTGAGATGGTCCATATAGGTATGG
1 TGTATATGTTGA-AGTGGACTAAAGA-AGACTAAGATGGTCCACATAGGTATGG
25987051 GTGCATGAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
52 2 0.04
53 43 0.96
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (53 bp):
TGTATATGTTGAAGTGGACTAAAGAAGACTAAGATGGTCCACATAGGTATGGT
Found at i:25987942 original size:59 final size:53
Alignment explanation
Indices: 25987824--25987931 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 53
25987814 GATTAATGTA
* *
25987824 TGTGTATGTTGGAGTGGACTACAAGAGACTGAGATGGTCCATATAGGTATAGG
1 TGTGTATGTTGGAGTAGACTACAAGAGACTGAGATGGTCCACATAGGTATAGG
*
25987877 TGTGTATGTTGGAGTAGACTA-AAGGAGATTGAGATGGTCCACATAGGTATAGG
1 TGTGTATGTTGGAGTAGACTACAA-GAGACTGAGATGGTCCACATAGGTATAGG
25987930 TG
1 TG
25987932 CATGAGTGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 2 0.04
53 49 0.96
ACGTcount: A:0.29, C:0.08, G:0.34, T:0.29
Consensus pattern (53 bp):
TGTGTATGTTGGAGTAGACTACAAGAGACTGAGATGGTCCACATAGGTATAGG
Found at i:25989272 original size:3 final size:3
Alignment explanation
Indices: 25989264--25989290 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25989254 CATTTTCAAA
25989264 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
25989291 GCCTATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25992371 original size:15 final size:15
Alignment explanation
Indices: 25992351--25992382 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
25992341 TGCGTTTTAA
25992351 TTTTTTTTT--GGTT
1 TTTTTTTTTGGGGTT
25992364 TTTTTTTTTGGGGTT
1 TTTTTTTTTGGGGTT
25992379 TTTT
1 TTTT
25992383 GATATGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTGGGGTT
Found at i:25993590 original size:18 final size:18
Alignment explanation
Indices: 25993567--25993614 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
25993557 AAAACTTGAA
25993567 AAAAAATATTTCTAAGAG
1 AAAAAATATTTCTAAGAG
* *
25993585 AAAAAAGA-TTCTAAGTG
1 AAAAAATATTTCTAAGAG
25993602 AAAAAATATTTCT
1 AAAAAATATTTCT
25993615 TAATAAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (18 bp):
AAAAAATATTTCTAAGAG
Found at i:25994858 original size:26 final size:25
Alignment explanation
Indices: 25994804--25994858 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
25994794 CTCACTTAGG
*
25994804 AATTTTATAGAAATTTACCATTTGA
1 AATTTTATAGAAATTTACCATTGGA
* *
25994829 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAGAAATTT-ACCATTGGA
25994854 TAATT
1 -AATT
25994859 AATATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 8 0.32
25 13 0.52
26 4 0.16
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (25 bp):
AATTTTATAGAAATTTACCATTGGA
Found at i:25996052 original size:41 final size:41
Alignment explanation
Indices: 25996003--25996161 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 41
25995993 CAGAGGTATC
* * * *
25996003 ACAACTTTGAAAAATAAAATGCTTCTCTAAATAGAGACACC
1 ACAACTTTGAAAAATAAAATGCTCCTCCAAACAGAGACACA
** *
25996044 ACTTCTTTGAAAAATAAAATGCTCCTCCAAACAGAGGCACA
1 ACAACTTTGAAAAATAAAATGCTCCTCCAAACAGAGACACA
* **
25996085 ACAACTTT-AAAAATAAAATGCTCTTATAAACAGA-AGCACA
1 ACAACTTTGAAAAATAAAATGCTCCTCCAAACAGAGA-CACA
* *
25996125 ACAACTTTGAAAAAATAAAAGGCTCCTCTAAACAGAG
1 ACAACTTTG-AAAAATAAAATGCTCCTCCAAACAGAG
25996162 GCTCTAAACA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 35 0.36
41 40 0.41
42 23 0.23
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (41 bp):
ACAACTTTGAAAAATAAAATGCTCCTCCAAACAGAGACACA
Found at i:25996080 original size:82 final size:81
Alignment explanation
Indices: 25995926--25996163 Score: 230
Period size: 82 Copynumber: 2.9 Consensus size: 81
25995916 CAACTTTGAA
* * * ** * *
25995926 AAAAATAAATATGGCTCCTATAAACAGAGGCTCAATGATTTTGAAAAATAAATTAAGCTCTTCTA
1 AAAAATAAA-AT-GCTCTTATAAACAGAAGCACAACAACTTTGAAAAATAAA--AAGCTCCTCTA
*
25995991 AACAGAGGTATC-ACAACTTT
62 AACAGAGGCA-CAACAACTTT
* * * ** * *
25996011 GAAAAATAAAATGCT-TCTCTAAATAG-AGACACCACTTCTTTGAAAAATAAAATGCTCCTCCAA
1 -AAAAATAAAATGCTCT-TATAAACAGAAG-CACAACAACTTTGAAAAATAAAAAGCTCCTCTAA
25996074 ACAGAGGCACAACAACTTT
63 ACAGAGGCACAACAACTTT
*
25996093 AAAAATAAAATGCTCTTATAAACAGAAGCACAACAACTTTGAAAAAATAAAAGGCTCCTCTAAAC
1 AAAAATAAAATGCTCTTATAAACAGAAGCACAACAACTTTG-AAAAATAAAAAGCTCCTCTAAAC
25996158 AGAGGC
65 AGAGGC
25996164 TCTAAACAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
81 32 0.26
82 55 0.44
83 1 0.01
84 26 0.21
85 2 0.02
86 9 0.07
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (81 bp):
AAAAATAAAATGCTCTTATAAACAGAAGCACAACAACTTTGAAAAATAAAAAGCTCCTCTAAACA
GAGGCACAACAACTTT
Found at i:25996208 original size:56 final size:55
Alignment explanation
Indices: 25996111--25996219 Score: 182
Period size: 56 Copynumber: 2.0 Consensus size: 55
25996101 AATGCTCTTA
* *
25996111 TAAACAGAAGCACAACAACTTTGAAAAAATAAAAGGCTCCTCTAAACAGAGGCTC
1 TAAACAAAAGCACAACAACTTTGAAAAAATAAAAAGCTCCTCTAAACAGAGGCTC
*
25996166 TAAACAAAAGTACAACAACTTTTGAAAAAATAAAAAGCTCCTCTAAACAGAGGC
1 TAAACAAAAGCACAACAAC-TTTGAAAAAATAAAAAGCTCCTCTAAACAGAGGC
25996220 ACAACAACTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
55 17 0.34
56 33 0.66
ACGTcount: A:0.50, C:0.20, G:0.13, T:0.17
Consensus pattern (55 bp):
TAAACAAAAGCACAACAACTTTGAAAAAATAAAAAGCTCCTCTAAACAGAGGCTC
Found at i:25996211 original size:43 final size:43
Alignment explanation
Indices: 25996163--25996333 Score: 220
Period size: 43 Copynumber: 4.0 Consensus size: 43
25996153 TAAACAGAGG
* * * * *
25996163 CTCTAAACAAAAGTACAACAACTTTTGAAAAAATAAAAAGCTC
1 CTCTAAACAGAGGCACAACAACTTTTGAGAAAATAAAAGGCTC
*
25996206 CTCTAAACAGAGGCACAACAACTTTTGGGAAAATAAAAGGCTC
1 CTCTAAACAGAGGCACAACAACTTTTGAGAAAATAAAAGGCTC
*
25996249 CTCTAAACAGAGGCATAACAACTTTTGAGAAAATAAAAGGCTC
1 CTCTAAACAGAGGCACAACAACTTTTGAGAAAATAAAAGGCTC
* * * *
25996292 CTCTAAATAGAGACATAACAAC-TTTGA-AATAAAAAAAGGCTC
1 CTCTAAACAGAGGCACAACAACTTTTGAGAA-AATAAAAGGCTC
25996334 ATTGACAATC
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
41 2 0.02
42 16 0.14
43 98 0.84
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.20
Consensus pattern (43 bp):
CTCTAAACAGAGGCACAACAACTTTTGAGAAAATAAAAGGCTC
Found at i:25996569 original size:22 final size:23
Alignment explanation
Indices: 25996505--25996562 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
25996495 TCAAAATTTT
* *
25996505 AGATATGCAAGAATTCATATTTGCA
1 AGAT-TGCAAG-ATCCACATTTGCA
*
25996530 AGATTTCAAGATCCACATTTGCA
1 AGATTGCAAGATCCACATTTGCA
25996553 A-ATTGCAAGA
1 AGATTGCAAGA
25996563 CTCACATCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 12 0.41
24 5 0.17
25 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (23 bp):
AGATTGCAAGATCCACATTTGCA
Found at i:25996936 original size:20 final size:20
Alignment explanation
Indices: 25996911--25996962 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
25996901 TCATGATCAG
25996911 TGATGCAAATGCTTTCTTAA
1 TGATGCAAATGCTTTCTTAA
25996931 TGATGCAAATGCTTTCTTAA
1 TGATGCAAATGCTTTCTTAA
25996951 TGATGCAAATGC
1 TGATGCAAATGC
25996963 AACAATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
TGATGCAAATGCTTTCTTAA
Found at i:25997251 original size:63 final size:63
Alignment explanation
Indices: 25997169--25997320 Score: 178
Period size: 63 Copynumber: 2.4 Consensus size: 63
25997159 AGCTTTTTAG
* * ** * *
25997169 CACTAGCCATTTCAGAACAAATTTTGTTTTCTATCACTTGGTCACCATTCATAGGCTTCTCAA
1 CACTAACCATTTCAAAACAAATTTTGTCCTCAATCACTTGGTCACCACTCATAGGCTTCTCAA
* ** * * *
25997232 CACTATCCATTTCAAAACAAATTTTGTCCTCAATCTTTTGGTCACCACTCATAGGTTTTTCAG
1 CACTAACCATTTCAAAACAAATTTTGTCCTCAATCACTTGGTCACCACTCATAGGCTTCTCAA
*
25997295 CACTAACCATTTCAAAATAAAATTTT
1 CACTAACCATTTCAAAA-CAAATTTT
25997321 CCCACTAATC
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 68 0.91
64 7 0.09
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (63 bp):
CACTAACCATTTCAAAACAAATTTTGTCCTCAATCACTTGGTCACCACTCATAGGCTTCTCAA
Found at i:25998059 original size:15 final size:15
Alignment explanation
Indices: 25998041--25998153 Score: 88
Period size: 15 Copynumber: 7.3 Consensus size: 15
25998031 TTGTCGTCTT
25998041 TTTTTTTTATTTTTC
1 TTTTTTTTATTTTTC
25998056 TTTTTTTTA-TTTTC
1 TTTTTTTTATTTTTC
*
25998070 ATTATTTTTATTATTTTTA
1 --T-TTTTT-TTATTTTTC
*
25998089 TTTTTTTTATTATT-
1 TTTTTTTTATTTTTC
*
25998103 TTTTTTTT-TTTATC
1 TTTTTTTTATTTTTC
* *
25998117 TTTTTTCTCTTTTTCAC
1 TTTTTTTTATTTTT--C
* *
25998134 TTTTTTTTCTTTTTG
1 TTTTTTTTATTTTTC
25998149 TTTTT
1 TTTTT
25998154 CATCCATTAG
Statistics
Matches: 81, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.04
14 20 0.25
15 25 0.31
16 6 0.07
17 20 0.25
18 3 0.04
19 4 0.05
ACGTcount: A:0.10, C:0.07, G:0.01, T:0.82
Consensus pattern (15 bp):
TTTTTTTTATTTTTC
Found at i:25998060 original size:18 final size:18
Alignment explanation
Indices: 25998039--25998153 Score: 73
Period size: 18 Copynumber: 6.5 Consensus size: 18
25998029 TTTTGTCGTC
25998039 TTTTTTTTTTATTTTTC-
1 TTTTTTTTTTATTTTTCT
25998056 --TTTTTTTTA-TTTTCAT
1 TTTTTTTTTTATTTTTC-T
* * *
25998072 TATTTTTATTATTTTTAT
1 TTTTTTTTTTATTTTTCT
*
25998090 TTTTTTTATTATTTTT-T
1 TTTTTTTTTTATTTTTCT
25998107 TTTTTTTATCTT-TTTTCTCT
1 TTTTTTT-T-TTATTTT-TCT
***
25998127 TTTTCACTTT-TTTTTCT
1 TTTTTTTTTTATTTTTCT
25998144 TTTTGTTTTT
1 TTTT-TTTTT
25998154 CATCCATTAG
Statistics
Matches: 78, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.06
15 9 0.12
17 15 0.19
18 36 0.46
19 8 0.10
20 5 0.06
ACGTcount: A:0.10, C:0.07, G:0.01, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTATTTTTCT
Found at i:25998062 original size:9 final size:9
Alignment explanation
Indices: 25998041--25998147 Score: 65
Period size: 9 Copynumber: 11.6 Consensus size: 9
25998031 TTGTCGTCTT
*
25998041 TTTTTTTTA
1 TTTTTTTTC
*
25998050 TTTTTCTTTT
1 TTTTT-TTTC
25998060 TTTTATTTTC
1 TTTT-TTTTC
* *
25998070 ATTATTTTTA
1 -TTTTTTTTC
* *
25998080 TTATTTTTA
1 TTTTTTTTC
*
25998089 TTTTTTTTA
1 TTTTTTTTC
25998098 TTATTTTTT-
1 TT-TTTTTTC
25998107 TTTTTTTATC
1 TTTTTTT-TC
*
25998117 TTTTTTCTC
1 TTTTTTTTC
**
25998126 -TTTTTCAC
1 TTTTTTTTC
25998134 TTTTTTTTC
1 TTTTTTTTC
25998143 TTTTT
1 TTTTT
25998148 GTTTTTCATC
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
8 12 0.15
9 40 0.49
10 26 0.32
11 4 0.05
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:25998130 original size:1 final size:1
Alignment explanation
Indices: 25998039--25998113 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
25998029 TTTTGTCGTC
* * * ** * * * * * *
25998039 TTTTTTTTTTATTTTTCTTTTTTTTATTTTCATTATTTTTATTATTTTTATTTTTTTTATTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25998104 TTTTTTTTTT
1 TTTTTTTTTT
25998114 ATCTTTTTTC
Statistics
Matches: 53, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:26000575 original size:18 final size:18
Alignment explanation
Indices: 26000552--26000613 Score: 124
Period size: 18 Copynumber: 3.4 Consensus size: 18
26000542 GGCATTTTAA
26000552 GGTATGTATACCCTATTG
1 GGTATGTATACCCTATTG
26000570 GGTATGTATACCCTATTG
1 GGTATGTATACCCTATTG
26000588 GGTATGTATACCCTATTG
1 GGTATGTATACCCTATTG
26000606 GGTATGTA
1 GGTATGTA
26000614 AACTGCTGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.39
Consensus pattern (18 bp):
GGTATGTATACCCTATTG
Found at i:26002248 original size:63 final size:63
Alignment explanation
Indices: 26002125--26002247 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
26002115 CTTTTTTAAA
*
26002125 ATTTCTAAATTTTTCACCATTTGAGCTTATTTAGAAATTCTTTTTATTTATTTATTTTTTTGG
1 ATTTCTAAATTTTCCACCATTTGAGCTTATTTAGAAATTCTTTTTATTTATTTATTTTTTTGG
* * * *
26002188 ATTTCTAAATTTTCCACCATTTGGGCTTATTTAGAATTTCTTTTTCTTT-TTTCTTTTTTT
1 ATTTCTAAATTTTCCACCATTTGAGCTTATTTAGAAATTCTTTTTATTTATTTATTTTTTT
26002248 TTATTTGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
62 10 0.18
63 45 0.82
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (63 bp):
ATTTCTAAATTTTCCACCATTTGAGCTTATTTAGAAATTCTTTTTATTTATTTATTTTTTTGG
Found at i:26002705 original size:16 final size:17
Alignment explanation
Indices: 26002686--26002719 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
26002676 AAACAAACAC
26002686 ATAAAT-AAAAAATAAA
1 ATAAATGAAAAAATAAA
26002702 ATAAATGAAAAAATAAA
1 ATAAATGAAAAAATAAA
26002719 A
1 A
26002720 AATACCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAATGAAAAAATAAA
Found at i:26003032 original size:15 final size:16
Alignment explanation
Indices: 26003007--26003038 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26002997 TCGCCCTCTC
26003007 TCTCATCCTTTTTTTT
1 TCTCATCCTTTTTTTT
26003023 TCTC-TCCTTTTTTTT
1 TCTCATCCTTTTTTTT
26003038 T
1 T
26003039 TTTAGAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTCATCCTTTTTTTT
Found at i:26003516 original size:9 final size:8
Alignment explanation
Indices: 26003494--26003532 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
26003484 ACCCGCTAGA
26003494 TTTTATTT
1 TTTTATTT
26003502 TTTTATTT
1 TTTTATTT
26003510 TTCTTA-TT
1 TT-TTATTT
*
26003518 TTTTATTA
1 TTTTATTT
26003526 TTTTATT
1 TTTTATT
26003533 AGCAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 3 0.11
8 22 0.79
9 3 0.11
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:26007948 original size:63 final size:63
Alignment explanation
Indices: 26007864--26008217 Score: 294
Period size: 63 Copynumber: 5.6 Consensus size: 63
26007854 TTATTTTTAA
* * *
26007864 ATCAATTAAGGCATTTTTATACACAAA-AGCCTTAATTGATGATGTTTTAAAATTATAAAACTG
1 ATCAATTAAGGCATTTGTATACACAAACA-CCTTAATTGATGATATTTTAAAATTATAAAATTG
** * * * * *
26007927 ATCAATTAAGGTGTTTGTATACAGAATCGCCTTAATTGAT-CTATTTTAAAATTAT-AATTTAG
1 ATCAATTAAGGCATTTGTATACACAAACACCTTAATTGATGATATTTTAAAATTATAAAATT-G
* * * * * * *
26007989 ATCAATTAAGGCACTTCTGTACA-AATACACCTTAATTGTTCTAAATTTT-AAATTATAAAACTG
1 ATCAATTAAGGCATTTGTATACACAA-ACACCTTAATTGAT-GATATTTTAAAATTATAAAATTG
* * * * **
26008052 ATCAATTAAAGTATTTGTATACAAAAACACCTTAATTGATG-TAATTTAAAAATTAT-ATTTTAG
1 ATCAATTAAGGCATTTGTATACACAAACACCTTAATTGATGAT-ATTTTAAAATTATAAAATT-G
** * * * * *
26008115 ATCAATTAAGGTGTTTCTGTACACAAACACCTTTAATTGATCATA-ATTATAAATTTTAAAATTG
1 ATCAATTAAGGCATTTGTATACACAAACACC-TTAATTGATGATATTTTA-AAATTATAAAATTG
*
26008179 GTCAATTAAGGCATTTGTA-ACACAAACACCTTAATTGAT
1 ATCAATTAAGGCATTTGTATACACAAACACCTTAATTGAT
26008218 CATTTTAAAA
Statistics
Matches: 227, Mismatches: 50, Indels: 29
0.74 0.16 0.09
Matches are distributed among these distances:
61 5 0.02
62 58 0.26
63 119 0.52
64 41 0.18
65 4 0.02
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (63 bp):
ATCAATTAAGGCATTTGTATACACAAACACCTTAATTGATGATATTTTAAAATTATAAAATTG
Found at i:26008206 original size:126 final size:125
Alignment explanation
Indices: 26007854--26008227 Score: 429
Period size: 125 Copynumber: 3.0 Consensus size: 125
26007844 TAAAAGAAAC
* * * * *
26007854 TTAT-TTTTAAATCAATTAAGGCATTTTTATACACAAA-AGCCTTAATTGATGAT-GTTTTAAAA
1 TTATATTTTAGATCAATTAAGGCATTTCTGTACACAAACA-CCTTAATTGATCATAATTTT-AAA
* * * * *
26007916 TTATAAAACTGATCAATTAAGGTGTTTGTATACAGAATCGCCTTAATTGATCTATTTTAAAA
64 TTATAAAACTGATCAATTAAGGTATTTGTATACAAAAACACCTTAATTGATCTATTTAAAAA
* * *
26007978 TTATAATTTAGATCAATTAAGGCACTTCTGTACA-AATACACCTTAATTGTTC-TAAATTTTAAA
1 TTATATTTTAGATCAATTAAGGCATTTCTGTACACAA-ACACCTTAATTGATCAT-AATTTTAAA
* *
26008041 TTATAAAACTGATCAATTAAAGTATTTGTATACAAAAACACCTTAATTGATGTAATTTAAAAA
64 TTATAAAACTGATCAATTAAGGTATTTGTATACAAAAACACCTTAATTGATCT-ATTTAAAAA
** *
26008104 TTATATTTTAGATCAATTAAGGTGTTTCTGTACACAAACACCTTTAATTGATCATAATTATAAAT
1 TTATATTTTAGATCAATTAAGGCATTTCTGTACACAAACACC-TTAATTGATCATAATTTTAAAT
* * * * * *
26008169 TTTAAAATTGGTCAATTAAGGCATTTGTA-ACACAAACACCTTAATTGATC-ATTTTAAAA
65 TATAAAACTGATCAATTAAGGTATTTGTATACAAAAACACCTTAATTGATCTATTTAAAAA
26008228 GATTCATTCC
Statistics
Matches: 212, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
124 15 0.07
125 85 0.40
126 67 0.32
127 44 0.21
128 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (125 bp):
TTATATTTTAGATCAATTAAGGCATTTCTGTACACAAACACCTTAATTGATCATAATTTTAAATT
ATAAAACTGATCAATTAAGGTATTTGTATACAAAAACACCTTAATTGATCTATTTAAAAA
Found at i:26011096 original size:16 final size:16
Alignment explanation
Indices: 26011075--26011105 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26011065 GTGTAATTAC
*
26011075 TATTATTTTTTTTGTT
1 TATTATTGTTTTTGTT
26011091 TATTATTGTTTTTGT
1 TATTATTGTTTTTGT
26011106 GTTCAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (16 bp):
TATTATTGTTTTTGTT
Found at i:26011623 original size:8 final size:8
Alignment explanation
Indices: 26011610--26011644 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
26011600 TTTAAAAATT
26011610 TTTATTGG
1 TTTATTGG
26011618 TTTATTGG
1 TTTATTGG
26011626 TTTATT--
1 TTTATTGG
26011632 TTTATTGG
1 TTTATTGG
26011640 TTTAT
1 TTTAT
26011645 ATTTGTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
8 19 0.76
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (8 bp):
TTTATTGG
Found at i:26011637 original size:14 final size:14
Alignment explanation
Indices: 26011618--26011644 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26011608 TTTTTATTGG
26011618 TTTATTGGTTTATT
1 TTTATTGGTTTATT
26011632 TTTATTGGTTTAT
1 TTTATTGGTTTAT
26011645 ATTTGTCTTA
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:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (14 bp):
TTTATTGGTTTATT
Found at i:26014262 original size:3 final size:3
Alignment explanation
Indices: 26014254--26014290 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
26014244 AAATAAATAA
26014254 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
26014291 AGCAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:26016557 original size:29 final size:29
Alignment explanation
Indices: 26016520--26016579 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
26016510 ATTCTAAATA
*
26016520 TTAGTAATTTTATATAAAAATATACACTT
1 TTAGCAATTTTATATAAAAATATACACTT
*
26016549 TTAGCAATTTTCTATAAAAATATACACTT
1 TTAGCAATTTTATATAAAAATATACACTT
26016578 TT
1 TT
26016580 GGAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (29 bp):
TTAGCAATTTTATATAAAAATATACACTT
Found at i:26018305 original size:18 final size:18
Alignment explanation
Indices: 26018282--26018319 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
26018272 AAAATTAAAA
26018282 AAAAAAACATTTTT-TTTT
1 AAAAAAA-ATTTTTCTTTT
26018300 AAAAAAAATTTTTCTTTT
1 AAAAAAAATTTTTCTTTT
26018318 AA
1 AA
26018320 CATATAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAAAAAATTTTTCTTTT
Found at i:26023073 original size:15 final size:15
Alignment explanation
Indices: 26023055--26023088 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26023045 AAAGACAAAA
*
26023055 AAAAGCTCAAAATAT
1 AAAAGATCAAAATAT
*
26023070 AAAATATCAAAATAT
1 AAAAGATCAAAATAT
26023085 AAAA
1 AAAA
26023089 AAGACCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAGATCAAAATAT
Found at i:26024458 original size:22 final size:22
Alignment explanation
Indices: 26024426--26024507 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
26024416 TTTGTTTAGT
*
26024426 TAGCACTTAAGCCCAGATAAGC
1 TAGCACATAAGCCCAGATAAGC
* * * *
26024448 TTGCCCATAAGCCCAGTTTAGC
1 TAGCACATAAGCCCAGATAAGC
*
26024470 TAGCACATAAGCCTAGATTAA-C
1 TAGCACATAAGCCCAGA-TAAGC
*
26024492 TGGCACATAAGCCCAG
1 TAGCACATAAGCCCAG
26024508 TTTAGCTACT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
22 45 0.96
23 2 0.04
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (22 bp):
TAGCACATAAGCCCAGATAAGC
Found at i:26024501 original size:44 final size:44
Alignment explanation
Indices: 26024393--26024515 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
26024383 AATTCTTAAA
* * *** * *
26024393 CCCATATTAGCTGGCACATAAGCTTTGTTTAGTTAGCACTTAAG
1 CCCAGATTAACTGGCACATAAGCCCAGTTTAGCTAGCACATAAG
* *
26024437 CCCAGA-TAAGCTTGCCCATAAGCCCAGTTTAGCTAGCACATAAG
1 CCCAGATTAA-CTGGCACATAAGCCCAGTTTAGCTAGCACATAAG
*
26024481 CCTAGATTAACTGGCACATAAGCCCAGTTTAGCTA
1 CCCAGATTAACTGGCACATAAGCCCAGTTTAGCTA
26024516 CTCTCAGTGA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.03
44 60 0.92
45 3 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
CCCAGATTAACTGGCACATAAGCCCAGTTTAGCTAGCACATAAG
Found at i:26024744 original size:34 final size:33
Alignment explanation
Indices: 26024706--26024866 Score: 141
Period size: 34 Copynumber: 4.9 Consensus size: 33
26024696 GTTTAAATTT
* *
26024706 AGTTTATCTGACCCCTAATGAAAGTTTTAAGCCC
1 AGTTTATCTGACACCTAAT-AAAATTTTAAGCCC
* * *
26024740 AGTTTATCTGGCA-CTAA-AAAATTTTAAGTCT
1 AGTTTATCTGACACCTAATAAAATTTTAAGCCC
* * *
26024771 AGTTTACCT-AGCACC-AATAAAAATTTAAGCCT
1 AGTTTATCTGA-CACCTAATAAAATTTTAAGCCC
* ***
26024803 AGTTTATCTAACTTTTAATGAAAATTTTAAGCCC
1 AGTTTATCTGACACCTAAT-AAAATTTTAAGCCC
*
26024837 AGTTTACCTGACACCTAATAAAGATTTTAA
1 AGTTTATCTGACACCTAATAAA-ATTTTAA
26024867 AACCTAGCTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
31 23 0.23
32 22 0.22
33 11 0.11
34 44 0.44
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (33 bp):
AGTTTATCTGACACCTAATAAAATTTTAAGCCC
Found at i:26024805 original size:32 final size:31
Alignment explanation
Indices: 26024731--26024808 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
26024721 TAATGAAAGT
* * * * *
26024731 TTTAAGCCCAGTTTATCTGGCACTAAAAAAT
1 TTTAAGCCTAGTTTACCTAGCACCAAAAAAA
*
26024762 TTTAAGTCTAGTTTACCTAGCACCAATAAAAA
1 TTTAAGCCTAGTTTACCTAGCACCAA-AAAAA
26024794 TTTAAGCCTAGTTTA
1 TTTAAGCCTAGTTTA
26024809 TCTAACTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 21 0.54
32 18 0.46
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (31 bp):
TTTAAGCCTAGTTTACCTAGCACCAAAAAAA
Found at i:26024842 original size:66 final size:69
Alignment explanation
Indices: 26024757--26024903 Score: 169
Period size: 66 Copynumber: 2.2 Consensus size: 69
26024747 CTGGCACTAA
* * * * * *
26024757 AAAATTTTAAGTCTAGTTTACCT-AGCACC-AATAAA-AATTT-AAGCCTAGTTTATCTAACTTT
1 AAAATTTTAAGCCCAGTTTACCTGA-CACCTAATAAAGAATTTAAAACCTAGCTTAACTAACTCT
26024818 TAATG
65 TAATG
* **
26024823 AAAATTTTAAGCCCAGTTTACCTGACACCTAATAAAGATTTTAAAACCTAGCTTAACTGGCTCTT
1 AAAATTTTAAGCCCAGTTTACCTGACACCTAATAAAGAATTTAAAACCTAGCTTAACTAACTCTT
26024888 AATG
66 AATG
26024892 AAAA-TTTAAGCC
1 AAAATTTTAAGCC
26024904 TAATTTACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
66 25 0.37
67 7 0.10
68 12 0.18
69 24 0.35
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (69 bp):
AAAATTTTAAGCCCAGTTTACCTGACACCTAATAAAGAATTTAAAACCTAGCTTAACTAACTCTT
AATG
Found at i:26025089 original size:14 final size:14
Alignment explanation
Indices: 26025070--26025097 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26025060 AAAAAGACAT
26025070 TTGCATTTGCATCA
1 TTGCATTTGCATCA
26025084 TTGCATTTGCATCA
1 TTGCATTTGCATCA
26025098 CAAAAAAAGA
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:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGCATTTGCATCA
Found at i:26025144 original size:41 final size:41
Alignment explanation
Indices: 26025055--26025148 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
26025045 TCTGTAAAAA
* * *
26025055 CAAAAAAAAAGACATTTGCATTTGCATCATTGCATTTGCAT
1 CAAAAAAAAAGACATTTGCATTTGCATCATTACATCTACAT
* *
26025096 CACAAAAAAAGACATTT-CATTTGCATCGCTTACATCTACAT
1 CAAAAAAAAAGACATTTGCATTTGCATC-ATTACATCTACAT
*
26025137 TAAAAAAAAAGA
1 CAAAAAAAAAGA
26025149 GGGACATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 10 0.22
41 35 0.78
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.28
Consensus pattern (41 bp):
CAAAAAAAAAGACATTTGCATTTGCATCATTACATCTACAT
Found at i:26025328 original size:100 final size:100
Alignment explanation
Indices: 26025150--26025329 Score: 227
Period size: 100 Copynumber: 1.8 Consensus size: 100
26025140 AAAAAAAGAG
* ** * *
26025150 GGACATTTGTATTTGTATCACTTGCATTCGCACTTGCACGTACATCATAAGAAAGACATTTGTAT
1 GGACATTCGTATTTACATCACTTGCATTCGCACTTGAACGTACATCATAAGAAAGACATTTGCAT
* * *
26025215 TTACATTTGCATCATTTTATTTACATCACAAAAAA
66 TCACATCTACATCATTTTATTTACATCACAAAAAA
* * * * *
26025250 GGACATTCGTATTTACATCACTTGCATTCGTACTTGAATGTGCATCATGAGAAAGATATTTGCAT
1 GGACATTCGTATTTACATCACTTGCATTCGCACTTGAACGTACATCATAAGAAAGACATTTGCAT
26025315 TCAC-TACTACATCAT
66 TCACAT-CTACATCAT
26025330 AAAGAAAAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
99 1 0.02
100 65 0.98
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (100 bp):
GGACATTCGTATTTACATCACTTGCATTCGCACTTGAACGTACATCATAAGAAAGACATTTGCAT
TCACATCTACATCATTTTATTTACATCACAAAAAA
Found at i:26025673 original size:13 final size:13
Alignment explanation
Indices: 26025655--26025702 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
26025645 AAAAATCATC
26025655 TGCATTTGCACTA
1 TGCATTTGCACTA
*
26025668 TGCATTTACACTA
1 TGCATTTGCACTA
*
26025681 AGCATTTGCA-T-
1 TGCATTTGCACTA
26025692 TGACATTTGCA
1 TG-CATTTGCA
26025703 TTCACATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 1 0.03
12 9 0.30
13 20 0.67
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (13 bp):
TGCATTTGCACTA
Found at i:26025793 original size:14 final size:13
Alignment explanation
Indices: 26025769--26025811 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
26025759 TAAATATGAG
26025769 AAAAAAA-AAGAA
1 AAAAAAAGAAGAA
26025781 AAGAAAAAGAAG-A
1 AA-AAAAAGAAGAA
26025794 AAAAAAAGAGAGAA
1 AAAAAAAGA-AGAA
26025808 AAAA
1 AAAA
26025812 TGTATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.33
13 10 0.37
14 8 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:26025809 original size:11 final size:12
Alignment explanation
Indices: 26025770--26025811 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
26025760 AAATATGAGA
26025770 AAAAAAAAGAA-
1 AAAAAAAAGAAG
*
26025781 AAGAAAAAGAAG
1 AAAAAAAAGAAG
26025793 AAAAAAAAGAGAG
1 AAAAAAAAGA-AG
26025806 AAAAAA
1 AAAAAA
26025812 TGTATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 10 0.37
12 9 0.33
13 8 0.30
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:26026220 original size:22 final size:22
Alignment explanation
Indices: 26026195--26026236 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26026185 AGACCTCCAA
26026195 GCATAA-TCTCTAAGACCTTCGG
1 GCATAATTCTC-AAGACCTTCGG
*
26026217 GCATAATTTTCAAGACCTTC
1 GCATAATTCTCAAGACCTTC
26026237 AGGTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (22 bp):
GCATAATTCTCAAGACCTTCGG
Found at i:26026351 original size:126 final size:123
Alignment explanation
Indices: 26026166--26026503 Score: 365
Period size: 126 Copynumber: 2.7 Consensus size: 123
26026156 AAATAAAGGA
* * * *
26026166 AAAGATTTTGATATTTGTAAGACCTCCAAGCATAATCTCTAAGACCTTCGGGCATAATTTTCAAG
1 AAAGATTTTGAGATTTGTAAGACCTTCAGGCATAATCTCTAAGACCTTC-GG-ACAATTTTCAAG
* * ** *
26026231 ACCTTCAGGTAAAATATTTTAAAATTTTGAGGTTTCAATGCCTCTTG-TTAGAGGAGCATTC
64 A-CTTCAGGTAAAATATTTTAAAATTTTAAAGTTTCAATAACTC-TGATTAGAGAAGCATTC
* * *
26026292 AAAGATTTTGAGATTTGTAAGACATTCAGGCATAATCTCTAAGACCTCCAGGTACAATTTTTAAG
1 AAAGATTTTGAGATTTGTAAGACCTTCAGGCATAATCTCTAAGACCTTC-GG-ACAATTTTCAAG
* * * * *
26026357 ACTTCCAGTTAAAACATTTTAAATTTTTAAAGTTTTAATAACTCTGATTAGAGAAGTATTC
64 ACTT-CAGGTAAAATATTTTAAAATTTTAAAGTTTCAATAACTCTGATTAGAGAAGCATTC
* * * *
26026418 AAAGATTTTGAGATTTGTAAGACCTT-TGACATAATATCTAAGACTTTCGGACGTAATTTTCAAG
1 AAAGATTTTGAGATTTGTAAGACCTTCAGGCATAATCTCTAAGACCTTCGGAC--AATTTTCAAG
* *
26026482 ATCTCCTGGTAAAATATTTTAA
64 A-CTTCAGGTAAAATATTTTAA
26026504 TTTTTTTTTA
Statistics
Matches: 177, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
123 2 0.01
124 2 0.01
125 46 0.26
126 127 0.72
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (123 bp):
AAAGATTTTGAGATTTGTAAGACCTTCAGGCATAATCTCTAAGACCTTCGGACAATTTTCAAGAC
TTCAGGTAAAATATTTTAAAATTTTAAAGTTTCAATAACTCTGATTAGAGAAGCATTC
Found at i:26026928 original size:3 final size:3
Alignment explanation
Indices: 26026920--26026948 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26026910 TAAATAAATA
26026920 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
26026949 CTATAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:26032247 original size:17 final size:18
Alignment explanation
Indices: 26032214--26032249 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26032204 AAAATTGCAA
*
26032214 ATAATGTATACATTTTTT
1 ATAATGGATACATTTTTT
26032232 ATAATGGATA-ATTTTTT
1 ATAATGGATACATTTTTT
26032249 A
1 A
26032250 ACAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (18 bp):
ATAATGGATACATTTTTT
Found at i:26033465 original size:29 final size:27
Alignment explanation
Indices: 26033423--26033498 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
26033413 TTTGTAATTT
* *
26033423 AAAATAGAATTTATTTGAGTATAAATTAA
1 AAAATAAAAATTATTTGAGTAT-AA-TAA
*
26033452 AAAATAAAAATTATTTAAGTATAATAA
1 AAAATAAAAATTATTTGAGTATAATAA
26033479 AAATATAAAAACTTATTTGA
1 AAA-ATAAAAA-TTATTTGA
26033499 CAAAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.15
28 9 0.22
29 26 0.63
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (27 bp):
AAAATAAAAATTATTTGAGTATAATAA
Found at i:26033505 original size:28 final size:27
Alignment explanation
Indices: 26033449--26033508 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
26033439 GAGTATAAAT
* *
26033449 TAAAAAATAAAAATTATTTAAGTATAA
1 TAAAAAATAAAAATTATTTAAGCAAAA
*
26033476 TAAAAATATAAAAACTTATTTGA-CAAAA
1 TAAAAA-ATAAAAA-TTATTTAAGCAAAA
26033504 TAAAA
1 TAAAA
26033509 TAATTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 15 0.54
29 7 0.25
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (27 bp):
TAAAAAATAAAAATTATTTAAGCAAAA
Found at i:26033606 original size:2 final size:2
Alignment explanation
Indices: 26033599--26033624 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26033589 AACACAAGGG
26033599 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26033625 GTGGATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.