Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 43 of 126
Found at i:12703191 original size:14 final size:14
Alignment explanation
Indices: 12703172--12703202 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12703162 TTACATGTTT
*
12703172 GAATAGTATCGTTA
1 GAATAGTATCATTA
12703186 GAATAGTATCATTA
1 GAATAGTATCATTA
12703200 GAA
1 GAA
12703203 AAAAAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (14 bp):
GAATAGTATCATTA
Found at i:12704688 original size:33 final size:33
Alignment explanation
Indices: 12704649--12705471 Score: 1646
Period size: 33 Copynumber: 24.9 Consensus size: 33
12704639 AAACATAAAC
12704649 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704682 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704715 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704748 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704781 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704814 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704847 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704880 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704913 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704946 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12704979 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705012 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705045 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705078 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705111 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705144 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705177 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705210 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705243 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705276 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705309 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705342 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705375 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705408 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
12705441 TCTTATTCTCAATTATAAAATCTTAAAAAAT
1 TCTTATTCTCAATTATAAAATCTTAAAAAAT
12705472 TAGAACATAT
Statistics
Matches: 790, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 790 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (33 bp):
TCTTATTCTCAATTATAAAATCTTAAAAAATGT
Found at i:12705950 original size:17 final size:19
Alignment explanation
Indices: 12705928--12705971 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
12705918 AACAACAAAC
*
12705928 TCTCCTTTCCT-TCTCT-T
1 TCTCCTTCCCTCTCTCTAT
12705945 TCTCCTTCCCTCTCTCTAT
1 TCTCCTTCCCTCTCTCTAT
12705964 TCTCCTTC
1 TCTCCTTC
12705972 TCTTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.42
18 5 0.21
19 9 0.38
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTCCTTCCCTCTCTCTAT
Found at i:12706036 original size:17 final size:17
Alignment explanation
Indices: 12706014--12706047 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12706004 ACCCTCTCCT
12706014 TCTTCTTCTTC-TTCTTC
1 TCTTCTT-TTCTTTCTTC
12706031 TCTTCTTTTCTTTCTTC
1 TCTTCTTTTCTTTCTTC
12706048 AAAAATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTTCTTTTCTTTCTTC
Found at i:12706762 original size:10 final size:10
Alignment explanation
Indices: 12706747--12706771 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12706737 GTTGAATCAA
12706747 TTTTTTTATT
1 TTTTTTTATT
12706757 TTTTTTTATT
1 TTTTTTTATT
12706767 TTTTT
1 TTTTT
12706772 GAATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:12707025 original size:30 final size:32
Alignment explanation
Indices: 12706990--12707048 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
12706980 GTATACTTTA
*
12706990 TCAAAA-TTTAAAAATATACATA-AAAATGAT
1 TCAAAACTTCAAAAATATACATACAAAATGAT
*
12707020 TCAAAACTTCAAAAATATTCATACAAAAT
1 TCAAAACTTCAAAAATATACATACAAAAT
12707049 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 14 0.56
32 5 0.20
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (32 bp):
TCAAAACTTCAAAAATATACATACAAAATGAT
Found at i:12716867 original size:19 final size:20
Alignment explanation
Indices: 12716828--12716867 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12716818 TCTTTTCATA
* *
12716828 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
12716848 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
12716867 T
1 T
12716868 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:12720205 original size:13 final size:13
Alignment explanation
Indices: 12720187--12720211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12720177 TAAATCAATT
12720187 TCTTTGTTATCCA
1 TCTTTGTTATCCA
12720200 TCTTTGTTATCC
1 TCTTTGTTATCC
12720212 TCGACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:12721338 original size:44 final size:44
Alignment explanation
Indices: 12721026--12721340 Score: 112
Period size: 44 Copynumber: 7.2 Consensus size: 44
12721016 TAGATTTTAC
*
12721026 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
* ** * * * *
12721070 CCCCCTG-GGCAACAGTGGAATATATTGAAG--ATTACAGATCTTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA-A-TTC-TAT
* * * * * ** *** * *
12721114 CTCCCT-AAG-TAGTAGTAGAGCAGATCAAAGATGGTAGATTTTAC
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-ATTCTAT
*
12721158 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCATTAATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
** * * * *
12721202 C-CTCCTG-GGCAACAGTGGAATAGATTGAAG--ATTACAGATCTTAT
1 CTC-CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA-A-TTC-TAT
* * * * ** ** * * *
12721246 CTCCCT-AAG-TAGTAGTGGAGCAGATCAAAGATAGTGGATTTTAC
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGT-AATTCTAT
12721290 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
12721334 CTCCCTG
1 CTCCCTG
12721341 GGCAGCAATG
Statistics
Matches: 185, Mismatches: 65, Indels: 42
0.63 0.22 0.14
Matches are distributed among these distances:
41 7 0.04
42 2 0.01
43 44 0.24
44 85 0.46
45 37 0.20
46 10 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
Found at i:12721507 original size:132 final size:132
Alignment explanation
Indices: 12721011--12721473 Score: 714
Period size: 132 Copynumber: 3.5 Consensus size: 132
12721001 GGAGCAGGTT
* * *
12721011 GATGGTAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCCCCCT
1 GATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
12721076 GGGCAACAGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTAGAGCAGATCA
66 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA
12721141 AA
131 AA
* *
12721143 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCATTAATTCTATC-CTCC
1 GATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC-CC
12721207 TGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
65 TGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
12721272 AAA
130 AAA
*
12721275 GATAGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * * *
12721340 GGGCAGCAATGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA
12721405 AA
131 AA
* ** * * *
12721407 GATGGCGGATTTTACCTCTCC-GACATTACAGTGGAGTATATTGAAACCAGTAATTCTAACTCCC
1 GATGGTGGATTTTACCTC-CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
12721471 TGG
65 TGG
12721474 TCGGCAGTGG
Statistics
Matches: 308, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 1 0.00
132 304 0.99
133 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
GATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA
AA
Found at i:12721589 original size:44 final size:44
Alignment explanation
Indices: 12721488--12722775 Score: 1197
Period size: 44 Copynumber: 29.1 Consensus size: 44
12721478 CAGTGGAATT
* **
12721488 GATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
12721533 GATCGAAA-ATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
1 GATC-AAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * **
12721577 GATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
* * * * *
12721622 GATCGAAGATAACAAATCTTGTCTTCATGTATTGACATGGAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * **
12721666 GATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* *
12721710 GATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * *
12721754 GACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* *
12721798 GATCGAAA-ATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTA
1 GATC-AAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * **
12721842 GATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
* * * *
12721887 GATCGAAGATAACAGATCTTGTCTTCATGTATTGACATGGAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * **
12721931 GATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
*
12721975 GATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * **
12722019 GATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
* * * * *
12722064 GATCGAAGATAACAAATCTTGTCTTCATGTATTGACATGGAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * **
12722108 GATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
*
12722152 GATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * **
12722196 GATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
* * * * *
12722241 GATCGAAGATAACAAATCTTGTCTTCATGTATTGACATGGAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * **
12722285 GATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* *
12722329 GATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * *
12722373 GACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * *
12722417 GACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * *
12722461 GACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * *
12722505 GACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* *
12722549 GATCGAAA-ATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTA
1 GATC-AAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * **
12722593 GATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
* * * *
12722638 GATCGAAGATAACAGATCTTGTCTTCATGTATTGGCGTGAAATA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * **
12722682 GATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTA
1 GATCAAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTA
* * *
12722727 GATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAATGAAGTA
1 GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGC-ATGAAGTA
12722772 GATC
1 GATC
12722776 GAATATATAA
Statistics
Matches: 1051, Mismatches: 153, Indels: 78
0.82 0.12 0.06
Matches are distributed among these distances:
42 31 0.03
43 27 0.03
44 736 0.70
45 208 0.20
46 21 0.02
47 28 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
GATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
Found at i:12721727 original size:177 final size:175
Alignment explanation
Indices: 12721488--12722618 Score: 1209
Period size: 177 Copynumber: 6.4 Consensus size: 175
12721478 CAGTGGAATT
* * *
12721488 GATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAATAGCAGATCTT
1 GATCAAAAATAGCAGATCTTGTCTT-CCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCTT
* **
12721553 GTCTTCATGTATTGGCATGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTG-GCG
65 GTCTTCATGTATTGACATGAAGTAGATCAAAAATAGCAGATCTTGTCTT--CATA-TGGTGAATG
* * * *
12721617 AAGTAGATC-GAAGATAACAAATCTTGTCTTCATGTATTGACATGGAGTA
127 AAGTAGATCAG-AGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * ** *
12721666 GATCAGAGATAGTAGATCTTGTCTT-CATA-TGTTGATATGAAGTAGATC-AGAGATAGCAGATC
1 GATCAAAAATAGCAGATCTTGTCTTCCATACTGGTG--GCGAAGTAGATCGA-AGATAACAGATC
* * * * * *
12721728 TTGTCTTCATGTATTGGCGTGAAGTAGACCAAAGAA-AGCATAGCTTGTCTTCATGTATTGGCG-
63 TTGTCTTCATGTATTGACATGAAGTAGATCAAA-AATAGCAGATCTTGTCTTCA--TA-TGGTGA
* * *
12721791 -TGAAGTAGATC-GAAAATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTA
124 ATGAAGTAGATCAG-AGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * *
12721842 GATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCTT
1 GATCAAAAATAGCAGATCTTGTCTT-CCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCTT
* * * * *
12721907 GTCTTCATGTATTGACATGGAGTAGATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAA
65 GTCTTCATGTATTGACATGAAGTAGATCAAAAATAGCAGATCTTGTCTTCATATGGTGA-ATGAA
12721972 GTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
129 GTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
*
12722019 GATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAAATCTT
1 GATCAAAAATAGCAGATCTTGTCTT-CCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCTT
* * * * *
12722084 GTCTTCATGTATTGACATGGAGTAGATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAA
65 GTCTTCATGTATTGACATGAAGTAGATCAAAAATAGCAGATCTTGTCTTCATATGGTGA-ATGAA
12722149 GTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
129 GTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
*
12722196 GATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAAATCTT
1 GATCAAAAATAGCAGATCTTGTCTT-CCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCTT
* * * * *
12722261 GTCTTCATGTATTGACATGGAGTAGATCAGAGATAGTAGATCTTGTCTTCATATGTTGATATGAA
65 GTCTTCATGTATTGACATGAAGTAGATCAAAAATAGCAGATCTTGTCTTCATATGGTGA-ATGAA
*
12722326 GTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
129 GTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * * * * * * *
12722373 GACCAAAGAA-AGCATAGCTTGTCTT-CATGTATTGG-CGTGAAGTAGACCAAAGA-AAGCATAG
1 GATCAAA-AATAGCAGATCTTGTCTTCCA--TACTGGTGGCGAAGTAGATCGAAGATAA-CAGAT
* * * * * *
12722434 CTTGTCTTCATGTATTGGCGTGAAGTAGACCAAAGAA-AGCATAGCTTGTCTTCATGTATTGGCG
62 CTTGTCTTCATGTATTGACATGAAGTAGATCAAA-AATAGCAGATCTTGTCTTCA--TA-TGGTG
* * * * * *
12722498 --TGAAGTAGACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTA
123 AATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
* * * * *
12722549 GATCGAAAATAGCAGATCTTGTCTT-CATGTATTAG-CGTGAAGTAGATCGAAGATAACAGATCT
1 GATCAAAAATAGCAGATCTTGTCTTCCA--TACTGGTGGCGAAGTAGATCGAAGATAACAGATCT
12722612 TGTCTTC
64 TGTCTTC
12722619 CCATACTGGT
Statistics
Matches: 846, Mismatches: 82, Indels: 52
0.86 0.08 0.05
Matches are distributed among these distances:
174 3 0.00
175 14 0.02
176 231 0.27
177 556 0.66
178 35 0.04
179 7 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (175 bp):
GATCAAAAATAGCAGATCTTGTCTTCCATACTGGTGGCGAAGTAGATCGAAGATAACAGATCTTG
TCTTCATGTATTGACATGAAGTAGATCAAAAATAGCAGATCTTGTCTTCATATGGTGAATGAAGT
AGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTA
Found at i:12722000 original size:265 final size:264
Alignment explanation
Indices: 12721498--12722707 Score: 1218
Period size: 265 Copynumber: 4.6 Consensus size: 264
12721488 GATCAAAGAT
** * * * *
12721498 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAATAGCAGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGT
* * * * *
12721563 ATTGGCATGAAGTAGATCAAAAATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
65 ATTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGA
* * * *
12721628 AGATAACAAATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGATAGTAGATCTTGTCTTCA
130 AGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCA
*
12721693 TATGTTGATATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGACC
195 TATGTTGATATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGACC
12721758 AAAGAA
260 AAA-AA
* * * *
12721764 AGCATAGCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
* * * *
12721829 TTAGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAA
* * *
12721894 GATAACAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGATAGTAGATCTTGTCTTCAT
131 GATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCAT
*
12721959 ATGTTGATATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCA
196 ATGTTGATATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGACCA
12722024 AAAA
261 AAAA
** * * * * *
12722028 TAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACAAATCTTGTCTTCATG
1 -AGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATG
* * * * ** * ** * *
12722093 TATTGACATGGAGTAGATCAGAGATAGTAGATCTTGTCTTCATATGTTGAT-ATGAAGTAGATC-
64 TATTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCG
* * *
12722156 AGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAAATAGCAGATCTTGTCTT
129 A-AGATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* ** * * * *
12722221 CCCATACTGGTG--GCGAAGTAGATC-GAAGATAACAAATCTTGTCTTCATGTATTGACATGGAG
193 --CATA-TGTTGATATGAAGTAGATCAG-AGATAGCAGATCTTGTCTTCATGTATTGGCATGAAG
* * *
12722283 TAGATCAGAGAT
254 TAGACCA-AAAA
* * ***
12722295 AGTAGATCTTGTCTTCATATGTTGATATGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCATGT
* * * ** * * * *
12722359 ATTGGCGTGAAGTAGACCAAAGA-AAGCATAGCTTGTCTTCATGTATTGG-CGTGAAGTAGACCA
65 ATTGGCGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCG
* * * * * * * *
12722422 AAGA-AAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTAGACCAAAGAAAGCATAGCTTGTCTT
129 AAGATAA-CAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* * *** * * * * * *
12722486 CATGTATTGGCGTGAAGTAGACCAAAGAAAGCATAGCTTGTCTTCATGTATTGGCGTGAAGTAGA
193 CATATGTTGATATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGA
* *
12722551 TCGAAAAT
258 -CCAAAAA
* * * ***
12722559 AGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
* * * * ** * * *
12722624 CTGGTGGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGA
66 TTGG-CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGA
12722688 AGA-AAGCAGATCTTGTCTTC
130 AGATAA-CAGATCTTGTCTTC
12722708 CCATACTGGT
Statistics
Matches: 794, Mismatches: 130, Indels: 41
0.82 0.13 0.04
Matches are distributed among these distances:
262 3 0.00
263 3 0.00
264 107 0.13
265 510 0.64
266 161 0.20
267 6 0.01
268 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (264 bp):
AGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTA
TTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGAA
GATAACAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCAT
ATGTTGATATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGACCA
AAAA
Found at i:12733912 original size:67 final size:67
Alignment explanation
Indices: 12733803--12733937 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
12733793 TTTCCAATTC
* *
12733803 AGAGAGTACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGTTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
12733868 CA
66 CA
* * *
12733870 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTTCAGGCTAAATCCCTTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
12733935 CA
66 CA
12733937 A
1 A
12733938 CGACAATTAC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:12734139 original size:61 final size:56
Alignment explanation
Indices: 12734002--12734148 Score: 152
Period size: 57 Copynumber: 2.5 Consensus size: 56
12733992 ACCCTAATTC
* * * *
12734002 AGATTACCCGTCCGGGCTAAATCTATTTTCCACATGTTCTTCGGGAGGGCTATATCA
1 AGATCACCCGTCCGGGCTAGATCT-TTTTCCACATATTCTTCGGGAGCGCTATATCA
* * *
12734059 AGATCACCTGTCCGAGCTAGATCTTTTTCACACTTATTCTTCGGGA-CGCTATATCAGGA
1 AGATCACCCGTCCGGGCTAGATCTTTTTC-CACATATTCTTCGGGAGCGCTATATC---A
12734118 TAGGATCACCCGTCCGGGCTAGATCCTTTTT
1 -A-GATCACCCGTCCGGGCTAGAT-CTTTTT
12734149 ACCGTCAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 13 0.18
57 34 0.46
59 1 0.01
60 1 0.01
61 19 0.26
62 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (56 bp):
AGATCACCCGTCCGGGCTAGATCTTTTTCCACATATTCTTCGGGAGCGCTATATCA
Found at i:12734707 original size:2 final size:2
Alignment explanation
Indices: 12734700--12734725 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12734690 CTGAATATTC
12734700 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
12734726 TCCTTCTCCT
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
Found at i:12744883 original size:291 final size:295
Alignment explanation
Indices: 12744418--12745528 Score: 830
Period size: 291 Copynumber: 3.8 Consensus size: 295
12744408 ATGTATGAAA
* * ** *
12744418 AAAATGAAGTTTTGGTTGAGTGGTAAATTTAATATTTTACTACTCCAATTGACATAGGTTTAAAT
1 AAAATAAAGTTTTGATTGAGTGGTAAATTTAAGGTTTTACTAATCCAATTGACATAGGTTTAAAT
* *
12744483 ACCACCATATGCATATTTTTCTTGATTTTTGCTAAAATAAATAGACTAAAACACCATCGAATAAT
66 ACCACCACATGCATATTTTTCTTGATTTTTCCTAAAATAAATAGACTAAAACACCATCGAATAAT
* * *
12744548 ATTACTTATTTTAATTATGGAAGGACATTTATATAATTTCCTAACCGAGTTGGTACCCAGTTAAA
131 ATAACTTATTTTAATTACGGAAGGACATTTATATAATTTCCTAACCAAGTTGGTACCCAGTTAAA
* *
12744613 CTGTGACACC-ACTCAG-CTAG-GGATTTTATTAATAGTATAAATATACAACTGGTGAATATAAT
196 CTATGACACCAACTCAGTC-AGAGG-TTTTATTAATAGTATAAATATACAACTGGTGAAGATAAT
12744675 AAATTGTGA-ATATTTAAAAA-AATTGTATAAAA-A-ATC
259 AAATTGT-ACATA-TTAAAAAGAA-TGTATAAAATATATC
* * * * *
12744711 AAAATAAAATTTTGATTGAGTAGTAAATTTAAGGTTTTTCTAATCCAATTGGCAT-GAGTTTAAC
1 AAAATAAAGTTTTGATTGAGTGGTAAATTTAAGGTTTTACTAATCCAATTGACATAG-GTTTAAA
* *** * *
12744775 TCCCACCACATGCATATTTTTCTTG-TTTTTCCT-AAATGAAA-AGACTAAAGTGCCTTTGAATA
65 TACCACCACATGCATATTTTTCTTGATTTTTCCTAAAAT-AAATAGACTAAAACACCATCGAATA
* * * * * *
12744837 ATATAATTTATTTTTATTACGGAATGACATTT-TCATAATTTCCTAACTAAGTTGGTGCCCGGTT
129 ATATAACTTATTTTAATTACGGAAGGACATTTAT-ATAATTTCCTAACCAAGTTGGTACCCAGTT
* * * **
12744901 AACCTATGACACCAACTTAGTCAGAGGTTTTATTAATAGTATAGATATACAACTGGTGGGGATAA
193 AAACTATGACACCAACTCAGTCAGAGGTTTTATTAATAGTATAAATATACAACTGGTGAAGATAA
*
12744966 TAAATTGTACATATTAAAAAGAATGTATAAAATATATT
258 TAAATTGTACATATTAAAAAGAATGTATAAAATATATC
* * * * ** * *
12745004 AAAATAAAGTTTTGCTTGAGTGGTAACTTTAAGGTTTTACTAAT-CAAATCAGTGTGGGTTCAAA
1 AAAATAAAGTTTTGATTGAGTGGTAAATTTAAGGTTTTACTAATCCAATTGA-CATAGGTTTAAA
* **** * * **
12745068 T-----CTCAT-CAT-TTGGTTTC-TG--TTAAAATGAAAA-AAA-A-ACTAAAATACCTTTAAA
65 TACCACCACATGCATATT--TTTCTTGATTTTTCCT-AAAATAAATAGACTAAAACACCATCGAA
* ** * * * **
12745120 TAATATAACTCATTTTAATTATAGAAGGACATTTCTATAATTTCCTAATCGAGTTGGTACCTGGT
127 TAATATAACTTATTTTAATTACGGAAGGACATTTATATAATTTCCTAACCAAGTTGGTACCCAGT
* * ** * *
12745185 TAACCCATGACACCAACTCAGTTTGGGGTATTATTACTAGTAAGTATATAGATATACAACTGGTG
192 TAAACTATGACACCAACTCAGTCAGAGGTTTTATTA--A-T-AGTATA-A-ATATACAACTGGTG
* * *
12745250 AAGATAATAAATTGTGCGTATTAAAAA-AA--TATAAAATATTCTC
251 AAGATAATAAATTGTACATATTAAAAAGAATGTATAAAATA-TATC
* * * * *
12745293 AAAATAAAATATT-AGTTGAGTGGTAAATTTAAGATTTTACTAATCCAATTGGCAT-GGATTCAA
1 AAAATAAAGTTTTGA-TTGAGTGGTAAATTTAAGGTTTTACTAATCCAATTGACATAGG-TTTAA
* * * ** **
12745356 ATCTAAAATCTTACCATATGCATATTTTTCTTGGTTTTTGTTAAAATGAAA-AGACTAAAATGCC
64 A--T---A-C-CACCACATGCATATTTTTCTTGATTTTTCCTAAAAT-AAATAGACTAAAACACC
* * * * * * * * * * *
12745420 CTCAAATGATATGATTTATTTTAATTACGAAAGGATATTTCTGTAATTTTCTAACCGAGTTGGTA
121 ATCGAATAATATAACTTATTTTAATTACGGAAGGACATTTATATAATTTCCTAACCAAGTTGGTA
* * * * ** *
12745485 -CAAGGTTAACCTGTGACACAAACTTGGTTAGAGGTTTTATTAAT
186 CCCA-GTTAAACTATGACACCAACTCAGTCAGAGGTTTTATTAAT
12745529 CTTACTAGAA
Statistics
Matches: 651, Mismatches: 119, Indels: 86
0.76 0.14 0.10
Matches are distributed among these distances:
285 96 0.15
286 10 0.02
287 6 0.01
288 23 0.04
289 53 0.08
290 7 0.01
291 139 0.21
292 70 0.11
293 126 0.19
294 1 0.00
301 7 0.01
302 5 0.01
303 7 0.01
304 4 0.01
305 5 0.01
306 92 0.14
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (295 bp):
AAAATAAAGTTTTGATTGAGTGGTAAATTTAAGGTTTTACTAATCCAATTGACATAGGTTTAAAT
ACCACCACATGCATATTTTTCTTGATTTTTCCTAAAATAAATAGACTAAAACACCATCGAATAAT
ATAACTTATTTTAATTACGGAAGGACATTTATATAATTTCCTAACCAAGTTGGTACCCAGTTAAA
CTATGACACCAACTCAGTCAGAGGTTTTATTAATAGTATAAATATACAACTGGTGAAGATAATAA
ATTGTACATATTAAAAAGAATGTATAAAATATATC
Found at i:12745934 original size:19 final size:19
Alignment explanation
Indices: 12745896--12745934 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12745886 GTGAAAACTA
*
12745896 TGTATTTAGAACATAAATT
1 TGTATTTAGAAAATAAATT
12745915 TGTATTTA-AAAATAACATT
1 TGTATTTAGAAAATAA-ATT
12745934 T
1 T
12745935 AATAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (19 bp):
TGTATTTAGAAAATAAATT
Found at i:12746752 original size:91 final size:90
Alignment explanation
Indices: 12746623--12746842 Score: 289
Period size: 91 Copynumber: 2.4 Consensus size: 90
12746613 TAAAAAGAAG
* * * * *
12746623 AAGCAATTAAACCCTTACTTTTTGCTTTTGCACTCAATTGGATACTTGAACTTTTAAAATACATC
1 AAGCAATTAAACCCCTACTTTTT-TTTTTGCACTCAATTGGATACTTGAACTGTCAAAATACATA
*
12746688 AAAAAGGCCCTCAAACTTTTTCAAAAA
65 AAAAAGACCCT-AAACTTTTTCAAAAA
* * *
12746715 AAGTAATTAAACCCCTACTTTTTTTTTTGCATTCAATTGGGTACTTGAACTGTCAAAATACATAA
1 AAGCAATTAAACCCCTACTTTTTTTTTTGCACTCAATTGGATACTTGAACTGTCAAAATACATAA
* *
12746780 AAAAGACCCTAAATTTTTTTAAAAA
66 AAAAGACCCTAAACTTTTTCAAAAA
* * *
12746805 ATGCAATTAAGCCCCTA-GTTTTTTTTTGCACTCAATTG
1 AAGCAATTAAACCCCTACTTTTTTTTTTGCACTCAATTG
12746843 CCAAAATGCA
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
89 19 0.17
90 27 0.24
91 45 0.40
92 21 0.19
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (90 bp):
AAGCAATTAAACCCCTACTTTTTTTTTTGCACTCAATTGGATACTTGAACTGTCAAAATACATAA
AAAAGACCCTAAACTTTTTCAAAAA
Found at i:12747070 original size:27 final size:28
Alignment explanation
Indices: 12747018--12747087 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
12747008 TAAACTTTAA
* **
12747018 TAAAAATATAAAAAAATATATTTAAATTT
1 TAAAAATAT-AAAAAATATATATAAATCG
*
12747047 TAAAAAT-TAAAATATATATATAAATCG
1 TAAAAATATAAAAAATATATATAAATCG
12747074 TAAAAATATAAAAA
1 TAAAAATATAAAAA
12747088 TTTGTAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 22 0.63
28 6 0.17
29 7 0.20
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (28 bp):
TAAAAATATAAAAAATATATATAAATCG
Found at i:12747447 original size:30 final size:29
Alignment explanation
Indices: 12747409--12747484 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
12747399 CTTTTTTACA
12747409 ATTTTTATAATTTTTAATAAAAATTAAAT
1 ATTTTTATAATTTTTAATAAAAATTAAAT
* * * *
12747438 ATTTCTTATATTTTTTTATTAAAATTTAAT
1 ATTT-TTATAATTTTTAATAAAAATTAAAT
*
12747468 ATTTTTTATAACTTTTA
1 A-TTTTTATAATTTTTA
12747485 TTTATTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 4 0.11
30 31 0.82
31 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTTTTATAATTTTTAATAAAAATTAAAT
Found at i:12759419 original size:28 final size:28
Alignment explanation
Indices: 12759371--12759427 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
12759361 TATCTCTCTC
*
12759371 TCAATAAAAATTAAAATAATTTTTAAAAT
1 TCAATAAAAATTAAAATAA-TTCTAAAAT
*
12759400 TCAA-AAAAATTATACA-AATTCTAAAAT
1 TCAATAAAAATTA-AAATAATTCTAAAAT
12759427 T
1 T
12759428 TATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 9 0.36
28 10 0.40
29 6 0.24
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (28 bp):
TCAATAAAAATTAAAATAATTCTAAAAT
Found at i:12759459 original size:9 final size:9
Alignment explanation
Indices: 12759435--12759502 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
12759425 ATTTATATTT
12759435 TTAAAAA-A
1 TTAAAAATA
*
12759443 TTATAAATA
1 TTAAAAATA
12759452 TTAAAAATA
1 TTAAAAATA
12759461 TTAAAAAT-
1 TTAAAAATA
*
12759469 TCT-AAAGTA
1 T-TAAAAATA
12759478 TATAAAAA-A
1 T-TAAAAATA
*
12759487 TTAAAAATT
1 TTAAAAATA
12759496 TTAAAAA
1 TTAAAAA
12759503 CATTTCTAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
8 17 0.35
9 29 0.59
10 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
TTAAAAATA
Found at i:12759463 original size:18 final size:17
Alignment explanation
Indices: 12759435--12759502 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
12759425 ATTTATATTT
*
12759435 TTAAAAA-ATTATAAATA
1 TTAAAAATATTA-AAAAA
12759452 TTAAAAATATT-AAAAA
1 TTAAAAATATTAAAAAA
* *
12759468 TTCTAAAGTATATAAAAAA
1 TT-AAAAATAT-TAAAAAA
*
12759487 TTAAAAATTTTAAAAA
1 TTAAAAATATTAAAAA
12759503 CATTTCTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
16 6 0.15
17 19 0.46
18 9 0.22
19 7 0.17
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (17 bp):
TTAAAAATATTAAAAAA
Found at i:12759484 original size:26 final size:25
Alignment explanation
Indices: 12759438--12759500 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
12759428 TATATTTTTA
*
12759438 AAAAATTATAAATATTAAAAATATT
1 AAAAATTATAAATATTAAAAAAATT
*
12759463 AAAAATTCTAAAGTA-TATAAAAAATT
1 AAAAATTATAAA-TATTA-AAAAAATT
*
12759489 AAAAATTTTAAA
1 AAAAATTATAAA
12759501 AACATTTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAATTATAAATATTAAAAAAATT
Found at i:12760320 original size:20 final size:19
Alignment explanation
Indices: 12760277--12760363 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 19
12760267 TCCATATGTA
*
12760277 ATAAAAATAAA-AATAGATT
1 ATAAAAATAAATAA-AAATT
*
12760296 CTAAAAAATAAATAAAAATT
1 AT-AAAAATAAATAAAAATT
* *
12760316 ATAAAAATAAAT-TAAATA
1 ATAAAAATAAATAAAAATT
*
12760334 ATAAAAATGTAATAAAAAATT
1 ATAAAAAT-AAAT-AAAAATT
12760355 ATAAAAATA
1 ATAAAAATA
12760364 TACCATGTGA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
18 12 0.22
19 14 0.26
20 14 0.26
21 14 0.26
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.26
Consensus pattern (19 bp):
ATAAAAATAAATAAAAATT
Found at i:12760363 original size:27 final size:27
Alignment explanation
Indices: 12760305--12760363 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
12760295 TCTAAAAAAT
12760305 AAATAAAAATTATAAAAATAAATTAAA
1 AAATAAAAATTATAAAAATAAATTAAA
* *
12760332 TAATAAAAATGTA-ATAAA-AAATTATAA
1 AAATAAAAAT-TATAAAAATAAATTA-AA
12760359 AAATA
1 AAATA
12760364 TACCATGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.22
27 19 0.70
28 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (27 bp):
AAATAAAAATTATAAAAATAAATTAAA
Found at i:12760850 original size:24 final size:24
Alignment explanation
Indices: 12760808--12760866 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
12760798 TTTTAAAATA
12760808 TTTATAAAAATTTCAAAATTTATATT
1 TTTA-AAAAATTTCAAAATTT-TATT
* *
12760834 TTTAAAAAATTT-TAAATTTTTTT
1 TTTAAAAAATTTCAAAATTTTATT
12760857 TTTAAAAAAT
1 TTTAAAAAAT
12760867 CTAAAGAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 13 0.42
24 6 0.19
25 8 0.26
26 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAAAAATTTCAAAATTTTATT
Found at i:12763532 original size:14 final size:14
Alignment explanation
Indices: 12763515--12763558 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
12763505 CTAAACCCTA
12763515 AACCCCTAACACTT
1 AACCCCTAACACTT
*
12763529 AACCCCTAACTCTT
1 AACCCCTAACACTT
*
12763543 AACCCCTAACCCTT
1 AACCCCTAACACTT
12763557 AA
1 AA
12763559 ACCATAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:12763552 original size:7 final size:7
Alignment explanation
Indices: 12763503--12763554 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
12763493 ATCCTTTAAA
*
12763503 CCCTAAA
1 CCCTAAC
12763510 CCCTAAAC
1 CCCT-AAC
12763518 CCCTAAC
1 CCCTAAC
* *
12763525 ACTTAAC
1 CCCTAAC
12763532 CCCTAAC
1 CCCTAAC
* *
12763539 TCTTAAC
1 CCCTAAC
12763546 CCCTAAC
1 CCCTAAC
12763553 CC
1 CC
12763555 TTAAACCATA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:12763602 original size:22 final size:22
Alignment explanation
Indices: 12763577--12763620 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12763567 TCATTATCTC
*
12763577 TAAACCCATAATCTATA-ACCCT
1 TAAACCC-TAAACTATATACCCT
*
12763599 TAAACTCTAAACTATATACCCT
1 TAAACCCTAAACTATATACCCT
12763621 AAATCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAACCCTAAACTATATACCCT
Found at i:12764413 original size:39 final size:40
Alignment explanation
Indices: 12764332--12764429 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 40
12764322 AGGTTTTTTT
*
12764332 CTAATGCTCTATTTTTAGCGGTGCTTTTCAAAAAGCACCG
1 CTAATGCTCTATTTTTAGCGGCGCTTTTCAAAAAGCACCG
* * ***
12764372 CTAATGCTCTA-TTTTAGCGGCGTTTTTCTAAAAGTGTCG
1 CTAATGCTCTATTTTTAGCGGCGCTTTTCAAAAAGCACCG
* *
12764411 CTAATGCGCGATTTTTAGC
1 CTAATGCTCTATTTTTAGC
12764430 AACGTTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 31 0.63
40 18 0.37
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (40 bp):
CTAATGCTCTATTTTTAGCGGCGCTTTTCAAAAAGCACCG
Found at i:12771160 original size:403 final size:403
Alignment explanation
Indices: 12770412--12771218 Score: 1411
Period size: 403 Copynumber: 2.0 Consensus size: 403
12770402 TTGTTGGAAG
12770412 GCGCAGACGATTATACAAAATCAATGCAATAATCTTCACTTGAAACGGGGGACGTATATCCAAAC
1 GCGCAGACGATTATACAAAATCAATGCAATAATCTTCACTTGAAACGGGGGACGTATATCCAAAC
12770477 CCGCAGCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGC
66 CCGCAGCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGC
12770542 GCGCCTTTTAGAGGAGTCTTGCCACTGATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACAA
131 GCGCCTTTTAGAGGAGTCTTGCCACTGATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACAA
* * *
12770607 TTCTAATTGTGAGGAATGTCTTTAGATTCTGCTTGGAGGATTTCAGCCTAAATGGTTGGAGGGCT
196 TTCTAACTGTGAGGAATGTCTTTAGATTCTGCTTGGAGGATTTCAGCCTAAATAGTTAGAGGGCT
12770672 GGCGACAACTAAGAGGTCGCACGATCAATGGGTGGGCAACTAACGATGAGTACTTGGCATCACGA
261 GGCGACAACTAAGAGGTCGCACGATCAATGGGTGGGCAACTAACGATGAGTACTTGGCATCACGA
*
12770737 TTCCCTCGATCAGCTGGGCATGATATTGACAGGGTGTTTGGAGGAGCCTGTGAACTTTTTCTACT
326 TTCCCTCGATCAGCTGGGCATGATATTGACAGGGTGTTTGGAGGAGCCTGCGAACTTTTTCTACT
12770802 ATTATTGTGGGAT
391 ATTATTGTGGGAT
*
12770815 GCGCAGACGATTATACAAAATTAATGCAATAATCTTCACTTGAAACGGGGGACGTATATCCAAAC
1 GCGCAGACGATTATACAAAATCAATGCAATAATCTTCACTTGAAACGGGGGACGTATATCCAAAC
* * *
12770880 CCGCTGTATGCTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGC
66 CCGCAGCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGC
* *
12770945 GCGCCTTTTAGAGGAGTCTTGCCACTGATGAGGCTATCGAGTAACTTCAAAGGCTCT-GAAGACG
131 GCGCCTTTTAGAGGAGTCTTGCCACTGATGAGGCTATCGAGCAACTTCAAAGGCTCTAG-AGACA
* *
12771009 ATTCTAACTGTGATGAATGTCTTTAGATTTTGCTTGGAGGATCTT-AGCCTAAATAGTTAGAGGG
195 ATTCTAACTGTGAGGAATGTCTTTAGATTCTGCTTGGAGGAT-TTCAGCCTAAATAGTTAGAGGG
* * *
12771073 CTGGCGACAACTAAGAGGTCGCATGATCAGTTGGTGGGCAACTAACGATGAGTACTTGGCATCAC
259 CTGGCGACAACTAAGAGGTCGCACGATCAATGGGTGGGCAACTAACGATGAGTACTTGGCATCAC
* ** *
12771138 GATTCCCTCGATCAGTTGGGCATGATATTGATGGGGTGTTTGGAGGAGCCTGCGAATTTTTTCTA
324 GATTCCCTCGATCAGCTGGGCATGATATTGACAGGGTGTTTGGAGGAGCCTGCGAACTTTTTCTA
12771203 CTATTATTGTGGGAT
389 CTATTATTGTGGGAT
12771218 G
1 G
12771219 TCGTTCCGTC
Statistics
Matches: 383, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
402 1 0.00
403 380 0.99
404 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (403 bp):
GCGCAGACGATTATACAAAATCAATGCAATAATCTTCACTTGAAACGGGGGACGTATATCCAAAC
CCGCAGCATACTTGGCGAAGACTTTGGGTTCCCAACTAGGTGGTCCTCCCCTAGTGAAGACATGC
GCGCCTTTTAGAGGAGTCTTGCCACTGATGAGGCTATCGAGCAACTTCAAAGGCTCTAGAGACAA
TTCTAACTGTGAGGAATGTCTTTAGATTCTGCTTGGAGGATTTCAGCCTAAATAGTTAGAGGGCT
GGCGACAACTAAGAGGTCGCACGATCAATGGGTGGGCAACTAACGATGAGTACTTGGCATCACGA
TTCCCTCGATCAGCTGGGCATGATATTGACAGGGTGTTTGGAGGAGCCTGCGAACTTTTTCTACT
ATTATTGTGGGAT
Found at i:12773267 original size:69 final size:69
Alignment explanation
Indices: 12773174--12773310 Score: 168
Period size: 69 Copynumber: 2.0 Consensus size: 69
12773164 TGATTGTAAA
* ** * * *
12773174 GTTGGGAGCTTTTCTCTTGCTAACTATTTTAAAGGTCGC-AGCTCTTCGCCTGCGAGCTTTTATT
1 GTTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGTCGCGA-CTCTTCGCCTACGAGCCTTGATT
12773238 TTACT
65 TTACT
* ** *
12773243 GTTGGGAGCTTTGGTCTCACTAACTATTTTGGAGGTCGCGACTCTTTGCCTACGAGCCTTGATTT
1 GTTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGTCGCGACTCTTCGCCTACGAGCCTTGATTT
12773308 TAC
66 TAC
12773311 ATCACTAACT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 56 0.98
70 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (69 bp):
GTTGGGAGCTTTGCTCTCACTAACTATTTTAAAGGTCGCGACTCTTCGCCTACGAGCCTTGATTT
TACT
Found at i:12773344 original size:53 final size:53
Alignment explanation
Indices: 12773259--12773364 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
12773249 AGCTTTGGTC
* *
12773259 TCACTAACTATTTTGGAGGTCGCGACTCTTTGCCTACGAGCCTTGATTTTACA
1 TCACTAACTATTTTAGAGGTCACGACTCTTTGCCTACGAGCCTTGATTTTACA
* * * *
12773312 TCACTAACTATTTTAGAGGTTACGGCTTTTTGCCTACGAGCTTTGATTTTACA
1 TCACTAACTATTTTAGAGGTCACGACTCTTTGCCTACGAGCCTTGATTTTACA
12773365 GCTAGGAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (53 bp):
TCACTAACTATTTTAGAGGTCACGACTCTTTGCCTACGAGCCTTGATTTTACA
Found at i:12773568 original size:69 final size:69
Alignment explanation
Indices: 12773477--12773745 Score: 288
Period size: 69 Copynumber: 3.9 Consensus size: 69
12773467 GTTCACGACT
* * * * *
12773477 TTCACCTGCGAACCTTGGTTTTATAGCTGGGAGCTTTGCTCTCGCTAATTGTTTTCGAGGTTGCA
1 TTCACCTGCGAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCA
12773542 GCTC
66 GCTC
* * * * * *
12773546 TTCACCTGTGAGCCTTGATTTTACAGCTAGGAGCTTTGCTTTTGCTAACTATTTTGGAGGTCG-A
1 TTCACCTGCGAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCA
12773610 GACTC
66 G-CTC
** * * * * * *
12773615 TTTGCCCGCGAGCCCTGATTTTACAGCTGCGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACG
1 TTCACCTGCGAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCA
12773680 GCTC
66 GCTC
* * * * * * *
12773684 TTCGCTTGCGAACCTTAATTTTATAGCTGGGAGCTTTGGTCTCACTAACTATTTTGGAGGTC
1 TTCACCTGCGAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTC
12773746 CCAACTTTGC
Statistics
Matches: 164, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
68 2 0.01
69 161 0.98
70 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.36
Consensus pattern (69 bp):
TTCACCTGCGAACCTTGATTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCGCA
GCTC
Found at i:12773669 original size:138 final size:138
Alignment explanation
Indices: 12773495--12773745 Score: 340
Period size: 138 Copynumber: 1.8 Consensus size: 138
12773485 CGAACCTTGG
* * * ** * *
12773495 TTTTATAGCTGGGAGCTTTGCTCTCGCTAATTGTTTTCGAGGTTGCAGCTCTTCACCTGTGAGCC
1 TTTTACAGCTGCGAGCTTTGCTCTCGCTAACTGTTTTCGAGGTCACAGCTCTTCACCTGCGAACC
* * **
12773560 TTGATTTTACAGCTAGGAGCTTTGCTTTTGCTAACTATTTTGGAGGTCGAGACTCTTTGCCCGCG
66 TTAATTTTACAGCTAGGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGAGACTCTTTGCCCGCG
12773625 AGCCCTGA
131 AGCCCTGA
* * * *
12773633 TTTTACAGCTGCGAGCTTTGCTCTCGCTAACTGTTTTGGAGGTCACGGCTCTTCGCTTGCGAACC
1 TTTTACAGCTGCGAGCTTTGCTCTCGCTAACTGTTTTCGAGGTCACAGCTCTTCACCTGCGAACC
* * *
12773698 TTAATTTTATAGCTGGGAGCTTTGGTCTCACTAACTATTTTGGAGGTC
66 TTAATTTTACAGCTAGGAGCTTTGCTCTCACTAACTATTTTGGAGGTC
12773746 CCAACTTTGC
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
138 95 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (138 bp):
TTTTACAGCTGCGAGCTTTGCTCTCGCTAACTGTTTTCGAGGTCACAGCTCTTCACCTGCGAACC
TTAATTTTACAGCTAGGAGCTTTGCTCTCACTAACTATTTTGGAGGTCGAGACTCTTTGCCCGCG
AGCCCTGA
Found at i:12780301 original size:364 final size:365
Alignment explanation
Indices: 12779627--12780332 Score: 1146
Period size: 364 Copynumber: 1.9 Consensus size: 365
12779617 TTGGGGCTGA
* * * **
12779627 TGGTACTGACATTCCCTAAGCATCCCTTGGCTTATTGGATGTGTGTCTACGGAGGACGCGGTCCT
1 TGGTACTGACATTCCCTAAGCATCCCTTGGCTTATTGGATGCGTGTCTACGGAGCACACGACCCT
*
12779692 TTCTAATCCAAGGATTGACTCCTCCAGCGAGCTTCATGCTTGCTAGTCACGAGTGGGGATCCCTT
66 TTCTAATCCAAGGATTGACTCCTCCAGCGAGCTTAATGCTTGCTAGTCACGAGTGGGGATCCCTT
*
12779757 GTAGTGCTCGTGATCCCTTCTGCGGACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGC
131 GTAGTGCTCGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGC
* * * *
12779822 TTTCTTTACAAGATTTTTGTGCGAGCTATCTTTGCGGACATTTGGCATTCCAGCGGGGTCCCCAA
196 TCTCCTTACAAGATTTCTGTGCGAGCTATCTTTGCGAACATTTGGCATTCCAGCGGGGTCCCCAA
* **
12779887 CGAACTTTGCCTGTAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATTTGGATCCTA
261 CGAACTTTGACTGTAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATCCGGATCCTA
*
12779952 TTCGGTC-TTGGGGCTGATGGTACTGACATTCCTTGTCCC
326 TTAGGTCATTGGGGCTGATGGTACTGACATTCCTTGTCCC
*
12779991 TGGTGCTGACATTCCCTAAGCATCCCTTGGCTTATTGGATGCGTGTCTACGGAGCACACGACCCT
1 TGGTACTGACATTCCCTAAGCATCCCTTGGCTTATTGGATGCGTGTCTACGGAGCACACGACCCT
* * *
12780056 TTCTGATCTAGGGATTGACTCCTCCAGCGAGCTTAATGCTTGCTAGTCACGAGTGGGGATCCCTT
66 TTCTAATCCAAGGATTGACTCCTCCAGCGAGCTTAATGCTTGCTAGTCACGAGTGGGGATCCCTT
* *
12780121 GTAGTGCTCGTGATCCCTTCTGCGAACATAACTTGGAACCTCATTCCTATGAGGCTTACACGAGC
131 GTAGTGCTCGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGC
* *
12780186 TCTCCTTACAAGCTTTCTGTGTGAGCTATCTTTGCGAACATTTGGCATTCCAGCGGGGTCCCCAA
196 TCTCCTTACAAGATTTCTGTGCGAGCTATCTTTGCGAACATTTGGCATTCCAGCGGGGTCCCCAA
* * *
12780251 CGAA-TTATGACTGTAGGTGAGCATTCTTTTTCTGTGTCAGATCTGGGTCGAAGATCCGGATCCT
261 CGAACTT-TGACTGTAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATCCGGATCCT
*
12780315 ATTAGGTCATTTGGGCTG
325 ATTAGGTCATTGGGGCTG
12780333 GAGGTTCCCA
Statistics
Matches: 313, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
363 2 0.01
364 303 0.97
365 8 0.03
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (365 bp):
TGGTACTGACATTCCCTAAGCATCCCTTGGCTTATTGGATGCGTGTCTACGGAGCACACGACCCT
TTCTAATCCAAGGATTGACTCCTCCAGCGAGCTTAATGCTTGCTAGTCACGAGTGGGGATCCCTT
GTAGTGCTCGTGATCCCTTCTGCGAACATAACTTGCAACCTCATTCCTACGAGGCTTACACGAGC
TCTCCTTACAAGATTTCTGTGCGAGCTATCTTTGCGAACATTTGGCATTCCAGCGGGGTCCCCAA
CGAACTTTGACTGTAGGTGAGCATTCTTTTTCCGAGTCAGATCCGGGTCGAAGATCCGGATCCTA
TTAGGTCATTGGGGCTGATGGTACTGACATTCCTTGTCCC
Found at i:12787289 original size:251 final size:251
Alignment explanation
Indices: 12786841--12787350 Score: 984
Period size: 251 Copynumber: 2.0 Consensus size: 251
12786831 ACAACGTTAG
*
12786841 CTTTACTAGGGTGGTAATCAATAATTCAATCAAAATCTTTCAAAAGCTCCACCCAACGATGCTGT
1 CTTTTCTAGGGTGGTAATCAATAATTCAATCAAAATCTTTCAAAAGCTCCACCCAACGATGCTGT
12786906 CTCAAATTCAACTCCTTTTGAGATGGGAGTTATTTGAGACTCTTATGATCGATATAGATATGACA
66 CTCAAATTCAACTCCTTTTGAGATGGGAGTTATTTGAGACTCTTATGATCGATATAGATATGACA
*
12786971 CTTTTTGTTGTACAGGTAGTGTCTCCAGATCTTTATAGCAAAAACTACAACAGCTAGCTCTAAAT
131 CTTTTTGTTGTACAGGTAGTGTCTCCAGATCTTTACAGCAAAAACTACAACAGCTAGCTCTAAAT
12787036 TGTGCATCAGATAATTACGTTAATGCTCTTTAGCTAACGAGACACATAAGTTATCA
196 TGTGCATCAGATAATTACGTTAATGCTCTTTAGCTAACGAGACACATAAGTTATCA
*
12787092 CTTTTCTAGGGTGGTAATCAATAATTCAATCAAAATCTTTCAGAAGCTCCACCCAACGATGCTGT
1 CTTTTCTAGGGTGGTAATCAATAATTCAATCAAAATCTTTCAAAAGCTCCACCCAACGATGCTGT
*
12787157 CTCAAATTCAACTCCTTTTGAGATGGGAGTTATTTGGGACTCTTATGATCGATATAGATATGACA
66 CTCAAATTCAACTCCTTTTGAGATGGGAGTTATTTGAGACTCTTATGATCGATATAGATATGACA
12787222 CTTTTTGTTGTACAGGTAGTGTCTCCAGATCTTTACAGCAAAAACTACAACAGCTAGCTCTAAAT
131 CTTTTTGTTGTACAGGTAGTGTCTCCAGATCTTTACAGCAAAAACTACAACAGCTAGCTCTAAAT
12787287 TGTGCATCAGATAATTACGTTAATGCTCTTTAGCTAACGAGACACATAAGTTATCA
196 TGTGCATCAGATAATTACGTTAATGCTCTTTAGCTAACGAGACACATAAGTTATCA
12787343 CTTTTCTA
1 CTTTTCTA
12787351 TCTTGCATCA
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 255 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (251 bp):
CTTTTCTAGGGTGGTAATCAATAATTCAATCAAAATCTTTCAAAAGCTCCACCCAACGATGCTGT
CTCAAATTCAACTCCTTTTGAGATGGGAGTTATTTGAGACTCTTATGATCGATATAGATATGACA
CTTTTTGTTGTACAGGTAGTGTCTCCAGATCTTTACAGCAAAAACTACAACAGCTAGCTCTAAAT
TGTGCATCAGATAATTACGTTAATGCTCTTTAGCTAACGAGACACATAAGTTATCA
Found at i:12800487 original size:17 final size:17
Alignment explanation
Indices: 12800465--12800507 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
12800455 ATAGATCATC
*
12800465 GGAAGCTTGATTTGGTT
1 GGAAGCTCGATTTGGTT
12800482 GGAAGCTCGATTTGGTT
1 GGAAGCTCGATTTGGTT
12800499 GGAAGCTCG
1 GGAAGCTCG
12800508 TCGGAGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.37, T:0.33
Consensus pattern (17 bp):
GGAAGCTCGATTTGGTT
Found at i:12803342 original size:16 final size:16
Alignment explanation
Indices: 12803321--12803351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12803311 TATTAGTAAA
*
12803321 TCAACTTAAAATTTTT
1 TCAACTAAAAATTTTT
12803337 TCAACTAAAAATTTT
1 TCAACTAAAAATTTT
12803352 CATTCCATAC
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:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
TCAACTAAAAATTTTT
Found at i:12805137 original size:44 final size:42
Alignment explanation
Indices: 12805078--12805192 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 42
12805068 TGTGATTTCG
* *
12805078 TGTAACACCACGTCTGGGACGTCGGCATCGA-ATTGAGATTTACA
1 TGTAAGACCTCGTCTGGGACGT-GGCATCGATATT-AGA-TTACA
* *
12805122 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCTCGTCTGGGAC-GTGGCATCGATATTAGATTACA
* *
12805165 TGTAAGACCTCATTTGGGACGTAGGCAT
1 TGTAAGACCTCGTCTGGGACGT-GGCAT
12805193 TTTACGAGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 27 0.44
44 27 0.44
45 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCTCGTCTGGGACGTGGCATCGATATTAGATTACA
Found at i:12809221 original size:31 final size:32
Alignment explanation
Indices: 12809149--12809224 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
12809139 TACTCTCTGT
* * *
12809149 TTGGTGTGTTGGTTGTTTTAGCTCTTGTGAGCA
1 TTGGTGTGTTGGTTG-TGTAACTCTTATGAGCA
* *
12809182 TTGATGTGTTGGTTG-GTAACTCTTATGAGTA
1 TTGGTGTGTTGGTTGTGTAACTCTTATGAGCA
12809213 TTGGTGTGTTGG
1 TTGGTGTGTTGG
12809225 AGGGATTGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 23 0.62
33 14 0.38
ACGTcount: A:0.12, C:0.07, G:0.34, T:0.47
Consensus pattern (32 bp):
TTGGTGTGTTGGTTGTGTAACTCTTATGAGCA
Found at i:12810668 original size:50 final size:51
Alignment explanation
Indices: 12810557--12810804 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 51
12810547 ATTTGGGTAA
* * *
12810557 AGAGATCCCATGTAAGACCATGTTTGGGAGATGGCATTGGCATCATTGAGACTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--CGAG---ATG
* *
12810613 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGATG
* ** * *
12810663 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA-CCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGATG
* * * * *
12810713 AGA-ACTCCCATGTAAGACCATATCTGGGATATGACATTGGCAATACAAG-T-
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ATCCGAGATG
* * *
12810763 A-ACATCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12810805 GTAATTATCA
Statistics
Matches: 163, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.01
49 32 0.20
50 83 0.51
51 2 0.01
52 2 0.01
53 3 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (51 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCGAGATG
Found at i:12810919 original size:25 final size:26
Alignment explanation
Indices: 12810884--12810933 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
12810874 TATGTTCCAT
12810884 GAAAGTTCAGGTAAAAGCATAAATAG
1 GAAAGTTCAGGTAAAAGCATAAATAG
12810910 GAAA-TTCAGGTAAAAGCATAAATA
1 GAAAGTTCAGGTAAAAGCATAAATA
12810934 AAAAATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.20
Consensus pattern (26 bp):
GAAAGTTCAGGTAAAAGCATAAATAG
Found at i:12810939 original size:25 final size:25
Alignment explanation
Indices: 12810889--12810945 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
12810879 TCCATGAAAG
**
12810889 TTCAGGTAAAAGCATAAATAGGAAA
1 TTCAGGTAAAAGCATAAATAAAAAA
12810914 TTCAGGTAAAAGCATAAATAAAAAA
1 TTCAGGTAAAAGCATAAATAAAAAA
*
12810939 TTTAGGT
1 TTCAGGT
12810946 GAGTTATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.25
Consensus pattern (25 bp):
TTCAGGTAAAAGCATAAATAAAAAA
Found at i:12813641 original size:51 final size:51
Alignment explanation
Indices: 12813562--12813668 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
12813552 CGACCACGCG
*
12813562 ACAC-GACTGTGTATCCCCTATAGGTTTTTAAAGGTTGCATTTCGAGA-GTT
1 ACACGGACTGTGTATCCCCTATAGCTTTTTAAAGGTTGCATTTCGA-ATGTT
*
12813612 ACACGGACTGTGTGTCCCCTATAGCTTTTTAAAGGTTGCATTTCGAATGTT
1 ACACGGACTGTGTATCCCCTATAGCTTTTTAAAGGTTGCATTTCGAATGTT
12813663 ACACGG
1 ACACGG
12813669 CCTGAGACAT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
50 5 0.09
51 48 0.91
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (51 bp):
ACACGGACTGTGTATCCCCTATAGCTTTTTAAAGGTTGCATTTCGAATGTT
Found at i:12831727 original size:23 final size:23
Alignment explanation
Indices: 12831701--12831751 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12831691 GCAAAAGATG
12831701 TGTAATATCCCAAAAATTACTAC
1 TGTAATATCCCAAAAATTACTAC
**
12831724 TGTAATATCCTGAAAATTACTAC
1 TGTAATATCCCAAAAATTACTAC
*
12831747 AGTAA
1 TGTAA
12831752 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCAAAAATTACTAC
Found at i:12834561 original size:25 final size:24
Alignment explanation
Indices: 12834529--12834576 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12834519 CGACCTTTCA
12834529 AAATTTTTAACCGTTAACCGAATTG
1 AAATTTTT-ACCGTTAACCGAATTG
* *
12834554 AAATTTTTTCGGTTAACCGAATT
1 AAATTTTTACCGTTAACCGAATT
12834577 AACCGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (24 bp):
AAATTTTTACCGTTAACCGAATTG
Found at i:12834627 original size:9 final size:9
Alignment explanation
Indices: 12834613--12834679 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
12834603 TTGGTTAAAA
12834613 AATTAACCG
1 AATTAACCG
*
12834622 AATTAATCG
1 AATTAACCG
*
12834631 AATTACCCG
1 AATTAACCG
12834640 AATTAACCG
1 AATTAACCG
*
12834649 AATTACCCG
1 AATTAACCG
12834658 AATTAACCG
1 AATTAACCG
*
12834667 AGTTAACCG
1 AATTAACCG
12834676 AATT
1 AATT
12834680 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:12834773 original size:6 final size:6
Alignment explanation
Indices: 12834762--12834790 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12834752 ACTTTTAGAC
12834762 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
12834791 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:12840961 original size:10 final size:9
Alignment explanation
Indices: 12840946--12841012 Score: 55
Period size: 10 Copynumber: 7.0 Consensus size: 9
12840936 ACTCCTTTCC
12840946 ATAATTTTAT
1 ATAATTTT-T
12840956 ATAATTTTT
1 ATAATTTTT
12840965 -TAATATTTTT
1 AT-A-ATTTTT
*
12840975 GTAATTTTAT
1 ATAATTTT-T
*
12840985 ATTATTTTT
1 ATAATTTTT
*
12840994 AATAAATTTT
1 -ATAATTTTT
12841004 ATAATTTTT
1 ATAATTTTT
12841013 TAAAAATTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.02
9 16 0.34
10 29 0.62
11 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:12840991 original size:29 final size:29
Alignment explanation
Indices: 12840946--12841011 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
12840936 ACTCCTTTCC
*
12840946 ATAATTTTATATAATTTTTTAAT-ATTTTT
1 ATAATTTTATATAA-TTTTTAATAAATTTT
* *
12840975 GTAATTTTATATTATTTTTAATAAATTTT
1 ATAATTTTATATAATTTTTAATAAATTTT
12841004 ATAATTTT
1 ATAATTTT
12841012 TTAAAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
ATAATTTTATATAATTTTTAATAAATTTT
Found at i:12841003 original size:21 final size:19
Alignment explanation
Indices: 12840977--12841020 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
12840967 ATATTTTTGT
*
12840977 AATTTTATATTATTTTTAATA
1 AATTTTATAAT-TTTTTAA-A
12840998 AATTTTATAATTTTTTAAA
1 AATTTTATAATTTTTTAAA
12841017 AATT
1 AATT
12841021 CTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTATAATTTTTTAAA
Found at i:12841019 original size:19 final size:21
Alignment explanation
Indices: 12840950--12841020 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 21
12840940 CTTTCCATAA
*
12840950 TTTT-ATATAATTTTTTAATAT
1 TTTTAATA-AATTTTATAATAT
* *
12840971 TTTT-GT-AATTTTATATTAT
1 TTTTAATAAATTTTATAATAT
12840990 TTTTAATAAATTTTATAAT-T
1 TTTTAATAAATTTTATAATAT
12841010 TTTTAA-AAATT
1 TTTTAATAAATT
12841021 CTAATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 20 0.47
20 8 0.19
21 15 0.35
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTTAATAAATTTTATAATAT
Found at i:12841890 original size:24 final size:24
Alignment explanation
Indices: 12841863--12841914 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12841853 TTAGTAAGTC
*
12841863 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12841887 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12841911 AAAT
1 AAAT
12841915 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12843853 original size:24 final size:24
Alignment explanation
Indices: 12843826--12843878 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
12843816 ATTAGTAAGT
*
12843826 TAAATAAACTATACTAATAAATGC
1 TAAATAAACTATACTAATAAATAC
* *
12843850 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
12843874 TAAAT
1 TAAAT
12843879 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:12856654 original size:23 final size:23
Alignment explanation
Indices: 12856601--12856659 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
12856591 TACTCTGATA
12856601 CTCTTGTTACTAGCACGTCGGTG
1 CTCTTGTTACTAGCACGTCGGTG
* * * *
12856624 GTCCTGTTACTAGCACTTTGGTG
1 CTCTTGTTACTAGCACGTCGGTG
* *
12856647 CTTTTGTTCCTAG
1 CTCTTGTTACTAG
12856660 AATTTCGGTG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (23 bp):
CTCTTGTTACTAGCACGTCGGTG
Found at i:12858313 original size:16 final size:16
Alignment explanation
Indices: 12858292--12858324 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12858282 AATACATTTC
12858292 TAATATAAAATATATA
1 TAATATAAAATATATA
*
12858308 TAATATATAATATATA
1 TAATATAAAATATATA
12858324 T
1 T
12858325 TATTTATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAAAATATATA
Found at i:12860459 original size:23 final size:23
Alignment explanation
Indices: 12860397--12860460 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
12860387 CTCACCACTT
12860397 TTTGGTTGTGTTTGG-GGGTATA
1 TTTGGTTGTGTTTGGAGGGTATA
* * *
12860419 -CTAGTTGTGTTTGAAGGGTATA
1 TTTGGTTGTGTTTGGAGGGTATA
*
12860441 TTTGGTTGTGCTTGGAGGGT
1 TTTGGTTGTGTTTGGAGGGT
12860461 GATAGTTCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 11 0.33
22 7 0.21
23 15 0.45
ACGTcount: A:0.12, C:0.03, G:0.39, T:0.45
Consensus pattern (23 bp):
TTTGGTTGTGTTTGGAGGGTATA
Found at i:12862092 original size:85 final size:86
Alignment explanation
Indices: 12861980--12862309 Score: 409
Period size: 85 Copynumber: 3.9 Consensus size: 86
12861970 GCGTCGCTAA
* * * *
12861980 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTT-ACACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCCTTTCACACA
*
12862043 AACGCCGCTATAGCTCAGGAC
66 AACGCCGCTATAGATCAGGAC
* * * *
12862064 CTTTAGTGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTCTCACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCCTTTCACACA
*
12862129 AACGCCGCTATAGATCATGAC
66 AACGCCGCTATAGATCAGGAC
* * ** *
12862150 CTTTAGCGACGCTTTTCCCA-AAACGTCGCTATAGCTCAAGACCTTTAGCGGCGTTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCCTTTCACACA
*
12862214 GACGCCGCTATAGATCATGG-C
66 AACGCCGCTATAGATCA-GGAC
* * * * * *
12862235 TTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGCTCAAGACCTTTAGCGACG-CTTTGATTAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCCTTTCA-CAC
12862299 AAACGCCGCTA
65 AAACGCCGCTA
12862310 AAAATACCGT
Statistics
Matches: 214, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
84 14 0.07
85 116 0.54
86 84 0.39
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCCTTTCACACA
AACGCCGCTATAGATCAGGAC
Found at i:12862099 original size:43 final size:43
Alignment explanation
Indices: 12861980--12862292 Score: 409
Period size: 43 Copynumber: 7.3 Consensus size: 43
12861970 GCGTCGCTAA
* * *
12861980 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
* *
12862022 CTTTAGCGGCGCCTTT-ACACAAACGCCGCTATAGCTCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
*
12862064 CTTTAGTGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
* * *
12862107 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
* * *
12862150 CTTTAGCGACGCTTTTCCCA-AAACGTCGCTATAGCTCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
* * *
12862192 CTTTAGCGGCGTTTTTCCCACAGACGCCGCTATAGATCATGG-C
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCA-GGAC
* * * *
12862235 TTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGCTCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
*
12862278 CTTTAGCGACGCTTT
1 CTTTAGCGGCGCTTT
12862293 GATTACAAAC
Statistics
Matches: 237, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
42 91 0.38
43 145 0.61
44 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTCAGGAC
Found at i:12862225 original size:128 final size:127
Alignment explanation
Indices: 12861980--12862309 Score: 439
Period size: 128 Copynumber: 2.6 Consensus size: 127
12861970 GCGTCGCTAA
* * * * *
12861980 CTTTAGCGGCACTTTTACACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCCTTTACACAAA
1 CTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTACACAAA
* * *
12862045 CGCCGCTATAGCTCAGGACCTTTAGTGGCGCTTTTCCCACAAACGCCGCTATAGCTCA-GGAC
66 CGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGG-C
* *
12862107 CTTTAGCGGCGCTTTTCTCACAAACGCCGCTATAGATCATGACCTTTAGCGACGCTTTT-CCCAA
1 CTTTAGCGGCGCTTTT-TCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTACAC-A
* * *
12862171 AACGTCGCTATAGCTCAAGACCTTTAGCGGCGTTTTTCCCACAGACGCCGCTATAGATCATGGC
64 AACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGGC
* * * * *
12862235 TTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTGATTACA
1 CTTTAGCGGCGCTTTTT-CACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTA-CACA
12862300 AACGCCGCTA
64 AACGCCGCTA
12862310 AAAATACCGT
Statistics
Matches: 177, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
127 18 0.10
128 146 0.82
129 12 0.07
130 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (127 bp):
CTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTACACAAA
CGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGGC
Found at i:12864186 original size:19 final size:18
Alignment explanation
Indices: 12864135--12864188 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
12864125 ATTGCTAATG
* *
12864135 TATTAAATAATAAAAGTAT
1 TATTAAATAATAATA-TAA
12864154 TATTAAAT-ATAATATAA
1 TATTAAATAATAATATAA
12864171 TATTAAAATAATAATATA
1 TATT-AAATAATAATATA
12864189 GTAAACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATTAAATAATAATATAA
Found at i:12864579 original size:9 final size:9
Alignment explanation
Indices: 12864565--12864800 Score: 125
Period size: 9 Copynumber: 25.7 Consensus size: 9
12864555 TATAATGTAT
12864565 TAAGTTATG
1 TAAGTTATG
12864574 TAAG-T-TG
1 TAAGTTATG
12864581 TAAGTTATG
1 TAAGTTATG
12864590 TAAGTTATG
1 TAAGTTATG
12864599 TAAGTTATG
1 TAAGTTATG
*
12864608 TATAATATTAATG
1 --TAA-GTT-ATG
12864621 TAAGTTATG
1 TAAGTTATG
12864630 T-A-TTATG
1 TAAGTTATG
*
12864637 TAAGTTATT
1 TAAGTTATG
*
12864646 TAAGTTACG
1 TAAGTTATG
*
12864655 TAAGTTGTG
1 TAAGTTATG
12864664 T-A-TTATG
1 TAAGTTATG
*
12864671 TGAGTTATG
1 TAAGTTATG
* *
12864680 CAATTTATG
1 TAAGTTATG
* * *
12864689 TAGGCTATA
1 TAAGTTATG
12864698 T-A-TTATG
1 TAAGTTATG
12864705 TAAGTTAT-
1 TAAGTTATG
*
12864713 TATGTTATTATG
1 TAAG---TTATG
12864725 TAAGTTATG
1 TAAGTTATG
* *
12864734 CAAGTTTATATA
1 TAAG--T-TATG
*
12864746 TAAGTTTTTATA
1 TAAG---TTATG
12864758 TAAGTTATG
1 TAAGTTATG
12864767 TAAGTTATTATG
1 TAAG---TTATG
12864779 TAAGTTATG
1 TAAGTTATG
12864788 T-A-TTATG
1 TAAGTTATG
12864795 TAAGTT
1 TAAGTT
12864801 TATATATAAG
Statistics
Matches: 177, Mismatches: 25, Indels: 50
0.70 0.10 0.20
Matches are distributed among these distances:
7 27 0.15
8 12 0.07
9 91 0.51
10 2 0.01
11 11 0.06
12 28 0.16
13 6 0.03
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:12864586 original size:16 final size:18
Alignment explanation
Indices: 12864565--12864800 Score: 125
Period size: 16 Copynumber: 12.8 Consensus size: 18
12864555 TATAATGTAT
12864565 TAAGTTATGTAAG-T-TG
1 TAAGTTATGTAAGTTATG
12864581 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
*
12864599 TAAGTTATGTATAATATTAATG
1 TAAGTTATG--TAA-GTT-ATG
12864621 TAAGTTATGT-A-TTATG
1 TAAGTTATGTAAGTTATG
* *
12864637 TAAGTTATTTAAGTTACG
1 TAAGTTATGTAAGTTATG
*
12864655 TAAGTTGTGT-A-TTATG
1 TAAGTTATGTAAGTTATG
* * *
12864671 TGAGTTATGCAATTTATG
1 TAAGTTATGTAAGTTATG
* * *
12864689 TAGGCTATAT-A-TTATG
1 TAAGTTATGTAAGTTATG
*
12864705 TAAGTTAT-TATGTTATTATG
1 TAAGTTATGTAAG---TTATG
* *
12864725 TAAGTTATGCAAGTTTATATA
1 TAAGTTATGTAAG--T-TATG
*
12864746 TAAGTTTTTATATAAGTTATG
1 TAAG---TTATGTAAGTTATG
12864767 TAAGTTATTATGTAAGTTATG
1 TAAG---TTATGTAAGTTATG
12864788 T-A-TTATGTAAGTT
1 TAAGTTATGTAAGTT
12864801 TATATATAAG
Statistics
Matches: 174, Mismatches: 26, Indels: 40
0.73 0.11 0.17
Matches are distributed among these distances:
15 1 0.01
16 58 0.33
17 7 0.04
18 33 0.19
19 1 0.01
20 20 0.11
21 34 0.20
22 13 0.07
24 7 0.04
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (18 bp):
TAAGTTATGTAAGTTATG
Found at i:12864603 original size:34 final size:32
Alignment explanation
Indices: 12864565--12864712 Score: 107
Period size: 34 Copynumber: 4.2 Consensus size: 32
12864555 TATAATGTAT
12864565 TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTAAGTTATGT-A-TTATG
*
12864599 TAAGTTATGTATAATATTAATGTAAGTTATGTATTATG
1 TAAGTTATG--T-A-AGT--TGTAAGTTATGTATTATG
* *
12864637 TAAGTTATTTAAGTTACGTAAGTTGTGTATTATG
1 TAAGTTATGTAAGTT--GTAAGTTATGTATTATG
* * * * * *
12864671 TGAGTTATGCAATTTATGTAGGCTATATATTATG
1 TAAGTTATGTAA-GT-TGTAAGTTATGTATTATG
12864705 TAAGTTAT
1 TAAGTTAT
12864713 TATGTTATTA
Statistics
Matches: 91, Mismatches: 13, Indels: 20
0.73 0.10 0.16
Matches are distributed among these distances:
32 1 0.01
34 56 0.62
35 2 0.02
36 3 0.03
37 1 0.01
38 15 0.16
39 1 0.01
40 12 0.13
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (32 bp):
TAAGTTATGTAAGTTGTAAGTTATGTATTATG
Found at i:12864715 original size:12 final size:12
Alignment explanation
Indices: 12864698--12864786 Score: 56
Period size: 12 Copynumber: 8.2 Consensus size: 12
12864688 GTAGGCTATA
12864698 TATTATGTAAGT
1 TATTATGTAAGT
12864710 TATTA--T--GT
1 TATTATGTAAGT
12864718 TATTATGTAAG-
1 TATTATGTAAGT
*
12864729 --TTATGCAAGT
1 TATTATGTAAGT
*
12864739 T-TATATATAAGT
1 TAT-TATGTAAGT
* *
12864751 TTTTATATAAG-
1 TATTATGTAAGT
12864762 --TTATGTAAGT
1 TATTATGTAAGT
12864772 TATTATGTAAGT
1 TATTATGTAAGT
12864784 TAT
1 TAT
12864787 GTATTATGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
8 7 0.11
9 16 0.26
10 2 0.03
11 1 0.02
12 35 0.56
13 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.51
Consensus pattern (12 bp):
TATTATGTAAGT
Found at i:12864762 original size:33 final size:32
Alignment explanation
Indices: 12864700--12864812 Score: 109
Period size: 33 Copynumber: 3.7 Consensus size: 32
12864690 AGGCTATATA
12864700 TTATGTAAG-TTAT-TAT--GTTATTATGTAAG
1 TTATGTAAGTTTATATATAAGTT-TTATGTAAG
* *
12864729 TTATGCAAGTTTATATATAAGTTTTTATATAAG
1 TTATGTAAGTTTATATATAAG-TTTTATGTAAG
*
12864762 TTATGTAAG-TTATTATGTAAG--TTATGT-A-
1 TTATGTAAGTTTA-TATATAAGTTTTATGTAAG
12864790 TTATGTAAGTTTATATATAAGTT
1 TTATGTAAGTTTATATATAAGTT
12864813 ATGATATGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
28 16 0.23
29 12 0.17
30 9 0.13
31 3 0.04
32 3 0.04
33 24 0.35
34 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (32 bp):
TTATGTAAGTTTATATATAAGTTTTATGTAAG
Found at i:12864770 original size:21 final size:21
Alignment explanation
Indices: 12864746--12864789 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
12864736 AGTTTATATA
*
12864746 TAAGTTTTTATATAAGTTATG
1 TAAGTTATTATATAAGTTATG
*
12864767 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
12864788 TA
1 TA
12864790 TTATGTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:12866166 original size:83 final size:83
Alignment explanation
Indices: 12866079--12866278 Score: 210
Period size: 83 Copynumber: 2.4 Consensus size: 83
12866069 TATATTTGTA
** *
12866079 GCGTTTTTAGCAAAAACGCCACTAAAAATTAACTTACTGAA-TAGAAACGG-CACCGTTTT-AAG
1 GCGTTTTTAGCAAAAACGCCACTAAAAATTAAAGTACTGAAGT-GAAACGGTCA-CATTTTGAA-
* *
12866141 AAACTTTAATCCAT-AGTTCCG
63 AAACATTAATACATCA-TTCCG
** * * *
12866162 GCGTTTTCCGCAAAAACGCCACTAAAATTTAAAGTCCTGAAGTGAAACGGTGACATTTTGAAAAA
1 GCGTTTTTAGCAAAAACGCCACTAAAAATTAAAGTACTGAAGTGAAACGGTCACATTTTGAAAAA
*
12866227 CATTAATACATCATTGCG
66 CATTAATACATCATTCCG
* *
12866245 GCGTTTTTAGCATAAACGCCACTAACAGATTAAA
1 GCGTTTTTAGCAAAAACGCCACTAA-AAATTAAA
12866279 CTCCTCTAGT
Statistics
Matches: 96, Mismatches: 16, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
83 85 0.89
84 11 0.11
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (83 bp):
GCGTTTTTAGCAAAAACGCCACTAAAAATTAAAGTACTGAAGTGAAACGGTCACATTTTGAAAAA
CATTAATACATCATTCCG
Found at i:12867909 original size:81 final size:80
Alignment explanation
Indices: 12867725--12867990 Score: 255
Period size: 81 Copynumber: 3.3 Consensus size: 80
12867715 TTTTTAGCGG
* * *
12867725 CGCTTTTAAAAAAGCGCCACTAAAGACCCCAGCATTAGCGGCGCTTATCC-AGAACGCCGCTAAA
1 CGCTTTTCAAAAA-CGCCGCTAAAGACCCCAGCATTAGCGGCGCTTA-CCAAAAACGCCGCTAAA
* **
12867789 GGCCAAAGCATTAGCGG
64 GCCCAAAGCATTAGCAA
** * * * * *
12867806 TACTTTACCAAAAATGCCGCTAAAGGCCACAACATTAGCGGCGCTTTACCAAAAACGCCGCTAAA
1 CGCTTT-TCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGC-TTACCAAAAACGCCGCTAAA
*
12867871 GCCCACAGCATTAGCAA
64 GCCCAAAGCATTAGCAA
* * * *
12867888 CGCTTTTCAAAAACGCTGCTAAAGCCCCCAGCATTAGCGGCGCTTCCCTAAAAACGCCGTTAAAG
1 CGCTTTTCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTACC-AAAAACGCCGCTAAAG
* * **
12867953 CCCTAACCATTAGCGG
65 CCCAAAGCATTAGCAA
* *
12867969 CACTTCTTCAAAAATGCCGCTA
1 CGCTT-TTCAAAAACGCCGCTA
12867991 TAGCCCTGAG
Statistics
Matches: 148, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
80 4 0.03
81 92 0.62
82 52 0.35
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.18
Consensus pattern (80 bp):
CGCTTTTCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTACCAAAAACGCCGCTAAAGC
CCAAAGCATTAGCAA
Found at i:12867941 original size:122 final size:120
Alignment explanation
Indices: 12867718--12868041 Score: 296
Period size: 122 Copynumber: 2.6 Consensus size: 120
12867708 TAAAATGTTT
* * * * *
12867718 TTAGCGGCGCTTTTA-AAAAAGCGCCACTAAAGACCCCAGCATTAGCGGCGCTTATCCAGAACGC
1 TTAGCGGCGC-TTTACAAAAA-CGCCGCTAAAG-CCCCAGCATTAGCGACGCTTTTCAAAAACGC
* * *
12867782 CGCTAAAGGCCAAAGCATTAGCGGTACTTTACCAAAAATGCCGCTAAAGGCCAC-AA-CA
63 CGCTAAAGCCCAAAGCATTAGCGGCACTTTACCAAAAACGCCGCTAAA-GCC-CTAACCA
* *
12867840 TTAGCGGCGCTTTACCAAAAACGCCGCTAAAGCCCACAGCATTAGCAACGCTTTTCAAAAACGCT
1 TTAGCGGCGCTTTA-CAAAAACGCCGCTAAAGCCC-CAGCATTAGCGACGCTTTTCAAAAACGCC
** * * *
12867905 GCTAAAGCCCCCAGCATTAGCGGCGC-TTCCCTAAAAACGCCGTTAAAGCCCTAACCA
64 GCTAAAGCCCAAAGCATTAGCGGCACTTTACC-AAAAACGCCGCTAAAGCCCTAACCA
* * * * * * ** *
12867962 TTAGCGGCACTTCTTCAAAAATGCCGCTATAGCCCTGAGCACTAGCGACGCTTTTTTGAAATCGC
1 TTAGCGGCGCTT-TACAAAAACGCCGCTAAAGCCC-CAGCATTAGCGACGC-TTTTCAAAAACGC
12868027 CGCTAAAGACCCAAA
63 CGCTAAAG-CCCAAA
12868042 AGGTAAGAAA
Statistics
Matches: 164, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
120 1 0.01
121 16 0.10
122 120 0.73
123 23 0.14
124 4 0.02
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (120 bp):
TTAGCGGCGCTTTACAAAAACGCCGCTAAAGCCCCAGCATTAGCGACGCTTTTCAAAAACGCCGC
TAAAGCCCAAAGCATTAGCGGCACTTTACCAAAAACGCCGCTAAAGCCCTAACCA
Found at i:12867996 original size:41 final size:39
Alignment explanation
Indices: 12867718--12868015 Score: 240
Period size: 41 Copynumber: 7.3 Consensus size: 39
12867708 TAAAATGTTT
** * *
12867718 TTAGCGGCGCTTTTAAAAAAGCGCCACTAAAGACCCCAGCA
1 TTAGCGGCGCTTTCCAAAAA-CGCCGCTAAAG-CCCAAGCA
* *
12867759 TTAGCGGCGCTTATCC-AGAACGCCGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTT-TCCAAAAACGCCGCTAAA-GCCCAAGCA
** *
12867799 TTAGCGGTACTTTACCAAAAATGCCGCTAAAGGCCACAA-CA
1 TTAGCGGCGCTTT-CCAAAAACGCCGCTAAA-GCC-CAAGCA
12867840 TTAGCGGCGCTTTACCAAAAACGCCGCTAAAGCCCACAGCA
1 TTAGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCA-AGCA
** * * *
12867881 TTAGCAACGCTTTTCAAAAACGCTGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTCCAAAAACGCCGCTAAAG-CCCAAGCA
* * *
12867921 TTAGCGGCGCTTCCCTAAAAACGCCGTTAAAGCCCTAACCA
1 TTAGCGGCGCTTTCC-AAAAACGCCGCTAAAGCCC-AAGCA
* * * * *
12867962 TTAGCGGCACTTCTTCAAAAATGCCGCTATAGCCCTGAGCA
1 TTAGCGGCGCTT-TCCAAAAACGCCGCTAAAGCCC-AAGCA
* *
12868003 CTAGCGACGCTTT
1 TTAGCGGCGCTTT
12868016 TTTGAAATCG
Statistics
Matches: 208, Mismatches: 38, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.01
40 66 0.32
41 135 0.65
42 4 0.02
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (39 bp):
TTAGCGGCGCTTTCCAAAAACGCCGCTAAAGCCCAAGCA
Found at i:12868127 original size:40 final size:41
Alignment explanation
Indices: 12868083--12868169 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 41
12868073 TTTTTGCGGT
12868083 GTTTTTCTTAAAAGCACCGCTAATGCT-CTTTTTTAGCGAC
1 GTTTTTCTTAAAAGCACCGCTAATGCTCCTTTTTTAGCGAC
* * * *
12868123 GTTTTTTTTAAAATCGCCGCTAATGCTCCTTTTTTAGCGGC
1 GTTTTTCTTAAAAGCACCGCTAATGCTCCTTTTTTAGCGAC
12868164 GTTTTT
1 GTTTTT
12868170 AAAAAAACGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 24 0.57
41 18 0.43
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (41 bp):
GTTTTTCTTAAAAGCACCGCTAATGCTCCTTTTTTAGCGAC
Found at i:12868210 original size:41 final size:40
Alignment explanation
Indices: 12868072--12868210 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
12868062 TGGGCTTTGG
* * *
12868072 TTTTTT-GCG-GTGTTTTTCTTAAAAGCACCGCTAATGCTC
1 TTTTTTAGCGAGTGTTTTT-TAAAAAACGCCGCTAATGCTC
* *
12868111 TTTTTTAGCGACGT-TTTTTTTAAAATCGCCGCTAATGCTCC
1 TTTTTTAGCGA-GTGTTTTTTAAAAAACGCCGCTAATGCT-C
* * *
12868152 TTTTTTAGCG-GCGTTTTTAAAAAAACGCTGCTAATGCTC
1 TTTTTTAGCGAGTGTTTTTTAAAAAACGCCGCTAATGCTC
*
12868191 AATTTTT-GCGAGTGTTTTTT
1 -TTTTTTAGCGAGTGTTTTTT
12868211 GTCCAAACGC
Statistics
Matches: 83, Mismatches: 10, Indels: 13
0.78 0.09 0.12
Matches are distributed among these distances:
39 11 0.13
40 54 0.65
41 16 0.19
42 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (40 bp):
TTTTTTAGCGAGTGTTTTTTAAAAAACGCCGCTAATGCTC
Found at i:12868780 original size:9 final size:10
Alignment explanation
Indices: 12868742--12868778 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
12868732 AATAGACATG
12868742 AAAATAAAT-
1 AAAATAAATA
12868751 AAAATGAAATA
1 AAAAT-AAATA
12868762 AAAATAAATA
1 AAAATAAATA
12868772 AAAATAA
1 AAAATAA
12868779 TACTAGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 5 0.19
10 16 0.62
11 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:12869531 original size:33 final size:32
Alignment explanation
Indices: 12869493--12869571 Score: 122
Period size: 32 Copynumber: 2.4 Consensus size: 32
12869483 AGATTAAAGC
12869493 TTTTATTTTGAAATAGTTGAAAAAAAATCAAAA
1 TTTTATTTTGAAATAGTT-AAAAAAAATCAAAA
*
12869526 TTTTATTTCGAAATAGTTAAAAAAAATCAAAA
1 TTTTATTTTGAAATAGTTAAAAAAAATCAAAA
* *
12869558 TTTTGTTTTAAAAT
1 TTTTATTTTGAAAT
12869572 TTTAAACTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.41
Consensus pattern (32 bp):
TTTTATTTTGAAATAGTTAAAAAAAATCAAAA
Found at i:12869836 original size:151 final size:149
Alignment explanation
Indices: 12869526--12869948 Score: 615
Period size: 151 Copynumber: 2.8 Consensus size: 149
12869516 AAAATCAAAA
12869526 TTTTATTTCGAAATAGTT-AAAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTTAA
1 TTTTATTT-GAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTTCC-TTTAA
* * * *
12869590 AATTACTTAAAAAAACATATTTTTATTTTCCAAAATCTAAACTTTCTC-TTTT-AAAAAAAACAC
64 AATAAC-TAAAAAAAAATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAAAC
*
12869653 TATTTTTCTTAAAGATTAAAGC
128 TATTTTTCCTAAAGATTAAAGC
* **
12869675 TTTTATTTTGAAATAGTTGAAAAAAAATAAAAAAATTGTTTTAAAATTTTAAACTTTCCTTTAAA
1 TTTTA-TTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTAAA
* *
12869740 ATGACTAAAAAACAAAT-TTTTTATTTTTCAAAAACTAAACTTTCTCCTTTTTAAAAAAAAAAAC
65 ATAACTAAAAAA-AAATATTTTTATTTTTCAAAATCTAAACTTTCT-CTTTTTAAAAAAAAAAAC
12869804 TATTTTTCCTAAAGATTAAAGC
128 TATTTTTCCTAAAGATTAAAGC
*
12869826 TTTTACTTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTTAAAATTTTGAACTTTCCTTTAA
1 TTTTA-TTTGAAATAGTTGAAAAAAAATCAAAATTTTG-TTTTAAAATTTTAAACTTTCCTTTAA
*
12869891 AATAACT-AAAAAAAATATTTTTATTTGTT-AAAATCTAAACTTTCTCTTATTAAAAAAA
64 AATAACTAAAAAAAAATATTTTTATTT-TTCAAAATCTAAACTTTCTCTTTTTAAAAAAA
12869949 TCAAAATTTT
Statistics
Matches: 248, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
148 33 0.13
149 28 0.11
150 60 0.24
151 94 0.38
152 33 0.13
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (149 bp):
TTTTATTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTAAAA
TAACTAAAAAAAAATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTAAAAAAAAAAACTAT
TTTTCCTAAAGATTAAAGC
Found at i:12870778 original size:42 final size:42
Alignment explanation
Indices: 12870719--12870973 Score: 330
Period size: 42 Copynumber: 6.1 Consensus size: 42
12870709 AAGTAAACTA
*
12870719 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* * * * * *
12870761 GAAAAGTCAATAGACCTCTACACTTAGGTCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* * * *
12870803 GAAAAGTGAATGGACCTCAATACCTGGGCCTCTAAATACAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* * * *
12870845 GAAAAGTAAATGGATCTCCACAGCTGGGTCTTTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* **
12870887 GAAAAGTAAATGAACCTCCACATTTGGGCCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
* *
12870929 GAAAAGTAAATGGACCTCCGCACCTAGGCCTCTAAATGCAAT
1 GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
12870971 GAA
1 GAA
12870974 TGTTCTCCTT
Statistics
Matches: 181, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 181 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
GAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
Found at i:12870944 original size:126 final size:126
Alignment explanation
Indices: 12870719--12870973 Score: 368
Period size: 126 Copynumber: 2.0 Consensus size: 126
12870709 AAGTAAACTA
* *
12870719 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTCAATAGACCTCTACAC
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTAAATAGACCTCCACAC
* * * *
12870784 TTAGGTCTCTAAATGCAATGAAAAGTGAATGGACCTCAATACCTGGGCCTCTAAATACAAT
66 TTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCAACACCTAGGCCTCTAAATACAAT
* * *
12870845 GAAAAGTAAATGGATCTCCACAGCTGGGTCTTTAAATGCAATGAAAAGTAAAT-GAACCTCCACA
1 GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTAAATAG-ACCTCCACA
* * ** *
12870909 TTTGGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCGCACCTAGGCCTCTAAATGCAAT
65 CTTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCAACACCTAGGCCTCTAAATACAAT
12870971 GAA
1 GAA
12870974 TGTTCTCCTT
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
125 1 0.01
126 113 0.99
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (126 bp):
GAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTAAATAGACCTCCACAC
TTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCAACACCTAGGCCTCTAAATACAAT
Found at i:12871393 original size:17 final size:17
Alignment explanation
Indices: 12871371--12871403 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12871361 TTGCTCTCTT
12871371 TTTATTTTTTTGGTTTC
1 TTTATTTTTTTGGTTTC
*
12871388 TTTATTTTTTTTGTTT
1 TTTATTTTTTTGGTTT
12871404 TTTCTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTATTTTTTTGGTTTC
Found at i:12871986 original size:34 final size:34
Alignment explanation
Indices: 12871938--12872014 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 34
12871928 CTCTCAATCA
12871938 CTTTTCTTTGTTCTTACTC-C-TT-CCTATTTCCTTT
1 CTTTT-TTTGTTCTTACTCACTTTCCCTATTT--TTT
*
12871972 CTTTTTTTGCTTCTTATTCACTTTCCCTATTTTTT
1 CTTTTTTTG-TTCTTACTCACTTTCCCTATTTTTT
12872007 CTTTTTTT
1 CTTTTTTT
12872015 TCTTTTTTCG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
33 4 0.11
34 13 0.34
35 12 0.32
36 2 0.05
37 7 0.18
ACGTcount: A:0.06, C:0.25, G:0.03, T:0.66
Consensus pattern (34 bp):
CTTTTTTTGTTCTTACTCACTTTCCCTATTTTTT
Found at i:12883602 original size:11 final size:11
Alignment explanation
Indices: 12883586--12883611 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12883576 CCTATACAAT
12883586 ATTTAAAACTA
1 ATTTAAAACTA
12883597 ATTTAAAACTA
1 ATTTAAAACTA
12883608 ATTT
1 ATTT
12883612 TAATCTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTTAAAACTA
Found at i:12884705 original size:146 final size:147
Alignment explanation
Indices: 12884555--12885029 Score: 449
Period size: 146 Copynumber: 3.2 Consensus size: 147
12884545 CAGTGGCCGA
*
12884555 ATTTTTTTTTTGTTGCAAAATC-AAAGTTTT-T-TTAGAAAAAATCATTAATTTTT-TGAAA-AT
1 ATTTTTTTTTT-TT-CAAAATCTAAA-TTTTCTCTT-GAAAAAA-CACT-ATTTTTCTGAAAGAT
12884615 CAAA-ATTTTATTTCGAAATAGTT-AAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCC
60 CAAAGATTTTATTTCGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCC
* *
12884678 TTTAAAATGGCTTAAAAAAACAT
125 TTTAAAATGACTAAAAAAAACAT
* * * * *
12884701 A-TTTTTATTTTTCAAAATCTAAATTTTCTCTTTAAAAAACACTATTTTTCTTAAAGATTAAAGC
1 ATTTTTTTTTTTTCAAAATCTAAATTTTCTCTTGAAAAAACACTATTTTTCTGAAAGATCAAAGA
* * *
12884765 TTTTATTTTGAAGTAGTTGAAAAGAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAA
66 TTTTATTTCGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAA
*
12884830 ATTACTAAAAAAAACAT
131 ATGACTAAAAAAAACAT
* * * * * *
12884847 A-TTTTTATTTTTCAAAAACTAAACTTTCTCCTTTTTTTGAAAAAAAATACTATTTTTCTTAAAA
1 ATTTTTTTTTTTTCAAAATCTAAA-TTT-T-C---TCTTG--AAAAAACACTATTTTTCTGAAAG
* * ** * *
12884911 ATTAAAGCTTTTACTTT-GAAATAGTTGAAAAAAATAAAAAAAC--TGTTTTAAAATTTTAAATT
58 ATCAAAGATTTTA-TTTCGAAATAGTTGAAAAAAA-ATCAAAACTTTATTTTAAAATTTTAAACT
*
12884973 TTCCTTTAAAATAACTAAAAAAAA-A-
121 TTCCTTTAAAATGACTAAAAAAAACAT
* * *
12884998 ATTTTTATTTGTT-AAAATCTAAACTTTCTCTT
1 ATTTTTTTTTTTTCAAAATCTAAATTTTCTCTT
12885030 TTAAAAAAAA
Statistics
Matches: 281, Mismatches: 30, Indels: 37
0.81 0.09 0.11
Matches are distributed among these distances:
142 6 0.02
143 18 0.06
144 17 0.06
145 29 0.10
146 82 0.29
147 3 0.01
148 2 0.01
149 2 0.01
150 2 0.01
151 10 0.04
152 12 0.04
153 40 0.14
154 49 0.17
155 9 0.03
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (147 bp):
ATTTTTTTTTTTTCAAAATCTAAATTTTCTCTTGAAAAAACACTATTTTTCTGAAAGATCAAAGA
TTTTATTTCGAAATAGTTGAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAA
ATGACTAAAAAAAACAT
Found at i:12884820 original size:20 final size:20
Alignment explanation
Indices: 12884795--12884832 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12884785 AAAGAAATCA
*
12884795 AAACTTTATTTTAAAATTTT
1 AAACTTTACTTTAAAATTTT
*
12884815 AAACTTTCCTTTAAAATT
1 AAACTTTACTTTAAAATT
12884833 ACTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTACTTTAAAATTTT
Found at i:12884994 original size:154 final size:148
Alignment explanation
Indices: 12884620--12885031 Score: 550
Period size: 146 Copynumber: 2.8 Consensus size: 148
12884610 AAAATCAAAA
*
12884620 TTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAA
1 TTTTATTT-GAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAA
** * *
12884685 TGGCTTAAAAAAACATATTTTTATTTTTCAAAATCTAAA-TTT-TC--TCTTTAAAAAACACTAT
65 TAACTAAAAAAAACATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAACACTAT
*
12884746 TTTTCTTAAAGATTAAAGC
130 TTTTCTTAAAAATTAAAGC
*
12884765 TTTTATTTTGAAGTAGTTGAAAAGAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAA
1 TTTTA-TTTGAAATAGTTGAAAA-AAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAA
* * *
12884830 ATTACTAAAAAAAACATATTTTTATTTTTCAAAAACTAAACTTTCTCCTTTTTTTGAAAAAAAAT
64 ATAACTAAAAAAAACATATTTTTATTTTTCAAAATCTAAACTTTCT-CTTTTTTT---AAAAAAC
12884895 ACTATTTTTCTTAAAAATTAAAGC
125 ACTATTTTTCTTAAAAATTAAAGC
* *** * *
12884919 TTTTACTTTGAAATAGTTGAAAAAAATAAAAAAACTGTTTTAAAATTTTAAATTTTCCTTTAAAA
1 TTTTA-TTTGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAA
12884984 TAACTAAAAAAAA-A-ATTTTTATTTGTT-AAAATCTAAACTTTCTCTTTT
65 TAACTAAAAAAAACATATTTTTATTT-TTCAAAATCTAAACTTTCTCTTTT
12885032 AAAAAAAATC
Statistics
Matches: 237, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
145 17 0.07
146 80 0.34
147 3 0.01
148 1 0.00
149 1 0.00
150 5 0.02
151 29 0.12
152 3 0.01
153 48 0.20
154 50 0.21
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (148 bp):
TTTTATTTGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAAT
AACTAAAAAAAACATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAACACTATT
TTTCTTAAAAATTAAAGC
Found at i:12886076 original size:20 final size:18
Alignment explanation
Indices: 12886029--12886077 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
12886019 CATGATAAAA
12886029 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
12886046 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
12886066 ATTAAATTAATA
1 ATTAAATTAATA
12886078 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:12888016 original size:25 final size:25
Alignment explanation
Indices: 12887893--12888020 Score: 84
Period size: 25 Copynumber: 5.1 Consensus size: 25
12887883 GTACATTTAT
* *
12887893 GCTCATACGAGCTATAAATCGGTAT
1 GCTCATATGAGCTATAAATCGGTAA
* ** *
12887918 GCTC-TCACGAGCCGTAAATCGGTCA
1 GCTCAT-ATGAGCTATAAATCGGTAA
* * *
12887943 GCTCATATGAGCT-TGGACTCGATAA
1 GCTCATATGAGCTAT-AAATCGGTAA
* *
12887968 GCTCATATGAGCTGA-GAATTGGTAA
1 GCTCATATGAGCT-ATAAATCGGTAA
*
12887993 GCTC-TCATGAGCTACAAATCGGTAA
1 GCTCAT-ATGAGCTATAAATCGGTAA
12888018 GCT
1 GCT
12888021 TTTACGATCT
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
24 4 0.05
25 76 0.94
26 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
GCTCATATGAGCTATAAATCGGTAA
Found at i:12889746 original size:19 final size:18
Alignment explanation
Indices: 12889702--12889748 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
12889692 TATTCTTCTC
12889702 TTCCTTTCTATTTTTATTT
1 TTCCTTT-TATTTTTATTT
12889721 TTACCTTTTATTATTT-TGTT
1 TT-CCTTTTATT-TTTAT-TT
12889741 TTCCTTTT
1 TTCCTTTT
12889749 GACTGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (18 bp):
TTCCTTTTATTTTTATTT
Found at i:12890867 original size:26 final size:26
Alignment explanation
Indices: 12890838--12890892 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
12890828 TTTGCCACAT
12890838 ATACTGTTACTGGCAGCTTCGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
* * *
12890864 ATACTTTTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
12890890 ATA
1 ATA
12890893 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTCGCTGCG
Found at i:12891018 original size:28 final size:28
Alignment explanation
Indices: 12890986--12891128 Score: 259
Period size: 28 Copynumber: 5.1 Consensus size: 28
12890976 GGTTGTGTTA
12890986 CCACACTGTTACTGTATTGGGCTAAGGC
1 CCACACTGTTACTGTATTGGGCTAAGGC
12891014 CCACACTGTTACTGTATTGGGCTAAGGC
1 CCACACTGTTACTGTATTGGGCTAAGGC
12891042 CCACACTGTTACTGTATTGGGCTAAGGC
1 CCACACTGTTACTGTATTGGGCTAAGGC
* *
12891070 CCATACTGTTACTGTATCGGGCTAAGGC
1 CCACACTGTTACTGTATTGGGCTAAGGC
*
12891098 CCACACTGTTACTGTATCGGGCTAAGGC
1 CCACACTGTTACTGTATTGGGCTAAGGC
12891126 CCA
1 CCA
12891129 TACAGTACTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 112 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (28 bp):
CCACACTGTTACTGTATTGGGCTAAGGC
Found at i:12896017 original size:7 final size:7
Alignment explanation
Indices: 12896007--12896061 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
12895997 TTAATAGTTT
12896007 AATTTTA
1 AATTTTA
12896014 AATTTTA
1 AATTTTA
12896021 AATTTTA
1 AATTTTA
12896028 AATTTTA
1 AATTTTA
12896035 AATTTTA
1 AATTTTA
12896042 AATTTTA
1 AATTTTA
12896049 AATTTTA
1 AATTTTA
12896056 AATTTT
1 AATTTT
12896062 CTTACTTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:12898026 original size:25 final size:23
Alignment explanation
Indices: 12897998--12898045 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12897988 TTTAGTACTT
12897998 CTCTTTTACTTGTAATGATATTTCA
1 CTCTTTTAC-T-TAATGATATTTCA
* *
12898023 CTCTTTTGCTTAATGTTATTTCA
1 CTCTTTTACTTAATGATATTTCA
12898046 GTTTTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 1 0.05
25 8 0.38
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.54
Consensus pattern (23 bp):
CTCTTTTACTTAATGATATTTCA
Found at i:12911489 original size:17 final size:17
Alignment explanation
Indices: 12911467--12911504 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12911457 AGTTATGTTA
12911467 TATGAAAGATCAAGAGT
1 TATGAAAGATCAAGAGT
* *
12911484 TATGAAGGGTCAAGAGT
1 TATGAAAGATCAAGAGT
12911501 TATG
1 TATG
12911505 TTGTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.26
Consensus pattern (17 bp):
TATGAAAGATCAAGAGT
Found at i:12911760 original size:48 final size:48
Alignment explanation
Indices: 12911707--12911803 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
12911697 TGCCGAGAGG
12911707 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
1 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
*
12911755 ATTTTTAAAAATGAAAATAACACTTGGGATTAATCATCAGTGAACAGA
1 ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
12911803 A
1 A
12911804 GGGACAATCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.28
Consensus pattern (48 bp):
ATTTTTAAAAATGAAAATAACACTTGGGATCAATCATCAGTGAACAGA
Found at i:12915756 original size:58 final size:58
Alignment explanation
Indices: 12915692--12915807 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
12915682 GTAAGCTATT
*
12915692 CCTTGAAACAATTTTATGATATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
1 CCTTGAAACAATTTTATGAGATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
* *
12915750 CCTTGAAACAATTTTATGAGATGTGAATTTGAATTGAATGATCACTAGTGACAATGTA
1 CCTTGAAACAATTTTATGAGATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
12915808 TTAAATTGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (58 bp):
CCTTGAAACAATTTTATGAGATGCGAATTTAAATTGAATGATCACTAGTGACAATGTA
Found at i:12918347 original size:40 final size:39
Alignment explanation
Indices: 12918289--12918427 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 39
12918279 ACACACCAGT
12918289 TTGACACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAA
1 TTGACACCCAGTGCCTCATCGGATAA-TCGAAGTAGTAAA
** * * * *
12918329 TTGACACTTAGTGTCTCATCGGTTAAACCAA--AGTAAA
1 TTGACACCCAGTGCCTCATCGGATAATCGAAGTAGTAAA
* * * * *
12918366 TTGGCACCTAGTGCCTCATTGAATAAATCTGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCGGAT-AATC-GAAGTAGTAAA
*
12918407 TTGACACCCAGTGTCTCATCG
1 TTGACACCCAGTGCCTCATCG
12918428 ACTCAAAGTT
Statistics
Matches: 76, Mismatches: 19, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
37 24 0.32
38 3 0.04
39 5 0.07
40 22 0.29
41 22 0.29
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (39 bp):
TTGACACCCAGTGCCTCATCGGATAATCGAAGTAGTAAA
Found at i:12919260 original size:4 final size:4
Alignment explanation
Indices: 12919251--12919319 Score: 56
Period size: 4 Copynumber: 17.2 Consensus size: 4
12919241 CTTGTCTTTC
*
12919251 TCTT TCTT TCTT TCCCT T-TT TC-T T-TT TCTT TCTT TC-T TCTT TCTGTT
1 TCTT TCTT TCTT T-CTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC--TT
*
12919298 TCGTT TCTA TCTT TCTT TCTT T
1 TC-TT TCTT TCTT TCTT TCTT T
12919320 TTATTACTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 9 0.17
4 33 0.61
5 8 0.15
6 4 0.07
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:12919304 original size:22 final size:21
Alignment explanation
Indices: 12919245--12919317 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
12919235 CCTAGCCTTG
12919245 TCTTTCTCTTTCTTTCTTTCCCT
1 TCTTTCTCTTTCTTTCTTT--CT
*
12919268 T-TTTCTTTTTCTTTCTTTCT
1 TCTTTCTCTTTCTTTCTTTCT
* *
12919288 TCTTTCTGTTTCGTTTCTATCTT
1 TCTTTCTCTTTC-TTTCTTTC-T
12919311 TCTTTCT
1 TCTTTCT
12919318 TTTTATTACT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.07
21 9 0.20
22 23 0.52
23 9 0.20
ACGTcount: A:0.01, C:0.26, G:0.03, T:0.70
Consensus pattern (21 bp):
TCTTTCTCTTTCTTTCTTTCT
Found at i:12923048 original size:68 final size:68
Alignment explanation
Indices: 12922939--12923080 Score: 266
Period size: 68 Copynumber: 2.1 Consensus size: 68
12922929 ATTCAGGCTT
12922939 GATATACGTAATCATATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
1 GATATACGTAATCATATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
12923004 TCA
66 TCA
**
12923007 GATATACGTAATTGTATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
1 GATATACGTAATCATATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
12923072 TCA
66 TCA
12923075 GATATA
1 GATATA
12923081 AACAATGTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (68 bp):
GATATACGTAATCATATAACAGTTTACATTTCAATCCATTTTATCACCAATTCAATCGTAATATT
TCA
Found at i:12926594 original size:17 final size:16
Alignment explanation
Indices: 12926562--12926592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12926552 AGCCGTTAAC
*
12926562 CGAAATTTCAAAAAAT
1 CGAAATTCCAAAAAAT
12926578 CGAAATTCCAAAAAA
1 CGAAATTCCAAAAAA
12926593 ATTTTAATCG
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:0.58, C:0.16, G:0.06, T:0.19
Consensus pattern (16 bp):
CGAAATTCCAAAAAAT
Found at i:12928160 original size:96 final size:97
Alignment explanation
Indices: 12928051--12928286 Score: 323
Period size: 96 Copynumber: 2.4 Consensus size: 97
12928041 TGTTTATTAT
* * * *
12928051 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGTTTACTTGAGTAATTTAA-T-TAATTTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGACTAAATTAATTATAATTTTTT
* *
12928114 TAAAAAAATTAGATTAGGGTTTAGTGTTAAGGG
66 T-AAAAAATTAGATTAGGGTTTAGAGTTAAGAG
*
12928147 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGACTAAATTAATTATAATTTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGACTAAATTAATTATAATTTTTT
* * *
12928212 TATAAAATTAGGTTAGGGTTTAGAGTTTAGAG
66 TAAAAAATTAGATTAGGGTTTAGAGTTAAGAG
* * *
12928244 TTTTTAAGTAAAAACTCAAATAAGTTAAGGTTTAGGGTTACTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTT
12928287 AAATTATTTG
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
96 48 0.39
97 35 0.28
98 40 0.33
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (97 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGACTAAATTAATTATAATTTTTT
TAAAAAATTAGATTAGGGTTTAGAGTTAAGAG
Found at i:12931719 original size:32 final size:28
Alignment explanation
Indices: 12931646--12931726 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
12931636 CCTTATTTAA
* *
12931646 AAGAATTTCTATTATATTAAAAATGTAT
1 AAGAATTTCTATTATATTAAAAATATAG
12931674 AAGTAAATTTCTATTAGTATATGAAATAATATAG
1 AAG--AATTTCTATTA-TAT-T-AAA-AATATAG
*
12931708 AAGAATTTCTATTTTATTA
1 AAGAATTTCTATTATATTA
12931727 CATCAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
28 3 0.07
29 1 0.02
30 12 0.27
31 6 0.14
32 11 0.25
33 3 0.07
34 8 0.18
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
AAGAATTTCTATTATATTAAAAATATAG
Found at i:12931881 original size:21 final size:21
Alignment explanation
Indices: 12931851--12931890 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12931841 TTGTCCAGCT
* *
12931851 TCTGGTGGGGGTTATGGTTGC
1 TCTGGCGGGGATTATGGTTGC
*
12931872 TCTGGCGGGGATTCTGGTT
1 TCTGGCGGGGATTATGGTT
12931891 CCTCCGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.12, G:0.45, T:0.38
Consensus pattern (21 bp):
TCTGGCGGGGATTATGGTTGC
Found at i:12932155 original size:18 final size:18
Alignment explanation
Indices: 12932129--12932171 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12932119 GACTAGAAAA
* *
12932129 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
12932147 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
12932165 AGGATAC
1 AGGATAC
12932172 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:12934030 original size:12 final size:10
Alignment explanation
Indices: 12933983--12934042 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 10
12933973 TCTTTTAAAT
12933983 AGAAATTTGAG
1 AGAAA-TTGAG
*
12933994 AGGAACTTGAG
1 A-GAAATTGAG
*
12934005 AGGAATTTGAG
1 A-GAAATTGAG
12934016 AGAATATTAGAG
1 AGAA-ATT-GAG
12934028 AGAAATTGAG
1 AGAAATTGAG
12934038 AGAAA
1 AGAAA
12934043 GGATTTAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 11 0.26
11 22 0.51
12 10 0.23
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.22
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:12938600 original size:120 final size:120
Alignment explanation
Indices: 12938469--12938997 Score: 893
Period size: 120 Copynumber: 4.4 Consensus size: 120
12938459 CAAACTTTAG
12938469 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
12938534 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
*
12938589 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
12938654 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
*
12938709 ATTAAATTATATATTTTTATTAAATTATA-TT--TAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
12938771 TTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
* *
12938826 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
* * * * * *
12938891 TCATATATTATTATTTTAGTAAATTCAGATAAAAATATTGATTATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
* *
12938946 ATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTTAAAT
12938998 ATGATTAAAT
Statistics
Matches: 388, Mismatches: 17, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
117 111 0.29
118 2 0.01
119 2 0.01
120 268 0.69
121 5 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
Found at i:12938606 original size:18 final size:18
Alignment explanation
Indices: 12938585--12938738 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
12938575 ATATTAAGAA
12938585 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
12938603 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
12938618 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
12938633 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
12938652 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
12938667 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
12938686 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
12938705 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
12938723 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
12938739 TTAATAATTA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:12938890 original size:237 final size:237
Alignment explanation
Indices: 12938469--12938983 Score: 868
Period size: 237 Copynumber: 2.2 Consensus size: 237
12938459 CAAACTTTAG
*
12938469 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATA-TT--TAATAATTATGTTAAATTATATTTTATAGTA
**
12938534 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
63 TTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
* * *
12938599 ATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTA
128 ATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTA
* * * *
12938664 TGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTT
193 TGATTTTAGTAAATTCAGATAAAAATATTGAATATTAAGAATTTT
12938709 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
12938774 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* *
12938839 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTATCATATATTATTA
131 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTATGA
*
12938904 TTTTAGTAAATTCAGATAAAAATATTGATTATTAAGAATTTT
196 TTTTAGTAAATTCAGATAAAAATATTGAATATTAAGAATTTT
* *
12938946 ATTAAATTATATATTTTAATTAAAATATATTTAATAAT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAAT
12938984 AATTATGTTT
Statistics
Matches: 260, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
237 229 0.88
239 2 0.01
240 29 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (237 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTATGA
TTTTAGTAAATTCAGATAAAAATATTGAATATTAAGAATTTT
Found at i:12938969 original size:18 final size:17
Alignment explanation
Indices: 12938941--12938975 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12938931 ATTATTAAGA
*
12938941 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12938958 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12938976 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12941339 original size:28 final size:28
Alignment explanation
Indices: 12941299--12941358 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
12941289 GGGAAATCCA
12941299 TTTGCAAACAATGATGGTTTTGTACACC
1 TTTGCAAACAATGATGGTTTTGTACACC
12941327 TTTGCAAACAATGATGGTTTTGTACACC
1 TTTGCAAACAATGATGGTTTTGTACACC
12941355 TTTG
1 TTTG
12941359 GCATGGGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (28 bp):
TTTGCAAACAATGATGGTTTTGTACACC
Found at i:12949734 original size:23 final size:23
Alignment explanation
Indices: 12949706--12949870 Score: 150
Period size: 23 Copynumber: 7.2 Consensus size: 23
12949696 TTTAGGAGTT
* * *
12949706 ACAGAATATACCATAAAGGCTTC
1 ACAGAATATGCCACAAAGGCTCC
* * *
12949729 ATAGAATAGGCCACAAAGGCTCT
1 ACAGAATATGCCACAAAGGCTCC
*
12949752 ACAGAATATGCCACAAAGTCTCC
1 ACAGAATATGCCACAAAGGCTCC
* *
12949775 ACAGAATATGCCATAAATGCTCC
1 ACAGAATATGCCACAAAGGCTCC
* * *
12949798 ACAGAATACGCCACAAATGCTCT
1 ACAGAATATGCCACAAAGGCTCC
* *** *
12949821 ACAAAATACATCACAAAGGCTTC
1 ACAGAATATGCCACAAAGGCTCC
** *
12949844 ACAGAATGCGCCACAAAGGCTTC
1 ACAGAATATGCCACAAAGGCTCC
12949867 ACAG
1 ACAG
12949871 GTAACTTGCC
Statistics
Matches: 116, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 116 1.00
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.18
Consensus pattern (23 bp):
ACAGAATATGCCACAAAGGCTCC
Found at i:12949836 original size:69 final size:69
Alignment explanation
Indices: 12949706--12949850 Score: 182
Period size: 69 Copynumber: 2.1 Consensus size: 69
12949696 TTTAGGAGTT
* * * * ** *
12949706 ACAGAATATACCATAAAGGCTTCATAGAATAGGCCACAAAGGCTCTACAGAATATGCCACAAAGT
1 ACAGAATATACCATAAAGGCTCCACAGAATACGCCACAAAGGCTCTACAAAATACACCACAAAGG
12949771 CTCC
66 CTCC
* * * *
12949775 ACAGAATATGCCATAAATGCTCCACAGAATACGCCACAAATGCTCTACAAAATACATCACAAAGG
1 ACAGAATATACCATAAAGGCTCCACAGAATACGCCACAAAGGCTCTACAAAATACACCACAAAGG
*
12949840 CTTC
66 CTCC
12949844 ACAGAAT
1 ACAGAAT
12949851 GCGCCACAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.19
Consensus pattern (69 bp):
ACAGAATATACCATAAAGGCTCCACAGAATACGCCACAAAGGCTCTACAAAATACACCACAAAGG
CTCC
Found at i:12949870 original size:69 final size:69
Alignment explanation
Indices: 12949706--12949870 Score: 177
Period size: 69 Copynumber: 2.4 Consensus size: 69
12949696 TTTAGGAGTT
** * * * * ** *
12949706 ACAGAATATACCATAAAGGCTTCATAGAATAGGCCACAAAGGCTCTACAGAATATGCCACAAAGT
1 ACAGAATACGCCACAAAGGCTTCACAGAATACGCCACAAAGGCTCTACAAAATACACCACAAAGG
12949771 CTCC
66 CTCC
* * * * * *
12949775 ACAGAATATGCCATAAATGCTCCACAGAATACGCCACAAATGCTCTACAAAATACATCACAAAGG
1 ACAGAATACGCCACAAAGGCTTCACAGAATACGCCACAAAGGCTCTACAAAATACACCACAAAGG
*
12949840 CTTC
66 CTCC
*
12949844 ACAGAATGCGCCACAAAGGCTTCACAG
1 ACAGAATACGCCACAAAGGCTTCACAG
12949871 GTAACTTGCC
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 79 1.00
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.18
Consensus pattern (69 bp):
ACAGAATACGCCACAAAGGCTTCACAGAATACGCCACAAAGGCTCTACAAAATACACCACAAAGG
CTCC
Found at i:12953002 original size:15 final size:15
Alignment explanation
Indices: 12952982--12953011 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12952972 CAACCTAGAG
12952982 TCAGTTATTCTTACT
1 TCAGTTATTCTTACT
12952997 TCAGTTATTCTTACT
1 TCAGTTATTCTTACT
12953012 CTCGAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (15 bp):
TCAGTTATTCTTACT
Found at i:12961035 original size:24 final size:26
Alignment explanation
Indices: 12961008--12961070 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 26
12960998 TATTTTTATG
*
12961008 TTTATTTTTTATTTTTTAAACT-TA-
1 TTTATTTTTTATCTTTTAAACTATAT
* *
12961032 TTTAGTTTTTATCTTTTGAACTATATT
1 TTTATTTTTTATCTTTTAAACTATA-T
12961059 TTTATTTTTTAT
1 TTTATTTTTTAT
12961071 GGTTTTTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 19 0.59
25 2 0.06
27 11 0.34
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTATTTTTTATCTTTTAAACTATAT
Found at i:12961042 original size:7 final size:6
Alignment explanation
Indices: 12960989--12961023 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
12960979 AGTTTATTTG
*
12960989 TTTTAT TTTTAT TTTTAT GTTTATT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT
12961024 TAAACTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:12961068 original size:20 final size:20
Alignment explanation
Indices: 12960992--12961068 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 20
12960982 TTATTTGTTT
**
12960992 TATTTTTATTTTTATG-TTTA
1 TATTTTTATTTTT-TGAACTA
*
12961012 T-TTTTTATTTTTTAAACTTA
1 TATTTTTATTTTTTGAAC-TA
*
12961032 TTTAGTTTTTATCTTTTGAACTA
1 --TA-TTTTTATTTTTTGAACTA
12961055 TATTTTTATTTTTT
1 TATTTTTATTTTTT
12961069 ATGGTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
18 1 0.02
19 11 0.24
20 14 0.31
21 2 0.04
22 1 0.02
23 2 0.04
24 14 0.31
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (20 bp):
TATTTTTATTTTTTGAACTA
Found at i:12964482 original size:43 final size:43
Alignment explanation
Indices: 12964347--12964620 Score: 227
Period size: 42 Copynumber: 6.4 Consensus size: 43
12964337 GAGGAGCACA
* * * **
12964347 ATCACTTAAGCTCGC-ATGGGGAGCTTCGCT-AATACATAGGTT
1 ATCACTTAAGCTCACGA-GGGGAGCTTCACTGATTACATAACTT
* **
12964389 GTCACTTAAGCTCAC-ATGGGGAGCTTCGTTGA-TACATAACTT
1 ATCACTTAAGCTCACGA-GGGGAGCTTCACTGATTACATAACTT
* **
12964431 ATCACTTAAGCTCACGAGGGGAGCTTTACTGATTACATAGTTT
1 ATCACTTAAGCTCACGAGGGGAGCTTCACTGATTACATAACTT
* * *
12964474 ATCACTTAAGTTCACGA-GGGAGCTTTACTAATTAC-TCAACTT
1 ATCACTTAAGCTCACGAGGGGAGCTTCACTGATTACAT-AACTT
* * * * * * *
12964516 ATCATTTAAGCTCATGAGGGAAGCTTCATTGGTTACACAGCTT
1 ATCACTTAAGCTCACGAGGGGAGCTTCACTGATTACATAACTT
* * * * *
12964559 ATCACTTAAGTTAACGAAGGGAGTTTCACTGATTACACAACTT
1 ATCACTTAAGCTCACGAGGGGAGCTTCACTGATTACATAACTT
* *
12964602 ATCACTTAAACTCATGAGG
1 ATCACTTAAGCTCACGAGG
12964621 ATAGTTTTGA
Statistics
Matches: 186, Mismatches: 40, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 95 0.51
43 90 0.48
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (43 bp):
ATCACTTAAGCTCACGAGGGGAGCTTCACTGATTACATAACTT
Done.