Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 49
Found at i:2694238 original size:72 final size:72
Alignment explanation
Indices: 2694121--2694271 Score: 248
Period size: 72 Copynumber: 2.1 Consensus size: 72
2694111 CCCTATTACA
* * *
2694121 CAAGAAAATATGAAGACTTCGGGTGAGAATTTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
2694186 AAATGAT
66 AAATGAT
* *
2694193 CAAGAACAGATGAAGACTTCGGGTGTGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
*
2694258 AACTGAT
66 AAATGAT
2694265 CAAGAAC
1 CAAGAAC
2694272 CTATTAGGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.25
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:2698957 original size:37 final size:37
Alignment explanation
Indices: 2698907--2699020 Score: 133
Period size: 37 Copynumber: 3.1 Consensus size: 37
2698897 AAAGCCAAGT
* *
2698907 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* *
2698944 CTTCACTAAAGAGTAATGAAGCAAA-CCATCTTAAGC
1 CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* * * *
2698980 CTTCA-TCGAAGAGTAGTGAAGCATATCCTTTTTAAAC
1 CTTCACT-AAAGAGTAGTGAAGCAAATCCATTTTAAGC
2699017 CTTC
1 CTTC
2699021 TCGGAAGAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 1 0.02
36 29 0.45
37 35 0.54
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (37 bp):
CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTAAGC
Found at i:2698992 original size:36 final size:37
Alignment explanation
Indices: 2698915--2699046 Score: 126
Period size: 37 Copynumber: 3.6 Consensus size: 37
2698905 GTCTTCACCA
* * **
2698915 AAGAGTAGTGAAGCAAATCCATTTTGAGCCTTCA-CTA
1 AAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCATCGG
*
2698952 AAGAGTAATGAAGCAAACCATCTTAAGCCTTCATC-G
1 AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGG
* * * *
2698988 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTC-TCGG
1 AAGAGTAGTGAAGCA-AACCATCTTAAGCCTTCATCGG
* *
2699025 AAGAGTATTGGAGCAAACCATC
1 AAGAGTAGTGAAGCAAACCATC
2699047 AGACTATCAG
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
36 34 0.44
37 44 0.56
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (37 bp):
AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATCGG
Found at i:2699566 original size:54 final size:54
Alignment explanation
Indices: 2699407--2699567 Score: 286
Period size: 54 Copynumber: 3.0 Consensus size: 54
2699397 GTAGTAAAGC
* **
2699407 AGAAGAAAATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCTATA
1 AGAAGAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
2699461 AGAAGAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
2699515 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
1 AGAAGAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT
2699568 TTGTTGAAGA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (54 bp):
AGAAGAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:2699615 original size:55 final size:55
Alignment explanation
Indices: 2699470--2699996 Score: 508
Period size: 55 Copynumber: 9.7 Consensus size: 55
2699460 AAGAAGAAAA
* * * ** **
2699470 TGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGA-
1 TGTTCGAGTTCTATACTCCCTGA-AGGAATAGGGAGCGAACCCGTTTGTTGAAGAT
* * *
2699524 TGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGTTGAAGAT
1 TGTTCGAGTTCTATACTCCCTGA-AGGAATAGGGAGCGAACCCGTTTGTTGAAGAT
* * *
2699579 TGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGAT
1 TGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGAACCCGTTTGTTGAAGAT
* * * *
2699634 TGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATAAAGAT
1 TGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGAACCCGTTTGT-TGAAGAT
* * * *
2699689 TGTTCGAG-TCGTATACTCTCTGAAGAAATAGGGAGCGGACACGTTTGTTGAAGA-
1 TGTTCGAGTTC-TATACTCCCTGAAGGAATAGGGAGCGAACCCGTTTGTTGAAGAT
* * * * ***
2699743 ---TCAAGTCCTATACTCTCTGAAGAAATAGGGAGC-ATACATATTTGTTGAAGAT
1 TGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGA-ACCCGTTTGTTGAAGAT
* * * * *
2699795 TGTTCGAGTTCTATACACTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGAT
1 TGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGAACCCG-TTTGTTGAAGAT
* * *
2699851 TGTTCGAG-TCTTATACTCCCTGAACGAATAGGGAGC-AGACACGTTTGCTGAAGAT
1 TGTTCGAGTTC-TATACTCCCTGAAGGAATAGGGAGCGA-ACCCGTTTGTTGAAGAT
* *
2699906 TGTTCGAG-TCTTATACTCCCTGAATGAATAGGGAGC-AGACACGTTTGTTGAAGAT
1 TGTTCGAGTTC-TATACTCCCTGAAGGAATAGGGAGCGA-ACCCGTTTGTTGAAGAT
2699961 TGTTCGAG-TCTTATACTCCCTGAAGGAATAGGGAGC
1 TGTTCGAGTTC-TATACTCCCTGAAGGAATAGGGAGC
2699997 AGACTTATCA
Statistics
Matches: 417, Mismatches: 41, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
51 43 0.10
52 1 0.00
54 53 0.13
55 274 0.66
56 46 0.11
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (55 bp):
TGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCGAACCCGTTTGTTGAAGAT
Found at i:2699997 original size:55 final size:55
Alignment explanation
Indices: 2699565--2700000 Score: 528
Period size: 55 Copynumber: 8.0 Consensus size: 55
2699555 GGAGCGAACC
* * *
2699565 CGTTTGTTGAAGATTGTTCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
2699620 CGTTTGTTGAAGATTGTTCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACA
* * * *
2699675 CGTTT-TATAAAGATTGTTCGAGTCGTATACTCTCTGAAGAAATAGGGAGCGGACA
1 CGTTTGT-TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACA
* * * *
2699730 CGTTTGTTGAAGA----TCAAGTCCTATACTCTCTGAAGAAATAGGGAGCATACA
1 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACA
** * * * *
2699781 TATTTGTTGAAGATTGTTCGAGT-TCTATACACTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
2699836 CGTTTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACA
1 CG-TTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
2699892 CGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACA
*
2699947 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGAC
1 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
2700001 TTATCATTTG
Statistics
Matches: 337, Mismatches: 34, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
51 45 0.13
54 1 0.00
55 243 0.72
56 47 0.14
57 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (55 bp):
CGTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACA
Found at i:2702852 original size:204 final size:205
Alignment explanation
Indices: 2702487--2702899 Score: 803
Period size: 203 Copynumber: 2.0 Consensus size: 205
2702477 GAATAATCGT
2702487 TTCGACAAGATTTTTTTTATTTTTTTCACTTTAACGGTCGATAACGGTAATAGTGTCCCGTTATC
1 TTCGACAAGATTTTTTTTATTTTTTTCACTTTAACGGTCGATAACGGTAATAGTGTCCCGTTATC
2702552 GGTACTATTCATCATTATTCGTTAAATGACGGGCTCAATAGGTCGTATTGTCGTGAATCCGCCAT
66 GGTACTATTCATCATTATTCGTTAAATGACGGGCTCAATAGGTCGTATTGTCGTGAATCCGCCAT
2702617 CTACCGCTAATTTCTTCAATCTTGGTATCGGACGGTGCTATAACCGCT-AATAGAGTCAACAATA
131 CTACCGCTAATTTCTTCAATCTTGGTATCGGACGGTGCTATAACCGCTAAATAGAGTCAACAATA
2702681 GCGTTTTCA-
196 GCGTTTTCAG
2702690 TTCGACAAGATTTTTTTTATTTTTTTCACTTTAACGGTCGATAACGGTAATAGTGTCCCGTTATC
1 TTCGACAAGATTTTTTTTATTTTTTTCACTTTAACGGTCGATAACGGTAATAGTGTCCCGTTATC
2702755 GGTACTATTCATCATTATTCGTTAAATGACGGGCTCAATAGGTCGTTATTGTCGTGAATCCGCCA
66 GGTACTATTCATCATTATTCGTTAAATGACGGGCTCAATAGGTCG-TATTGTCGTGAATCCGCCA
2702820 TCTACCGCTAATTTCTTCAATCTTGGTATCGGACGGTGCTATAACCGCTAAATAGAGTCAACAAT
130 TCTACCGCTAATTTCTTCAATCTTGGTATCGGACGGTGCTATAACCGCTAAATAGAGTCAACAAT
2702885 AGCGTTTTCAG
195 AGCGTTTTCAG
2702896 TTCG
1 TTCG
2702900 CTATTTGAAT
Statistics
Matches: 207, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
203 110 0.53
204 68 0.33
205 25 0.12
206 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (205 bp):
TTCGACAAGATTTTTTTTATTTTTTTCACTTTAACGGTCGATAACGGTAATAGTGTCCCGTTATC
GGTACTATTCATCATTATTCGTTAAATGACGGGCTCAATAGGTCGTATTGTCGTGAATCCGCCAT
CTACCGCTAATTTCTTCAATCTTGGTATCGGACGGTGCTATAACCGCTAAATAGAGTCAACAATA
GCGTTTTCAG
Found at i:2704693 original size:18 final size:17
Alignment explanation
Indices: 2704670--2704709 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
2704660 CCGCGTAGAA
2704670 ATATCCCGAAGAACCAC
1 ATATCCCGAAGAACCAC
*
2704687 TATATCCCGAAGGACCAC
1 -ATATCCCGAAGAACCAC
2704705 ATATC
1 ATATC
2704710 ACATATGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (17 bp):
ATATCCCGAAGAACCAC
Found at i:2705849 original size:20 final size:22
Alignment explanation
Indices: 2705813--2705854 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
2705803 TAAAATTTTC
2705813 GTTCAAGCCCAGAAAA-TCACT
1 GTTCAAGCCCAGAAAATTCACT
2705834 GTTCAAGCCC-GAAAATTCACT
1 GTTCAAGCCCAGAAAATTCACT
2705855 ATATCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (22 bp):
GTTCAAGCCCAGAAAATTCACT
Found at i:2708854 original size:17 final size:17
Alignment explanation
Indices: 2708829--2708864 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2708819 GTCATAATAT
*
2708829 CATTTAACATCATAAAA
1 CATTCAACATCATAAAA
2708846 CATTCAACATCATAAAA
1 CATTCAACATCATAAAA
2708863 CA
1 CA
2708865 CTCTCTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
CATTCAACATCATAAAA
Found at i:2710068 original size:448 final size:448
Alignment explanation
Indices: 2709233--2710121 Score: 1679
Period size: 448 Copynumber: 2.0 Consensus size: 448
2709223 ATATTCTTAC
2709233 AAAATATCAAAACATTTGAACTCATTTTAAGAAAATACCACAATATTCTATTAAATTATGTTTCA
1 AAAATATCAAAACATTTGAACTCATTTTAAGAAAATACCACAATATTCTATTAAATTATGTTTCA
2709298 TATAAAATTTCAAGTCAAAAACATATTTATGAACCGTAAAATGCGTATAAATAATACCGTATGAA
66 TATAAAATTTCAAGTCAAAAACATATTTATGAACCGTAAAATGCGTATAAATAATACCGTATGAA
* * *
2709363 TAGTAATGAATAGTATCTACTACAATACCCGAATGTTAAAGTTTTCCAGATTCAAAGAGGAAAAT
131 CAGTAATGAACAGTACCTACTACAATACCCGAATGTTAAAGTTTTCCAGATTCAAAGAGGAAAAT
* *
2709428 TGATTCCCCTGTTACAGGGAATCGTTACCCTGCTACAGTACTGCTATAATACTTCCGTAAAAATA
196 TGATTCCCCTGCTACAGGGAATCGATACCCTGCTACAGTACTGCTATAATACTTCCGTAAAAATA
2709493 CGTATAAATTTATAAAAATCATAGTTTCCATTCGTATAAAATTTACATTTACATATACACCTTTA
261 CGTATAAATTTATAAAAATCATAGTTTCCATTCGTATAAAATTTACATTTACATATACACCTTTA
2709558 AAACATTACAAAATTCAATCATATGATTTTTACAAAACCGATTAAAACATATCAGATTCAAATCT
326 AAACATTACAAAATTCAATCATATGATTTTTACAAAACCGATTAAAACATATCAGATTCAAATCT
2709623 TTTATATTATTACATGCCAACTAAATTCTTTCTAACAAAATACATGTGATTTCTTATA
391 TTTATATTATTACATGCCAACTAAATTCTTTCTAACAAAATACATGTGATTTCTTATA
*
2709681 AAAATATCAAAACATTTGAACTCATTTTAAGAAAATACCACAATATTCTATTAAATTATGTTTCG
1 AAAATATCAAAACATTTGAACTCATTTTAAGAAAATACCACAATATTCTATTAAATTATGTTTCA
* *
2709746 TATAAAATTTCAAGTCAAAAACGTATTTATGAACCGTAAAATGCGTATAAATAGTACCGTATGAA
66 TATAAAATTTCAAGTCAAAAACATATTTATGAACCGTAAAATGCGTATAAATAATACCGTATGAA
* *
2709811 CAGTAATGAACAGTACCTACTACAATACCCGAATGTTAAAGTTTTCTAGATTCAAAGAGGGAAAT
131 CAGTAATGAACAGTACCTACTACAATACCCGAATGTTAAAGTTTTCCAGATTCAAAGAGGAAAAT
2709876 TGATTCCCCTGCTACAGGGAATCGATACCCTGCTACAGTACTGCTATAATACTTCCGTAAAAATA
196 TGATTCCCCTGCTACAGGGAATCGATACCCTGCTACAGTACTGCTATAATACTTCCGTAAAAATA
*
2709941 CGTATAAATTTATAAAAATCATAGTTTCCATTCGTATAAAATTTCCATTTACATATACACCTTTA
261 CGTATAAATTTATAAAAATCATAGTTTCCATTCGTATAAAATTTACATTTACATATACACCTTTA
2710006 AAACATTACAAAATTCAATCATATGATTTTTACAAAACCGATTAAAACATATCAGATTCAAATCT
326 AAACATTACAAAATTCAATCATATGATTTTTACAAAACCGATTAAAACATATCAGATTCAAATCT
2710071 TTTATATTATTACATGCCAACTAAATTCTTTCTAACAAAATACATGTGATT
391 TTTATATTATTACATGCCAACTAAATTCTTTCTAACAAAATACATGTGATT
2710122 CGATTTACAT
Statistics
Matches: 430, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
448 430 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (448 bp):
AAAATATCAAAACATTTGAACTCATTTTAAGAAAATACCACAATATTCTATTAAATTATGTTTCA
TATAAAATTTCAAGTCAAAAACATATTTATGAACCGTAAAATGCGTATAAATAATACCGTATGAA
CAGTAATGAACAGTACCTACTACAATACCCGAATGTTAAAGTTTTCCAGATTCAAAGAGGAAAAT
TGATTCCCCTGCTACAGGGAATCGATACCCTGCTACAGTACTGCTATAATACTTCCGTAAAAATA
CGTATAAATTTATAAAAATCATAGTTTCCATTCGTATAAAATTTACATTTACATATACACCTTTA
AAACATTACAAAATTCAATCATATGATTTTTACAAAACCGATTAAAACATATCAGATTCAAATCT
TTTATATTATTACATGCCAACTAAATTCTTTCTAACAAAATACATGTGATTTCTTATA
Found at i:2710437 original size:27 final size:26
Alignment explanation
Indices: 2710378--2710449 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
2710368 TCTTCCTTGT
*
2710378 CATTATCCTATTATTATCATTAATACC
1 CATTATCATA-TATTATCATTAATACC
** *
2710405 TTTTATCATATACTTATCATTTATACC
1 CATTATCATATA-TTATCATTAATACC
2710432 CATTAT-ATATCATT-TCAT
1 CATTATCATAT-ATTATCAT
2710450 AAAGAAATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 25 0.68
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (26 bp):
CATTATCATATATTATCATTAATACC
Found at i:2711898 original size:20 final size:22
Alignment explanation
Indices: 2711861--2711903 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2711851 CTGGAATTTT
2711861 TGTTCAAGCCCAGAAAA-TCAC
1 TGTTCAAGCCCAGAAAATTCAC
*
2711882 TGTTCATGCCC-GAAAATTCAC
1 TGTTCAAGCCCAGAAAATTCAC
2711903 T
1 T
2711904 ATATCAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (22 bp):
TGTTCAAGCCCAGAAAATTCAC
Found at i:2714540 original size:17 final size:17
Alignment explanation
Indices: 2714518--2714553 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2714508 TCAAAGTTCT
*
2714518 GGTCAACGTTAGTCAAC
1 GGTCAACGGTAGTCAAC
*
2714535 GGTCAACGGTGGTCAAC
1 GGTCAACGGTAGTCAAC
2714552 GG
1 GG
2714554 GTCGGGGCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTAGTCAAC
Found at i:2718141 original size:20 final size:20
Alignment explanation
Indices: 2718118--2718179 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
2718108 CAAATAACCT
2718118 AAAAACATAAAA-AATAAAAC
1 AAAAA-ATAAAAGAATAAAAC
*
2718138 --AAAATAAAATAATGAAAA-
1 AAAAAATAAAAGAAT-AAAAC
*
2718156 AAATAATAAAAGAATAAAAC
1 AAAAAATAAAAGAATAAAAC
2718176 AAAA
1 AAAA
2718180 CAAAATAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 6 0.18
18 6 0.18
19 8 0.24
20 14 0.41
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAAATAAAAGAATAAAAC
Found at i:2718329 original size:18 final size:18
Alignment explanation
Indices: 2718306--2718360 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
2718296 AACCGAAAAC
2718306 AAAAGAAATGATAAAGAT
1 AAAAGAAATGATAAAGAT
*
2718324 AAAAGAAATGAAAAAGAT
1 AAAAGAAATGATAAAGAT
2718342 AAAAGAAA--ATAAAGA-
1 AAAAGAAATGATAAAGAT
2718357 AAAA
1 AAAA
2718361 ATAAAAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
15 4 0.11
16 6 0.17
18 25 0.71
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.11
Consensus pattern (18 bp):
AAAAGAAATGATAAAGAT
Found at i:2718397 original size:25 final size:25
Alignment explanation
Indices: 2718361--2718419 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
2718351 TAAAGAAAAA
*
2718361 ATAAA-AACAAAAATAGTATATACAT
1 ATAAATAACAAAAATA-TACATACAT
* *
2718386 ATAAATAAAAAAAATATACATATAT
1 ATAAATAACAAAAATATACATACAT
2718411 ATAAATAAC
1 ATAAATAAC
2718420 GTTATGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (25 bp):
ATAAATAACAAAAATATACATACAT
Found at i:2718418 original size:29 final size:29
Alignment explanation
Indices: 2718359--2718418 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
2718349 AATAAAGAAA
* *
2718359 AAATAAAAACAAAAATAGTATATACATAT
1 AAATAAAAACAAAAATAATATATACAAAT
* *
2718388 AAATAAAAA-AAATATACATATATATAAAT
1 AAATAAAAACAAAAATA-ATATATACAAAT
2718417 AA
1 AA
2718419 CGTTATGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (29 bp):
AAATAAAAACAAAAATAATATATACAAAT
Found at i:2718442 original size:9 final size:8
Alignment explanation
Indices: 2718426--2718528 Score: 50
Period size: 8 Copynumber: 12.4 Consensus size: 8
2718416 TAACGTTATG
2718426 TAAAAAAA
1 TAAAAAAA
2718434 TATAAAAAA
1 TA-AAAAAA
2718443 T--AAAAA
1 TAAAAAAA
*
2718449 TAAAGAAA
1 TAAAAAAA
*
2718457 TAAAAACTA
1 TAAAAA-AA
*
2718466 TATATAAAA
1 TA-AAAAAA
2718475 TAATAAAAA
1 TAA-AAAAA
* **
2718484 CAGAACCAA
1 TA-AAAAAA
*
2718493 GAAAAAAGA
1 TAAAAAA-A
2718502 -AAAAAATA
1 TAAAAAA-A
2718510 TAAAAAAA
1 TAAAAAAA
*
2718518 GAAAAAAA
1 TAAAAAAA
2718526 TAA
1 TAA
2718529 TAAAGAATAT
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
6 6 0.08
8 32 0.45
9 29 0.41
10 4 0.06
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:2718447 original size:14 final size:14
Alignment explanation
Indices: 2718429--2718462 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2718419 CGTTATGTAA
*
2718429 AAAAATATAAAAAAT
1 AAAAATA-AAGAAAT
2718444 AAAAATAAAGAAAT
1 AAAAATAAAGAAAT
2718458 AAAAA
1 AAAAA
2718463 CTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAATAAAGAAAT
Found at i:2718530 original size:3 final size:3
Alignment explanation
Indices: 2718524--2718585 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
2718514 AAAAGAAAAA
*
2718524 AAT AAT AAAG AAT ATAT ATAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
2718573 AAA AAT AA- AAT AA
1 AAT AAT AAT AAT AA
2718586 ATAAGGGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 2 0.04
3 37 0.71
4 13 0.25
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2718531 original size:19 final size:18
Alignment explanation
Indices: 2718494--2718532 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 18
2718484 CAGAACCAAG
2718494 AAAAAAGAAAAAAATATA
1 AAAAAAGAAAAAAATATA
2718512 AAAAAAGAAAAAAATAATA
1 AAAAAAGAAAAAAAT-ATA
2718531 AA
1 AA
2718533 GAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAAAGAAAAAAATATA
Found at i:2718588 original size:18 final size:18
Alignment explanation
Indices: 2718495--2718589 Score: 59
Period size: 21 Copynumber: 4.9 Consensus size: 18
2718485 AGAACCAAGA
*
2718495 AAAAAGAAAA-AAAT-AT
1 AAAAATAAAATAAATAAT
* *
2718511 AAAAAAAGAAAAAAATAAT
1 AAAAATA-AAATAAATAAT
*
2718530 AAAGAATATATATATATATAAT
1 AAA-AATA-A-A-ATAAATAAT
*
2718552 AATAATAATAATAATAATAAT
1 AAAAATAA-AAT-A-AATAAT
2718573 AAAAATAAAATAAATAA
1 AAAAATAAAATAAATAA
2718590 GGGAAAAAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
16 6 0.10
17 3 0.05
18 9 0.14
19 8 0.13
20 11 0.17
21 17 0.27
22 9 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATAAAATAAATAAT
Found at i:2719672 original size:2 final size:2
Alignment explanation
Indices: 2719656--2719730 Score: 102
Period size: 2 Copynumber: 38.5 Consensus size: 2
2719646 AAGAAAAAGG
*
2719656 AT AT AT AA AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2719699 AT AT AT AT AT -T AT A- AT AT AT AT AC AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2719731 ATCATATAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
1 3 0.05
2 60 0.92
3 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2719742 original size:16 final size:17
Alignment explanation
Indices: 2719656--2719744 Score: 103
Period size: 18 Copynumber: 5.2 Consensus size: 17
2719646 AAGAAAAAGG
*
2719656 ATATATAAATGATATATAT
1 ATATATATAT-ATATAT-T
2719675 ATATATATATATATATAT
1 ATATATATATATATAT-T
2719693 ATATATATATATATATT
1 ATATATATATATATATT
*
2719710 ATA-ATATATATACATT
1 ATATATATATATATATT
2719726 ATATA-ATCATATA-ATT
1 ATATATAT-ATATATATT
2719742 ATA
1 ATA
2719745 ACATAGGGAC
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
16 23 0.35
17 10 0.15
18 24 0.36
19 9 0.14
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (17 bp):
ATATATATATATATATT
Found at i:2721167 original size:16 final size:16
Alignment explanation
Indices: 2721146--2721196 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
2721136 TTGGAAAGGT
2721146 ATAATAAAATAAAATA
1 ATAATAAAATAAAATA
2721162 ATAAT-AAATAAAA-A
1 ATAATAAAATAAAATA
* *
2721176 GAAAATATAATAAAATA
1 -ATAATAAAATAAAATA
2721193 ATAA
1 ATAA
2721197 ATAATAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.03
15 12 0.41
16 15 0.52
17 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
ATAATAAAATAAAATA
Found at i:2721173 original size:20 final size:20
Alignment explanation
Indices: 2721148--2721217 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
2721138 GGAAAGGTAT
2721148 AATAAAATAAAATAATAATA
1 AATAAAATAAAATAATAATA
*
2721168 AATAAAAAGAAAAT-ATAATA
1 AAT-AAAATAAAATAATAATA
* *
2721188 AA-ATAAT-AAATAATAGT-
1 AATAAAATAAAATAATAATA
2721205 AATAAAGATAAAA
1 AATAAA-ATAAAA
2721218 AGGGGTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 6 0.15
18 9 0.22
19 2 0.05
20 14 0.35
21 9 0.22
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAATAATAATA
Found at i:2721191 original size:21 final size:21
Alignment explanation
Indices: 2721151--2721219 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
2721141 AAGGTATAAT
*
2721151 AAAATAAAATAATAAT-AAATA
1 AAAAGAAAAT-ATAATAAAATA
2721172 AAAAGAAAATATAATAAAATA
1 AAAAGAAAATATAATAAAATA
* *
2721193 ATAA-ATAATAGTAATAAAGATA
1 AAAAGAAAATA-TAATAAA-ATA
2721215 AAAAG
1 AAAAG
2721220 GGGTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 10 0.25
21 24 0.60
22 6 0.15
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (21 bp):
AAAAGAAAATATAATAAAATA
Found at i:2721278 original size:17 final size:18
Alignment explanation
Indices: 2721244--2721289 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2721234 TTTGTTTTTA
2721244 AAATAAA-AGATAAGAATT
1 AAATAAATA-ATAAGAATT
*
2721262 AAAT-AATAATAATAATT
1 AAATAAATAATAAGAATT
2721279 AAATAAATAAT
1 AAATAAATAAT
2721290 CTAAAGAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (18 bp):
AAATAAATAATAAGAATT
Found at i:2722066 original size:76 final size:75
Alignment explanation
Indices: 2721907--2722119 Score: 272
Period size: 76 Copynumber: 2.9 Consensus size: 75
2721897 TAAAACATCT
* * * * * *
2721907 TAAATCCTAATTAAAACAGTTAAAACTATTTAAATTAAAATACCT---ACAAAGATAATAT-TTA
1 TAAAACCTAATTAAAATA-CTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
*
2721968 AAATAATATTC
65 AAATAATATCC
* *
2721979 TAAATCCTAATTAAAATACTAAAATCTATTTGAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
2722044 AAATAATATCC
65 AAATAATATCC
* *
2722055 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
2722120 TGTTTAAAAT
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
71 5 0.04
72 35 0.28
75 12 0.10
76 72 0.58
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (75 bp):
TAAAACCTAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAA
AATAATATCC
Found at i:2722776 original size:22 final size:20
Alignment explanation
Indices: 2722732--2722772 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2722722 TAACTCTAGG
*
2722732 AATTGTTCTTTTAAAAAAAT
1 AATTGTTCTATTAAAAAAAT
2722752 AATTGCTTCTATTAAAAAAAT
1 AATTG-TTCTATTAAAAAAAT
2722773 TAATAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
AATTGTTCTATTAAAAAAAT
Found at i:2725281 original size:49 final size:49
Alignment explanation
Indices: 2725209--2725306 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
2725199 CCAAATACAT
2725209 ACTTGTTGATTACTTCTGATATGATCTTCAAGTAATAATACTGTCCTTG
1 ACTTGTTGATTACTTCTGATATGATCTTCAAGTAATAATACTGTCCTTG
2725258 ACTTGTTGATTACTTCTGATATGATCTTCAAGTAATAATACTGTCCTTG
1 ACTTGTTGATTACTTCTGATATGATCTTCAAGTAATAATACTGTCCTTG
2725307 CTACTTCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (49 bp):
ACTTGTTGATTACTTCTGATATGATCTTCAAGTAATAATACTGTCCTTG
Found at i:2725729 original size:15 final size:15
Alignment explanation
Indices: 2725705--2725740 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2725695 CCGTAGGACC
2725705 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
2725720 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
2725735 ACTACA
1 ACTACA
2725741 GAACCCTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.14
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:2732439 original size:15 final size:14
Alignment explanation
Indices: 2732407--2732453 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
2732397 CCGTAGGACC
*
2732407 ACTACGTCCCGA-G
1 ACTACATCCCGAGG
2732420 ACTACATCCCGAAGG
1 ACTACATCCCG-AGG
*
2732435 ACTAC-GCCCGAGG
1 ACTACATCCCGAGG
2732448 ACTACA
1 ACTACA
2732454 GAACCCTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.30, C:0.36, G:0.21, T:0.13
Consensus pattern (14 bp):
ACTACATCCCGAGG
Found at i:2733541 original size:3 final size:3
Alignment explanation
Indices: 2733533--2733564 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2733523 TGCACGTTGG
2733533 AGA AGA AGA A-A AGA AGA AGA A-A AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
2733565 AGAGTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2733548 original size:8 final size:9
Alignment explanation
Indices: 2733533--2733564 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
2733523 TGCACGTTGG
2733533 AGAAGAAGA
1 AGAAGAAGA
2733542 A-AAGAAGA
1 AGAAGAAGA
2733550 AGAA-AAGA
1 AGAAGAAGA
2733558 AGAAGAA
1 AGAAGAA
2733565 AGAGTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AGAAGAAGA
Found at i:2733549 original size:11 final size:11
Alignment explanation
Indices: 2733533--2733565 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
2733523 TGCACGTTGG
2733533 AGAAGAAGAAA
1 AGAAGAAGAAA
2733544 AGAAGAAGAAA
1 AGAAGAAGAAA
2733555 AGAAGAAGAAA
1 AGAAGAAGAAA
2733566 GAGTTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAAA
Found at i:2737829 original size:12 final size:13
Alignment explanation
Indices: 2737812--2737841 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2737802 TGATTCTTAA
2737812 ATAAATTT-ATTT
1 ATAAATTTAATTT
2737824 ATAAATTTAATTT
1 ATAAATTTAATTT
2737837 ATAAA
1 ATAAA
2737842 CGTTCAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAAATTTAATTT
Found at i:2744413 original size:16 final size:16
Alignment explanation
Indices: 2744392--2744425 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2744382 ATGTCGTATT
2744392 TTGTTTCATCATAAAG
1 TTGTTTCATCATAAAG
2744408 TTGTTTCATCATAAAG
1 TTGTTTCATCATAAAG
2744424 TT
1 TT
2744426 ATTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
TTGTTTCATCATAAAG
Found at i:2746034 original size:29 final size:29
Alignment explanation
Indices: 2745999--2746109 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
2745989 AAACTAAATT
*
2745999 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
2746028 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2746057 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2746086 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2746110 GTTAGGTGAG
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
29 74 0.94
30 5 0.06
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2750830 original size:29 final size:29
Alignment explanation
Indices: 2750795--2750876 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2750785 AAACTAAATT
*
2750795 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2750824 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2750853 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2750877 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2754108 original size:21 final size:21
Alignment explanation
Indices: 2754084--2754141 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 21
2754074 TGATTTTTTG
2754084 TATTAAAATAATATTATTAAT
1 TATTAAAATAATATTATTAAT
* *
2754105 TATT--AAT-ATTTTATTATT
1 TATTAAAATAATATTATTAAT
2754123 TATTAAAAATAATA-TATTA
1 TATT-AAAATAATATTATTA
2754142 GTTAACTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 13 0.43
19 3 0.10
21 12 0.40
22 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAAAATAATATTATTAAT
Found at i:2754157 original size:40 final size:40
Alignment explanation
Indices: 2754084--2754201 Score: 116
Period size: 40 Copynumber: 2.9 Consensus size: 40
2754074 TGATTTTTTG
*
2754084 TATT-AAAATAATATTATTAATT-ATTAATATTTTATTATT
1 TATTAAAAATAATATTATTAATTAATT-ATTTTTTATTATT
* *
2754123 TATTAAAAATAATA-TATTAGTTAACTTATTTTTTATTTTT
1 TATTAAAAATAATATTATTAATTAA-TTATTTTTTATTATT
*
2754163 TATTAATAAATTAATAATTATTATTTAGATTTATTTTTT
1 TATTAA-AAA-TAAT-ATTATTAATTA-A-TTATTTTTT
2754202 GAATGAAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
39 11 0.17
40 27 0.41
41 5 0.08
42 4 0.06
43 1 0.02
44 8 0.12
45 10 0.15
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.58
Consensus pattern (40 bp):
TATTAAAAATAATATTATTAATTAATTATTTTTTATTATT
Found at i:2755895 original size:95 final size:96
Alignment explanation
Indices: 2755708--2755895 Score: 213
Period size: 95 Copynumber: 2.0 Consensus size: 96
2755698 TATGGATTTT
* * * *
2755708 ATGCATTGGTATGTAAAAATCTAGTGGTTTCCATATATAAAAAAGGATCCTAAAGGCTATGAATG
1 ATGCATTAGCATGTAAAAATCTAGTGGTTTCCATATATAAAAAAGGACCCTAAAGGCTATGAATA
* * **
2755773 GTGAATTCAGTTGGAGGATTTGGTTGAGTTA
66 GTGAACTCAGTTGGAGGATGTAATTGAGTTA
*
2755804 ATGCATTAGCATGTAAAAATCTAGTGGTCTT-CATGT-TAAAATAA-GACCCTGAAA-GCTATGA
1 ATGCATTAGCATGTAAAAATCTAGTGGT-TTCCATATATAAAA-AAGGACCCT-AAAGGCTATGA
* * *
2755865 ATATTGAACTCGGTTTGAGGATGTAATTGAG
63 ATAGTGAACTCAGTTGGAGGATGTAATTGAG
2755896 GTCATTGCTG
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
95 40 0.52
96 35 0.45
97 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.32
Consensus pattern (96 bp):
ATGCATTAGCATGTAAAAATCTAGTGGTTTCCATATATAAAAAAGGACCCTAAAGGCTATGAATA
GTGAACTCAGTTGGAGGATGTAATTGAGTTA
Found at i:2761416 original size:14 final size:15
Alignment explanation
Indices: 2761389--2761422 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2761379 TGGAAGACAT
2761389 ATATTTATATTTTAA
1 ATATTTATATTTTAA
*
2761404 TTATTTA-ATTTTAA
1 ATATTTATATTTTAA
2761418 ATATT
1 ATATT
2761423 AAAATTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTATATTTTAA
Found at i:2766667 original size:16 final size:16
Alignment explanation
Indices: 2766646--2766677 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2766636 AACCACTCAC
2766646 CACTTAATTACATTGG
1 CACTTAATTACATTGG
2766662 CACTTAATTACATTGG
1 CACTTAATTACATTGG
2766678 TATTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
CACTTAATTACATTGG
Found at i:2790782 original size:31 final size:31
Alignment explanation
Indices: 2790739--2790797 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2790729 AGTTACGTCG
*
2790739 GGGACCATATTGCAAACGGACTAAATGTCTA
1 GGGACCATATTGCAAACAGACTAAATGTCTA
* *
2790770 GGGATCATATTGCAAATAGACTAAATGT
1 GGGACCATATTGCAAACAGACTAAATGT
2790798 TGGGAGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (31 bp):
GGGACCATATTGCAAACAGACTAAATGTCTA
Found at i:2792374 original size:31 final size:31
Alignment explanation
Indices: 2792339--2792402 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
2792329 TACAATACAA
*
2792339 TCCCCTAACATTTAATCCGTTTACAATATGG
1 TCCCCCAACATTTAATCCGTTTACAATATGG
* * *
2792370 TCCCCCAATATTTAATCTGTTTGCAATATGG
1 TCCCCCAACATTTAATCCGTTTACAATATGG
2792401 TC
1 TC
2792403 TATAACCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (31 bp):
TCCCCCAACATTTAATCCGTTTACAATATGG
Found at i:2798948 original size:20 final size:20
Alignment explanation
Indices: 2798923--2799013 Score: 63
Period size: 20 Copynumber: 5.0 Consensus size: 20
2798913 TAAATTAAAT
*
2798923 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
* *
2798943 ATTAGATAGAATCAATTTTT
1 ATTAGATAGAATCAGTTTTA
* *
2798963 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
2798975 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
2798995 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2799014 TTATTCTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 3 0.06
17 3 0.06
18 1 0.02
19 2 0.04
20 37 0.71
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2799000 original size:52 final size:52
Alignment explanation
Indices: 2798922--2799074 Score: 272
Period size: 53 Copynumber: 2.9 Consensus size: 52
2798912 CTAAATTAAA
*
2798922 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAATTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTATTCTATTAGT
*
2798974 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-ATTTTTATTCTATTAGT
2799027 TATTAGATAGGATCATTTTTAATTAGATAGAATC-ATTTTTATTCTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTATTCTATT
2799075 GCTAATTTTA
Statistics
Matches: 97, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 13 0.13
52 34 0.35
53 50 0.52
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTATTCTATTAGT
Found at i:2799053 original size:20 final size:20
Alignment explanation
Indices: 2799028--2799067 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2799018 TCTATTAGTT
*
2799028 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
2799048 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
2799068 TTCTATTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:2802562 original size:11 final size:11
Alignment explanation
Indices: 2802546--2802573 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2802536 GAGCCTGGTT
2802546 CGAGAGATTCA
1 CGAGAGATTCA
2802557 CGAGAGATTCA
1 CGAGAGATTCA
2802568 CGAGAG
1 CGAGAG
2802574 CTATGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (11 bp):
CGAGAGATTCA
Found at i:2803675 original size:20 final size:20
Alignment explanation
Indices: 2803650--2803740 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
2803640 TAAATTAAAT
*
2803650 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
2803670 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
2803690 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
2803702 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
2803722 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2803741 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2803765 original size:53 final size:52
Alignment explanation
Indices: 2803649--2803798 Score: 275
Period size: 53 Copynumber: 2.9 Consensus size: 52
2803639 CTAAATTAAA
*
2803649 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
2803701 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
2803754 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
2803799 GTTGCTAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 10 0.10
52 35 0.36
53 51 0.53
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:2803780 original size:20 final size:20
Alignment explanation
Indices: 2803755--2803794 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2803745 TCTATTAGTT
*
2803755 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
2803775 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
2803795 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:2821389 original size:2 final size:2
Alignment explanation
Indices: 2821382--2821407 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2821372 ATTTCCTTTC
2821382 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
2821408 GGAGGAACCT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2825357 original size:23 final size:23
Alignment explanation
Indices: 2825328--2825393 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
2825318 TGTACTTCTG
2825328 TGCTGAATCATTCAACACTGTTT
1 TGCTGAATCATTCAACACTGTTT
*
2825351 TGTTGAATCATTCAACACTGTTT
1 TGCTGAATCATTCAACACTGTTT
*
2825374 TGCTGAATCATTCAGCACTG
1 TGCTGAATCATTCAACACTG
2825394 AATCATTCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (23 bp):
TGCTGAATCATTCAACACTGTTT
Found at i:2836436 original size:27 final size:27
Alignment explanation
Indices: 2836380--2836437 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
2836370 GTACGTTAAC
* * *
2836380 TTTATTTTTTATTTTATTAATTGTACT
1 TTTATTTTTTAATTTATTAATTGAAAT
*
2836407 TTTATTTTTTTAATTTATTTATT-AAAT
1 TTTA-TTTTTTAATTTATTAATTGAAAT
2836434 TTTA
1 TTTA
2836438 ATTTACTCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTATTTTTTAATTTATTAATTGAAAT
Found at i:2836438 original size:19 final size:19
Alignment explanation
Indices: 2836414--2836464 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
2836404 ACTTTTATTT
*
2836414 TTTTAATTTATTTATTAAA
1 TTTTAATTTATTCATTAAA
* *
2836433 TTTTAATTTACTCGTTAAA
1 TTTTAATTTATTCATTAAA
*
2836452 TTTTAAATTATTC
1 TTTTAATTTATTC
2836465 TTGTTTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAATTTATTCATTAAA
Found at i:2840993 original size:27 final size:27
Alignment explanation
Indices: 2840963--2841015 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2840953 TCAATTTCAT
2840963 TATTATGAA-TATAT-ATATTATGTGAAA
1 TATTAT-AAGTATATGAT-TTATGTGAAA
2840990 TATTATAAGTATATGATTTATGTGAA
1 TATTATAAGTATATGATTTATGTGAA
2841016 TATGTTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.08
27 20 0.83
28 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (27 bp):
TATTATAAGTATATGATTTATGTGAAA
Found at i:2841249 original size:15 final size:15
Alignment explanation
Indices: 2841211--2841268 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
2841201 AATATGTCAA
*
2841211 ACGTGAAAAATGTTAT
1 ACGTG-AAAATGTTCT
2841227 A-GTGGAAAAT-TATCT
1 ACGT-GAAAATGT-TCT
2841242 ACGTGAAAATGTTCT
1 ACGTGAAAATGTTCT
*
2841257 ATGTGAAAATGT
1 ACGTGAAAATGT
2841269 GTTAAGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 1 0.03
15 30 0.83
16 5 0.14
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (15 bp):
ACGTGAAAATGTTCT
Found at i:2841469 original size:24 final size:24
Alignment explanation
Indices: 2841398--2841474 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 24
2841388 GAGTCAAATG
*
2841398 TTCTATGCGGTCCTTCGGGAC-AA
1 TTCTACGCGGTCCTTCGGGACAAA
* * * * *
2841421 TTCTACGTGCTCATTCAGGATAAA
1 TTCTACGCGGTCCTTCGGGACAAA
2841445 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
2841469 -TCTACG
1 TTCTACG
2841475 TGGCACTTAG
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 21 0.50
24 21 0.50
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:2841497 original size:24 final size:24
Alignment explanation
Indices: 2841465--2841517 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2841455 TCCTTCGGGA
2841465 CAAA-TCTACGTGGCACTTAGGTG
1 CAAATTCTACGTGGCACTTAGGTG
*
2841488 CAAATTCTACGTGGCACTTCGGTG
1 CAAATTCTACGTGGCACTTAGGTG
2841512 CAAATT
1 CAAATT
2841518 ATATGAGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
CAAATTCTACGTGGCACTTAGGTG
Found at i:2841642 original size:19 final size:19
Alignment explanation
Indices: 2841598--2841634 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2841588 ACGTTGGGCT
*
2841598 AATTAAATAAATGGATATA
1 AATTAAACAAATGGATATA
*
2841617 AATTAAACAAATTGATAT
1 AATTAAACAAATGGATAT
2841635 GTATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTAAACAAATGGATATA
Found at i:2843642 original size:18 final size:17
Alignment explanation
Indices: 2843612--2843645 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2843602 TTACTCAATG
*
2843612 AAAAATAATTTATTAAT
1 AAAAAAAATTTATTAAT
2843629 AAAAAAAATCTTATTAA
1 AAAAAAAAT-TTATTAA
2843646 AACCTTCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAAAATTTATTAAT
Found at i:2845930 original size:47 final size:47
Alignment explanation
Indices: 2845855--2845950 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 47
2845845 GAGTCGAGGG
* * * *
2845855 TTTTACGCGGTCCTTTGGGACAATTCTACGTGGTC-CTTCGG-GATAAA
1 TTTTACACAGTCCTTTAGGACAAATCTACGTGG-CACTTCGGTG-TAAA
*
2845902 TTTTACACAGTCCTTTAGGATAAATCTACGTGGCACTTCGGTGTAAA
1 TTTTACACAGTCCTTTAGGACAAATCTACGTGGCACTTCGGTGTAAA
2845949 TT
1 TT
2845951 CTACGTGGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 1 0.02
47 40 0.95
48 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (47 bp):
TTTTACACAGTCCTTTAGGACAAATCTACGTGGCACTTCGGTGTAAA
Found at i:2845954 original size:24 final size:24
Alignment explanation
Indices: 2845922--2845973 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2845912 TCCTTTAGGA
*
2845922 TAAA-TCTACGTGGCACTTCGGTG
1 TAAATTCTACGTGGCACTTCGATG
*
2845945 TAAATTCTACGTGGGACTTCGATG
1 TAAATTCTACGTGGCACTTCGATG
2845969 TAAAT
1 TAAAT
2845974 CATATGAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (24 bp):
TAAATTCTACGTGGCACTTCGATG
Found at i:2846079 original size:19 final size:19
Alignment explanation
Indices: 2846055--2846099 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2846045 ACGTTGGGCT
*
2846055 AATTAAATAAATGGATATA
1 AATTAAACAAATGGATATA
* *
2846074 AATTAAACAAATTGATATT
1 AATTAAACAAATGGATATA
2846093 AATTAAA
1 AATTAAA
2846100 AAGTGTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (19 bp):
AATTAAACAAATGGATATA
Found at i:2857533 original size:14 final size:14
Alignment explanation
Indices: 2857486--2857541 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
2857476 TGTTCGTGAG
2857486 CGTTCGATTATATGTT
1 CGTTC-ATT-TATGTT
2857502 CGTTCATTTA---T
1 CGTTCATTTATGTT
*
2857513 -ATTCATTTATGTT
1 CGTTCATTTATGTT
2857526 CGTTCATTTATGTT
1 CGTTCATTTATGTT
2857540 CG
1 CG
2857542 AACATAGGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 16 0.47
15 3 0.09
16 5 0.15
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:2857836 original size:14 final size:13
Alignment explanation
Indices: 2857795--2857864 Score: 81
Period size: 13 Copynumber: 5.2 Consensus size: 13
2857785 TTTTTTTTGT
*
2857795 GTTTGTGTTGTTC
1 GTTTATGTTGTTC
2857808 GTTTAT-TGTGTTC
1 GTTTATGT-TGTTC
2857821 GTTTATGTTCGTTC
1 GTTTATGTT-GTTC
2857835 GTTTAT-TGTGTTC
1 GTTTATGT-TGTTC
2857848 GTTTATGTTCGTTC
1 GTTTATGTT-GTTC
2857862 GTT
1 GTT
2857865 CGTGTTCGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
12 1 0.02
13 29 0.58
14 20 0.40
ACGTcount: A:0.06, C:0.10, G:0.24, T:0.60
Consensus pattern (13 bp):
GTTTATGTTGTTC
Found at i:2857838 original size:27 final size:27
Alignment explanation
Indices: 2857795--2857864 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
2857785 TTTTTTTTGT
*
2857795 GTTTGTGTT-GTTCGTTTATTGTGTTC
1 GTTTATGTTCGTTCGTTTATTGTGTTC
2857821 GTTTATGTTCGTTCGTTTATTGTGTTC
1 GTTTATGTTCGTTCGTTTATTGTGTTC
2857848 GTTTATGTTCGTTCGTT
1 GTTTATGTTCGTTCGTT
2857865 CGTGTTCGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.19
27 34 0.81
ACGTcount: A:0.06, C:0.10, G:0.24, T:0.60
Consensus pattern (27 bp):
GTTTATGTTCGTTCGTTTATTGTGTTC
Found at i:2857913 original size:70 final size:69
Alignment explanation
Indices: 2857843--2857971 Score: 199
Period size: 70 Copynumber: 1.9 Consensus size: 69
2857833 TCGTTTATTG
* *
2857843 TGTTCGTTTATGTTC-GTTCGTTCGTGTTCGTTTA-TTATTTAAATGAACGAACATGAACAAAAA
1 TGTTCATTTATGTTCGGTTCGTTCATGTTCGTTTATTTA-TTAAATGAACGAACATGAACAAAAA
2857906 AAAAT
65 AAAAT
*
2857911 TGTTCATTTATGTTCGTGTTCGTTTATGTTCGTTTATTTATTAAATGAACGAACATGAACA
1 TGTTCATTTATGTTCG-GTTCGTTCATGTTCGTTTATTTATTAAATGAACGAACATGAACA
2857972 TAACTCCGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
68 14 0.25
70 38 0.69
71 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (69 bp):
TGTTCATTTATGTTCGGTTCGTTCATGTTCGTTTATTTATTAAATGAACGAACATGAACAAAAAA
AAAT
Found at i:2857936 original size:16 final size:16
Alignment explanation
Indices: 2857911--2857951 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2857901 AAAAAAAAAT
2857911 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
2857927 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
2857943 T-TT-ATTTAT
1 TGTTCATTTAT
2857952 TAAATGAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 16 0.70
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:2865996 original size:2 final size:2
Alignment explanation
Indices: 2865989--2866066 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
2865979 GATGGATAGA
2865989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2866031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2866067 GTGGCATACC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2871952 original size:22 final size:22
Alignment explanation
Indices: 2871924--2871974 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2871914 TGGTCCTTAA
2871924 GTATGATCACGTATCAGGAGGC
1 GTATGATCACGTATCAGGAGGC
2871946 GTATGATCACGTATCAGGAGGC
1 GTATGATCACGTATCAGGAGGC
*
2871968 TTATGAT
1 GTATGAT
2871975 GCTGCTCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (22 bp):
GTATGATCACGTATCAGGAGGC
Found at i:2875696 original size:2 final size:2
Alignment explanation
Indices: 2875691--2875725 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2875681 TTAGAACTTC
2875691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2875726 TATTTGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2882001 original size:21 final size:21
Alignment explanation
Indices: 2881980--2882019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2881970 CGTTGGTAAT
*
2881980 TTTAAAAAT-TTTATATAAAA
1 TTTAAAAATATATATATAAAA
*
2882000 TTTAAATATATATATATAAA
1 TTTAAAAATATATATATAAA
2882020 CATAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAAAAATATATATATAAAA
Found at i:2882529 original size:20 final size:20
Alignment explanation
Indices: 2882505--2882553 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
2882495 CGCAACACAG
2882505 AAGTCAAATTCACAACGCGA
1 AAGTCAAATTCACAACGCGA
* *
2882525 TAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCACAACGCGA
2882545 AAGTCAAAT
1 AAGTCAAAT
2882554 GTTTTTACGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (20 bp):
AAGTCAAATTCACAACGCGA
Found at i:2882538 original size:40 final size:40
Alignment explanation
Indices: 2882469--2882553 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
2882459 ACTCAGTTTC
* *
2882469 CAAATTCGCAACGCGAATTTGTAAATCGCAACAC-AGAAGT
1 CAAATTCACAACGCGAATTAGTAAATCGCAACACGA-AAGT
*
2882509 CAAATTCACAACGCG-A-TAGTCAAATTCGCAACGCGAAAGT
1 CAAATTCACAACGCGAATTAGT-AAA-TCGCAACACGAAAGT
2882549 CAAAT
1 CAAAT
2882554 GTTTTTACGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
38 3 0.08
39 4 0.10
40 31 0.79
41 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (40 bp):
CAAATTCACAACGCGAATTAGTAAATCGCAACACGAAAGT
Found at i:2882710 original size:22 final size:22
Alignment explanation
Indices: 2882685--2882738 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
2882675 GGCGACATCT
2882685 GTCCTCATCTCCGACGAAATCC
1 GTCCTCATCTCCGACGAAATCC
*
2882707 GTCCTCATTTCCGACGAAATCC
1 GTCCTCATCTCCGACGAAATCC
2882729 GT-CT-ATCTCC
1 GTCCTCATCTCC
2882739 ATCTCTCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 23 0.77
ACGTcount: A:0.20, C:0.39, G:0.13, T:0.28
Consensus pattern (22 bp):
GTCCTCATCTCCGACGAAATCC
Found at i:2884756 original size:4 final size:4
Alignment explanation
Indices: 2884747--2884792 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
2884737 TTTTTCGGCA
* *
2884747 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2884793 TCAGCGGCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:2886481 original size:14 final size:14
Alignment explanation
Indices: 2886462--2886501 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2886452 TTTTGATTAA
2886462 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
2886476 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
2886490 TTGATTTGTAAA
1 TTGATTTGTAAA
2886502 TAATAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2886514 original size:61 final size:62
Alignment explanation
Indices: 2886412--2886551 Score: 158
Period size: 66 Copynumber: 2.2 Consensus size: 62
2886402 TTTTATATTG
* * *
2886412 AAAGTTTATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTATA
** * * *
2886472 AAAGTTGATTTGTTTAATTTGATTTGTAAATAATAATTATTTTTTTGCTTGTTTAATTGATTTAT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTAT
2886537 A
62 A
2886538 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
2886552 GTTTCTAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 16 0.24
61 16 0.24
64 4 0.06
66 30 0.45
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.53
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTATA
Found at i:2886635 original size:20 final size:20
Alignment explanation
Indices: 2886609--2886674 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
2886599 GTTGAATGTA
*
2886609 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
2886629 TAAATTCGCAACACGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
2886649 CAAATTCACAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
2886669 CAAATT
1 CAAATT
2886675 TTAACACAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:2886730 original size:20 final size:20
Alignment explanation
Indices: 2886692--2886730 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2886682 AATTTTTGGT
*
2886692 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCG
*
2886712 TTGCGAATTTTACTATCGC
1 TTGCGAATTTGACTATCGC
2886731 AACGCTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCG
Found at i:2886999 original size:39 final size:39
Alignment explanation
Indices: 2886945--2887031 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
2886935 TCAAGTTGTA
2886945 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2886984 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2887023 GATTTTGAT
1 GATTTTGAT
2887032 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:2887331 original size:18 final size:18
Alignment explanation
Indices: 2887308--2887344 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2887298 CGAAATTTAT
2887308 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2887326 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2887344 A
1 A
2887345 CTCCGATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2887765 original size:25 final size:25
Alignment explanation
Indices: 2887731--2887780 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2887721 ATTATTTTTC
*
2887731 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2887756 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2887781 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:2887894 original size:20 final size:20
Alignment explanation
Indices: 2887871--2887945 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
2887861 AATAAGCGAT
*
2887871 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
*
2887891 GCGAAAGTCAAATTCGCTAC
1 GCGAAAGTCAAATTCGCAAC
* *
2887911 GTGATAGGT-AAATTCGCAAC
1 GCGA-AAGTCAAATTCGCAAC
2887931 GCGAAAGTCAAATTC
1 GCGAAAGTCAAATTC
2887946 TGTTTGCGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.87
21 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:2888015 original size:17 final size:18
Alignment explanation
Indices: 2887988--2888021 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2887978 CGCGTTGATC
2887988 GCAACATACAACATCAAG
1 GCAACATACAACATCAAG
2888006 GCAA-ATACAACATCAA
1 GCAACATACAACATCAA
2888022 ATACATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.26, G:0.09, T:0.12
Consensus pattern (18 bp):
GCAACATACAACATCAAG
Found at i:2888293 original size:18 final size:18
Alignment explanation
Indices: 2888270--2888305 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2888260 AAGCCGGTTG
*
2888270 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2888288 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
2888306 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2891514 original size:18 final size:18
Alignment explanation
Indices: 2891491--2891554 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
2891481 AAACATTTGT
2891491 GTTGCGAAAATTAAA-CCC
1 GTTGCG-AAATTAAATCCC
*
2891509 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAA-TCCC
*
2891528 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAA-TCCC
2891547 GTTGCGAA
1 GTTGCGAA
2891555 TTTGACTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
17 8 0.19
18 6 0.14
19 29 0.67
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GTTGCGAAATTAAATCCC
Found at i:2891532 original size:19 final size:19
Alignment explanation
Indices: 2891491--2891629 Score: 104
Period size: 20 Copynumber: 7.2 Consensus size: 19
2891481 AAACATTTGT
*
2891491 GTTGCGAAAATTAAA--CCC
1 GTTGCG-AAATTAAATTCGC
2891509 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAATTCGC
2891528 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAATTCGC
* **
2891547 GTTGCGAATTTGACTTTCGC
1 GTTGCGAAATT-AAATTCGC
* * ** * *
2891567 GTTGTGAATTTGACTTTTGT
1 GTTGCGAAATT-AAATTCGC
*
2891587 GTTGCGAAATTGGAAATT-GG
1 GTTGCGAAATT--AAATTCGC
2891607 GTTGCGAAATTAGAATTCGC
1 GTTGCGAAATTA-AATTCGC
2891627 GTT
1 GTT
2891630 ACAAATTTGA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
17 8 0.08
18 7 0.07
19 35 0.34
20 48 0.47
21 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (19 bp):
GTTGCGAAATTAAATTCGC
Found at i:2891567 original size:20 final size:20
Alignment explanation
Indices: 2891523--2891754 Score: 199
Period size: 20 Copynumber: 11.8 Consensus size: 20
2891513 CGAAATTAAA
* **
2891523 TTCGCGTTGCGAAATT-AAA
1 TTCGCGTTGCGAATTTGACT
2891542 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
2891562 TTCGCGTTGTGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
* * * **
2891582 TTTGTGTTGCGAAATTGGAAA
1 TTCGCGTTGCG-AATTTGACT
* * *
2891603 TT-GGGTTGCGAAATTAGA-A
1 TTCGCGTTGCG-AATTTGACT
* * *
2891622 TTCGCGTTACAAATTTGA-G
1 TTCGCGTTGCGAATTTGACT
* *
2891641 ATAGCGTTGCGAATTTG---
1 TTCGCGTTGCGAATTTGACT
* *
2891658 TTCTCGTTGTGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
* * *
2891678 TTTGTGTTGCAAATTTGACT
1 TTCGCGTTGCGAATTTGACT
2891698 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
2891718 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
2891738 TTCGCGTTGCGAATTTG
1 TTCGCGTTGCGAATTTG
2891755 GAAAATCACA
Statistics
Matches: 174, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
17 13 0.07
19 37 0.21
20 116 0.67
21 8 0.05
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:2897660 original size:82 final size:82
Alignment explanation
Indices: 2897522--2897679 Score: 280
Period size: 82 Copynumber: 1.9 Consensus size: 82
2897512 ATAGATGTTA
* *
2897522 AATTTAACTTTGGGTTGAAATGTTTTAGAAACTAGGATTTTGTTTATAGTAGAAATGGGTATTGA
1 AATTTAACTTTGGGTTGAAATGTTTTAGAAACTAGGATTTTGTTAATAGTAGAAATGGGTATCGA
2897587 CTCTTTCGGAGCTATAT
66 CTCTTTCGGAGCTATAT
* *
2897604 AATTTAACTTTGGGTTGAAATGTTTTAGAAACTAGGATTTTGTTAATATTATAAATGGGTATCGA
1 AATTTAACTTTGGGTTGAAATGTTTTAGAAACTAGGATTTTGTTAATAGTAGAAATGGGTATCGA
2897669 CTCTTTCGGAG
66 CTCTTTCGGAG
2897680 GGGACAAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (82 bp):
AATTTAACTTTGGGTTGAAATGTTTTAGAAACTAGGATTTTGTTAATAGTAGAAATGGGTATCGA
CTCTTTCGGAGCTATAT
Found at i:2897743 original size:48 final size:49
Alignment explanation
Indices: 2897672--2897772 Score: 177
Period size: 48 Copynumber: 2.1 Consensus size: 49
2897662 GTATCGACTC
2897672 TTTCGGAGGGGACAAATAATGGGGAAGAAAT-AGTGTAAGGATCAATGT
1 TTTCGGAGGGGACAAATAATGGGGAAGAAATAAGTGTAAGGATCAATGT
*
2897720 TTTCGGAGGGGACAAATAATGGGGAAGAAATAGAGTGTGAGGATCAATGT
1 TTTCGGAGGGGACAAATAATGGGGAAGAAATA-AGTGTAAGGATCAATGT
2897770 TTT
1 TTT
2897773 TAAAACCGGA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 31 0.62
50 19 0.38
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.25
Consensus pattern (49 bp):
TTTCGGAGGGGACAAATAATGGGGAAGAAATAAGTGTAAGGATCAATGT
Found at i:2905800 original size:10 final size:10
Alignment explanation
Indices: 2905785--2905810 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2905775 AATATTCGGA
2905785 TCGAATGGAC
1 TCGAATGGAC
2905795 TCGAATGGAC
1 TCGAATGGAC
2905805 TCGAAT
1 TCGAAT
2905811 CGAGCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (10 bp):
TCGAATGGAC
Found at i:2916613 original size:635 final size:632
Alignment explanation
Indices: 2915109--2916685 Score: 2762
Period size: 634 Copynumber: 2.5 Consensus size: 632
2915099 TGATTATTCT
* *
2915109 TTATTTTAGAAAGTTCTATACTAGTTTCACTTATCTAAGAGAATGACTGCTCATCATCATTATGC
1 TTATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGC
2915174 AATAGTTCAAG--A---T-AC--G-TCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
66 AATAGTTCAAGATACGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
* *
2915230 TATATTTCAAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTA
131 TGTATTTCGAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTA
* *
2915295 TCCCGCATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAATGTTCATTCTTCCTTCCTTTGT
196 TCCCGCATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGT
*
2915360 TGAGTGATAGAGAACAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGG
261 GGAGTGATAGAGAACAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGG
* * *
2915425 CAAATTTGTTTATAAAGCTGTGGTTTTCACCACGACATAGTTTTGGTTTTTCATTTTTCAATATT
326 AAAATTTGTTTATAAAGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATT
2915490 TTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATC
391 TTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATC
*
2915555 AAGGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTGTTCTCGTGGG
456 AAGGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTGTTCTCGTGGG
2915620 TTATGTTGAGAAACTCTTACTTCCTGAGGTAAGATGGCCTAATATACATTTATGTATGTATGTAT
521 TTATGTTGAGAAACTCTTACTTCCTGAGGTAAGATGGCCTAATATACATTTATGTATG-ATG-AT
2915685 GTATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCC
584 GTATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCC
*
2915734 TTATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATAC
1 TTATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGC
* *
2915799 AATAGTTCAAGATACGTTCACTAGTACTTAAGTATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
66 AATAGTTCAAGATACGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
* *
2915864 TGTATTTTGAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACATTA
131 TGTATTTCGAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTA
* *
2915929 TCCCGCATTGAGTGGGAAATACCACTGGTCTGGGTATTAATAGTGTTCATTTTTCCTTCCTTCGT
196 TCCCGCATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGT
2915994 GGAGTGATAGAGAACAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGG
261 GGAGTGATAGAGAACAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGG
*
2916059 AAAATTTGTTTATAAGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATT
326 AAAATTTGTTTATAAAGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATT
*
2916124 TTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACACAAGTTTATC
391 TTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATC
2916189 AAGGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTGTTCTCGTGGG
456 AAGGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTGTTCTCGTGGG
* *
2916254 TTCTGTTGAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGTCTAATATACATTTATGTATG-T
521 TTATGTTGAGAAACTCTTACT----TCCTGAGGTAAGAT-GGCCTAATATACATTTATGTATGAT
*
2916318 G-TGTTTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCC
581 GATGTATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCC
2916369 TTATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGC
1 TTATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGC
2916434 AATAGTTCAAGATACGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
66 AATAGTTCAAGATACGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
*
2916499 TGTATTTCGAGGTTCAGAAGAATTATTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTA
131 TGTATTTCGAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTA
2916564 TCCCGCATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGT
196 TCCCGCATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGT
* * * *
2916629 GGAGTGATAGAGAACAAATGCAAATCTCGCGCAGTGTAGTCATTGCCGTCCATCTCA
261 GGAGTGATAGAGAACAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCA
2916686 GCTCGTGGCT
Statistics
Matches: 903, Mismatches: 35, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
625 73 0.08
627 1 0.00
630 1 0.00
631 2 0.00
633 1 0.00
634 433 0.48
635 354 0.39
637 2 0.00
638 14 0.02
639 22 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (632 bp):
TTATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGC
AATAGTTCAAGATACGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGT
TGTATTTCGAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTA
TCCCGCATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGT
GGAGTGATAGAGAACAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGG
AAAATTTGTTTATAAAGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATT
TTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATC
AAGGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTGTTCTCGTGGG
TTATGTTGAGAAACTCTTACTTCCTGAGGTAAGATGGCCTAATATACATTTATGTATGATGATGT
ATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCC
Found at i:2923021 original size:635 final size:636
Alignment explanation
Indices: 2921797--2923218 Score: 2531
Period size: 635 Copynumber: 2.2 Consensus size: 636
2921787 ATCGATTACA
*
2921797 CACATCGGGCCAAATTTATTTATAAGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATT
1 CACATCGGGGCAAATTTATTTATAAGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATT
2921862 TTTCAATATTTTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACA
66 TTTCAATATTTTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACA
* *
2921927 CAAATTTATCAAGGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTG
131 CAAGTTTATCAATGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTG
** *
2921992 TTCTCGTGGGTTATGTTGAGAAACTCTTTCTAGAATCCTGAGGTAAGATAGGTCTAATATACATT
196 TTCTCGTGGGTTATGTTGAGAAACTCTAACTAGAATCCTGAGGTAAGATAGGCCTAATATACATT
2922057 TATGTATGTATGTATATATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCT
261 TATGTATGTATG---ATATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCT
2922122 TATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGAGTGCTCATCATCATTATGCA
323 TATTTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGAGTGCTCATCATCATTATGCA
* *
2922187 ATAGTTCAAGATACGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTT
388 ATAGTTCAAGATACATTCACTAGTGCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTT
*
2922252 GTATTTCGAGGTTCAGAAGAATTATTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTAT
453 GTATTTCAAGGTTCAGAAGAATTATTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTAT
* *
2922317 CCCGCATTGAGTATGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTTGTT
518 CCCACATTGAGTAGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTTGTT
* *
2922382 GAGTGATAGAGAACAAAGGCAAATCTCGCGCGGTGTTGTCATCGTCGTCCATCT
583 GAGTGATAGAGAACAAAGGCAAATCTCGCGCGGTGTAGTCATCGCCGTCCATCT
* *
2922436 CACATCGGGGAAAATTTATTTATAAGGCAGTGGTTTTCACCACGACACAATTTTGGTTTTTCATT
1 CACATCGGGGCAAATTTATTTATAAGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATT
* * *
2922501 TATCAATATTTTTATAATGTTCAGTCAATCACTAACGTCTCATTTAGCGGTGTATATTTCCAACA
66 TTTCAATATTTTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACA
*
2922566 CAAGTTTATCAATGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTG
131 CAAGTTTATCAATGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTG
* *
2922631 TTCTCGTGGGTTCTGTTGAGAAACTCTAACTAGAATCCTGAGGTAAGATAGGCCTAATATATATT
196 TTCTCGTGGGTTATGTTGAGAAACTCTAACTAGAATCCTGAGGTAAGATAGGCCTAATATACATT
*
2922696 TATGTATGTATG-TATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTCT
261 TATGTATGTATGATATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTAT
*
2922760 TTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGCAATA
326 TTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGAGTGCTCATCATCATTATGCAATA
2922825 GTTCAAGATACATTCACTAGTGCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTA
391 GTTCAAGATACATTCACTAGTGCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTA
*
2922890 TTTCAAGGTTCAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCC
456 TTTCAAGGTTCAGAAGAATTATTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCC
* * * *
2922955 ACATTGAGTGGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCTTTTCTTTTTTGAG
521 ACATTGAGTAGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTTGTTGAG
2923020 TGATAGAGAACAAAGGCAAATCTCGCGCGGTGTAGTCATCGCCGTCCATCT
586 TGATAGAGAACAAAGGCAAATCTCGCGCGGTGTAGTCATCGCCGTCCATCT
* * *
2923071 CACATCAGGGCAAATTTGTTTATAAGGCAGTGGTTTTCACCAAGACACAGTTTTGGTTTTTCATT
1 CACATCGGGGCAAATTTATTTATAAGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATT
2923136 TTTCAATATTTTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACA
66 TTTCAATATTTTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACA
2923201 CAAGTTTATCAATGAGGA
131 CAAGTTTATCAATGAGGA
2923219 TGAAGATACT
Statistics
Matches: 747, Mismatches: 36, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
635 489 0.65
639 258 0.35
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (636 bp):
CACATCGGGGCAAATTTATTTATAAGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATT
TTTCAATATTTTTATATTGTTCAGTCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACA
CAAGTTTATCAATGAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTG
TTCTCGTGGGTTATGTTGAGAAACTCTAACTAGAATCCTGAGGTAAGATAGGCCTAATATACATT
TATGTATGTATGATATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTAT
TTTAGAAAGTTCTAGACTAGTTTCACTTATCTAAGAGAATGAGTGCTCATCATCATTATGCAATA
GTTCAAGATACATTCACTAGTGCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTA
TTTCAAGGTTCAGAAGAATTATTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCC
ACATTGAGTAGGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTTGTTGAG
TGATAGAGAACAAAGGCAAATCTCGCGCGGTGTAGTCATCGCCGTCCATCT
Found at i:2923253 original size:3 final size:3
Alignment explanation
Indices: 2923247--2923315 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
2923237 TTACCCATTT
* * *
2923247 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2923295 -TA TATA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
2923316 AAAAATAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2924917 original size:23 final size:22
Alignment explanation
Indices: 2924871--2924915 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2924861 ATATTATAAA
2924871 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
2924893 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
2924916 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:2924997 original size:23 final size:26
Alignment explanation
Indices: 2924965--2925014 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
2924955 CATTTTCTGA
*
2924965 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
2924988 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
2925014 T
1 T
2925015 TTTTTCTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:2936254 original size:1 final size:1
Alignment explanation
Indices: 2936240--2936300 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
2936230 ATGCTTGAAG
* * * * * *
2936240 AAAAAAGAACAAAAAAGAAAAAAGAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2936301 GGGGGTCAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.90, C:0.02, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:2936257 original size:17 final size:16
Alignment explanation
Indices: 2936237--2936300 Score: 101
Period size: 16 Copynumber: 3.9 Consensus size: 16
2936227 ATTATGCTTG
2936237 AAGAAAAAAGAACAAAA
1 AAGAAAAAAGAA-AAAA
2936254 AAGAAAAAAGAAAAAA
1 AAGAAAAAAGAAAAAA
*
2936270 AAGAAAAAAAAAAAAA
1 AAGAAAAAAGAAAAAA
*
2936286 AAAAAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
2936301 GGGGGTCAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
16 32 0.73
17 12 0.27
ACGTcount: A:0.89, C:0.02, G:0.09, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAGAAAAAA
Found at i:2937922 original size:115 final size:115
Alignment explanation
Indices: 2937558--2937897 Score: 592
Period size: 115 Copynumber: 3.0 Consensus size: 115
2937548 GTTCCATTTT
*
2937558 CTCATAGTAGAAATAAGAAGACACAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
2937623 GTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATGTG
66 GTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATGTG
*
2937673 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
2937738 GTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATGTG
66 GTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATGTG
2937788 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * * *
2937853 GTTCGGTAGGAACCAC-AGAACCAATCATTGGAATTAAAAGATGAA
66 GTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAA
2937898 CTGCATGATC
Statistics
Matches: 214, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 25 0.12
115 189 0.88
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (115 bp):
CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
GTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATGTG
Found at i:2938802 original size:113 final size:112
Alignment explanation
Indices: 2938603--2939143 Score: 648
Period size: 113 Copynumber: 4.8 Consensus size: 112
2938593 GCAAAGATTT
* * *
2938603 AAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATAAGAAGAATTCATCTGAA
1 AAATCCATCATTTGATGGATCAGCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
2938668 GAAAGAAGAAGAAATTCATAATGAAAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
2938717 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
2938782 AAGGCAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
66 AAGGAAGAAAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* ** * * * * **** *
2938830 AAATTCATCATTCAATGGATCAACATTACTAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
2938895 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * *
2938943 AAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCT
* *
2939007 GAAGAA-GAAG--AAATTCATAATGAGAAGAATTTGTTCAACTTTTTTCTC
62 GAAGAAGGAAGAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
2939055 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
2939119 AA-GAAG--AAGTTCATAATGAGAAGAA
66 AAGGAAGAAAAATTCATAATGAGAAGAA
2939144 CTCATCTGAA
Statistics
Matches: 373, Mismatches: 47, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
108 34 0.09
109 1 0.00
111 18 0.05
112 62 0.17
113 207 0.55
114 34 0.09
115 5 0.01
116 12 0.03
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (112 bp):
AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:2939131 original size:36 final size:36
Alignment explanation
Indices: 2939087--2939178 Score: 166
Period size: 36 Copynumber: 2.6 Consensus size: 36
2939077 GCTTTTCCAG
2939087 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
2939123 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
* *
2939159 AAAAGTTCACAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
2939179 GCTTATTCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (36 bp):
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
Found at i:2939142 original size:17 final size:17
Alignment explanation
Indices: 2939087--2939143 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
2939077 GCTTTTCCAG
2939087 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
*
2939104 AGAA-CTCATCTGAA-GAAGA
1 AGAAGTTCA--T-AATG-AGA
2939123 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
2939140 AGAA
1 AGAA
2939144 CTCATCTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 3 0.09
17 13 0.41
18 4 0.12
19 9 0.28
20 3 0.09
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (17 bp):
AGAAGTTCATAATGAGA
Found at i:2939355 original size:124 final size:120
Alignment explanation
Indices: 2939120--2939401 Score: 356
Period size: 124 Copynumber: 2.3 Consensus size: 120
2939110 CATCTGAAGA
2939120 AGAAGAAGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAAAAGTTCACAATGAGAAGAGCTT
1 AGAA-AAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAGAGCTT
* * * * * *
2939183 ATTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAAATTAGCATCAACCTTTCCAG
65 ATTCAACCTTTTGAATAACTCTATCACAAAAGCAAATAAATCAACATCAACC---CCAG
* *
2939242 AG-AAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCT
1 AGAAAAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAAAAGTTCACAATGAGAAGAGCT
* * ** *
2939306 TATTCAACCTTTTGAATGACTCTATCACAAAAGGAAATAGGTCAACATCATCCCCAG
64 TATTCAACCTTTTGAATAACTCTATCACAAAAGCAAATAAATCAACATCAACCCCAG
*
2939363 CGAAAAGTTCATAATGAGAAGAACTCATCTGAAGA-AAGA
1 AGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGA
2939402 GAAGAATTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
119 4 0.03
120 27 0.19
121 9 0.06
122 32 0.23
123 2 0.01
124 67 0.48
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (120 bp):
AGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAGAGCTTA
TTCAACCTTTTGAATAACTCTATCACAAAAGCAAATAAATCAACATCAACCCCAG
Found at i:2939551 original size:3 final size:3
Alignment explanation
Indices: 2939545--2939586 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
2939535 TTACCCATTT
*
2939545 TTA TTA TTA TTA TAA TTA TTA -TA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
2939587 AAAAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2941191 original size:23 final size:22
Alignment explanation
Indices: 2941145--2941189 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2941135 TATTATAAAA
2941145 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
2941167 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
2941190 AATATCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:2941271 original size:23 final size:26
Alignment explanation
Indices: 2941239--2941288 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
2941229 CATTTTCTGA
*
2941239 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
2941262 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
2941288 T
1 T
2941289 TTTCTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:2943344 original size:635 final size:635
Alignment explanation
Indices: 2941663--2943416 Score: 3095
Period size: 634 Copynumber: 2.8 Consensus size: 635
2941653 GGTTACGACA
**
2941663 GAGGACAAAGAGGCAGGGAGAATATTCAATATATATGGGTGTAATGTGTTTGTTCTCGTGGGTTC
1 GAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTGTTCTCGTGGGTTC
*
2941728 TGTTAAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGCCTAATATACATTTATGTATGTGTGT
66 TGTTGAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGCCTAATATACATTTATGTATGTGTGT
2941793 TTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGTTCTA
131 TTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGTTCTA
* *
2941858 TACTAGTTTCACTTATCTAAGAGAATGACTGCTCATCATCATTATGCAATAGTTCAAG--A---T
196 GACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGCAATAGTTCAAGATACGTT
* *
2941918 -AC--G-TCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTATATTTCAAGGTTCAGA
261 CACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTATTTCGAGGTTCAGA
2941979 AGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCCGCATTGAGTGGGAA
326 AGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCCGCATTGAGTGGGAA
* * *
2942044 ATACCACTGGTTTGGGTATTAATAATGTTCATTCTTCCTTCCTTTGTTGAGTGATAGAGAACAAA
391 ATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGTGGAGTGATAGAGAACAAA
*
2942109 GGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGGCAAATTTGTTTATAAAGC
456 GGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGGAAAATTTGTTTATAAAGC
* *
2942174 TGTGGTTTTCACCACGACATAGTTTTGGTTTTTCATTTTTCAATATTTTTATATTGTTCAGTCAA
521 AGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATTTTTATATTGTTCAGTCAA
2942239 TCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATCAAG
586 TCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATCAAG
*
2942289 GAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTGTTCTCGTGGGTTA
1 GAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTGTTCTCGTGGGTTC
2942354 TGTTGAGAAACTCTTACT----TCCTGAGGTAAGAT-GGCCTAATATACATTTATGTATGTATGT
66 TGTTGAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGCCTAATATACATTTATGTATG--TG-
*
2942414 ATGTATATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGT
128 -TGTTTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGT
*
2942479 TCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATACAATAGTTCAAGATA
192 TCTAGACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGCAATAGTTCAAGATA
* * *
2942544 CGTTCACTAGTACTTAAGTATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTATTTTGAGGTT
257 CGTTCACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTATTTCGAGGTT
*
2942609 CAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACATTATCCCGCATTGAGTG
322 CAGAAGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCCGCATTGAGTG
* *
2942674 GGAAATACCACTGGTCTGGGTATTAATAGTGTTCATTTTTCCTTCCTTCGTGGAGTGATAGAGAA
387 GGAAATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGTGGAGTGATAGAGAA
2942739 CAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGGAAAATTTGTTTATA
452 CAAAGGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGGAAAATTTGTTTATA
*
2942804 AGGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATTTTTATATTGTTCAG
517 AAGCAGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATTTTTATATTGTTCAG
*
2942869 TCAATCACTAACGTCTCATTTAGCGGTATATATTTCCAACACAAGTTTATCAAG
582 TCAATCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATCAAG
*
2942923 GAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATATGTTTGTTCTCGTGGGTTC
1 GAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTGTTCTCGTGGGTTC
*
2942988 TGTTGAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGTCTAATATACATTTATGTATGTGTGT
66 TGTTGAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGCCTAATATACATTTATGTATGTGTGT
2943053 TTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGTTCTA
131 TTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGTTCTA
2943118 GACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGCAATAGTTCAAGATACGTT
196 GACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGCAATAGTTCAAGATACGTT
2943183 CACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTATTTCGAGGTTCAGA
261 CACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTATTTCGAGGTTCAGA
*
2943248 AGAATTATTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCCGCATTGAGTGGGAA
326 AGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCCGCATTGAGTGGGAA
2943313 ATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGTGGAGTGATAGAGAACAAA
391 ATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGTGGAGTGATAGAGAACAAA
* * * *
2943378 TGCAAATCTCGCGCAGTGTAGTCATTGCCGTCCATCTCA
456 GGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCA
2943417 GCTCGTGGCT
Statistics
Matches: 1070, Mismatches: 40, Indels: 27
0.94 0.04 0.02
Matches are distributed among these distances:
621 23 0.02
622 14 0.01
623 2 0.00
625 122 0.11
626 79 0.07
627 1 0.00
630 1 0.00
631 2 0.00
633 1 0.00
634 433 0.40
635 354 0.33
637 2 0.00
638 14 0.01
639 22 0.02
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (635 bp):
GAGGACAAAGAGGCAGGGAGAATATTCAACGTATATGGGTGTAATGTGTTTGTTCTCGTGGGTTC
TGTTGAGAAACTCTTACTAGAATCCTGAGGTAAGATAGGCCTAATATACATTTATGTATGTGTGT
TTATACTCGATGGATGAAGGGGTTAGTTGTGTGTTATGAATTTACCCTTATTTTAGAAAGTTCTA
GACTAGTTTCACTTATCTAAGAGAATGATTGCTCATCATCATTATGCAATAGTTCAAGATACGTT
CACTAGTTCTTAAGCATCTAATTCTCTTATTGCTCTTTTGAAAAGGTTGTATTTCGAGGTTCAGA
AGAATTCTTTCACATTAGTGGGGGAATTTGGTAATGCTAAAACACTATCCCGCATTGAGTGGGAA
ATACCACTGGTTTGGGTATTAATAGTGTTCATTCTTCCTTCCTTCGTGGAGTGATAGAGAACAAA
GGCAAATCTCGTGCGGTGTAGTCATCGCCGTCCATCTCACATCGGGGAAAATTTGTTTATAAAGC
AGTGGTTTTCACCACGACACAGTTTTGGTTTTTCATTTTTCAATATTTTTATATTGTTCAGTCAA
TCACTAACGTCTCATTTAGCAGTATATATTTCCAACACAAGTTTATCAAG
Found at i:2953041 original size:29 final size:28
Alignment explanation
Indices: 2952940--2953041 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
2952930 TGATTGAATA
* *
2952940 AATTTTTCGATTTAAGAGTTTAATTAATTT
1 AATTTTT-GATTT-AGAGTTTAATTGATTC
* * * *
2952970 AATTTTTTATTCAAAGGTTTAATTGTTTC
1 AATTTTTGATTTAGA-GTTTAATTGATTC
2952999 AATTTTCT-ATTTTAGAGTTTAATTGATTC
1 AATTTT-TGA-TTTAGAGTTTAATTGATTC
2953028 AATTTATTGATTTA
1 AATTT-TTGATTTA
2953042 AGAATTCAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
28 2 0.03
29 42 0.72
30 14 0.24
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (28 bp):
AATTTTTGATTTAGAGTTTAATTGATTC
Found at i:2953582 original size:10 final size:10
Alignment explanation
Indices: 2953569--2953613 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 10
2953559 GAACGTTCAG
2953569 TTATGTTCGT
1 TTATGTTCGT
2953579 TTATGTTCGTT
1 TTATGTTCG-T
2953590 CGGTTATGTTCGT
1 ---TTATGTTCGT
2953603 TTATGTTCGT
1 TTATGTTCGT
2953613 T
1 T
2953614 CATTTATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 20 0.65
11 1 0.03
13 1 0.03
14 9 0.29
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.58
Consensus pattern (10 bp):
TTATGTTCGT
Found at i:2953590 original size:14 final size:14
Alignment explanation
Indices: 2953573--2953623 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2953563 GTTCAGTTAT
2953573 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
2953587 GTTCGGTTA---T-
1 GTTCGTTTATGTTC
2953597 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
2953611 GTTCATTTATGTT
1 GTTCGTTTATGTT
2953624 TAACCCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
10 8 0.27
11 1 0.03
13 1 0.03
14 20 0.67
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:2953595 original size:24 final size:24
Alignment explanation
Indices: 2953562--2953623 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
2953552 ATTTCGTGAA
2953562 CGTTCAGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
*
2953586 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
*
2953610 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
2953624 TAACCCAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.21, T:0.55
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATGTT
Found at i:2954712 original size:10 final size:10
Alignment explanation
Indices: 2954697--2954750 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
2954687 GGGTCTCCAA
2954697 CGTTTATGTT
1 CGTTTATGTT
2954707 CGTTTATGTT
1 CGTTTATGTT
2954717 CGTGTTTATGTT
1 C--GTTTATGTT
2954729 CG----TGTT
1 CGTTTATGTT
2954735 CGTTTATGTT
1 CGTTTATGTT
2954745 CGTTTA
1 CGTTTA
2954751 CTTATTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.16
10 22 0.58
12 10 0.26
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:2954725 original size:12 final size:12
Alignment explanation
Indices: 2954698--2954734 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
2954688 GGTCTCCAAC
2954698 GTTTATGTTC--
1 GTTTATGTTCGT
2954708 GTTTATGTTCGT
1 GTTTATGTTCGT
2954720 GTTTATGTTCGT
1 GTTTATGTTCGT
2954732 GTT
1 GTT
2954735 CGTTTATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.59
Consensus pattern (12 bp):
GTTTATGTTCGT
Found at i:2954739 original size:16 final size:16
Alignment explanation
Indices: 2954703--2954747 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
2954693 CCAACGTTTA
2954703 TGTTCGTTTATGTTC-
1 TGTTCGTTTATGTTCG
2954718 -G-T-GTTTATGTTCG
1 TGTTCGTTTATGTTCG
2954731 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2954747 T
1 T
2954748 TTACTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 10 0.38
13 1 0.04
14 2 0.08
15 1 0.04
16 12 0.46
ACGTcount: A:0.07, C:0.11, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Done.