Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 37
Found at i:2337963 original size:20 final size:18
Alignment explanation
Indices: 2337933--2337987 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 18
2337923 CCGATCCAAA
2337933 AAAATAATCGAAAATCGATCT
1 AAAA-AATCGAAAATCGA--T
*
2337954 AAAAAATCGATAATCGA-
1 AAAAAATCGAAAATCGAT
2337971 AAAAAATCGAAAA-CGAT
1 AAAAAATCGAAAATCGAT
2337988 TTAGTGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 3 0.10
17 12 0.39
20 12 0.39
21 4 0.13
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (18 bp):
AAAAAATCGAAAATCGAT
Found at i:2341799 original size:25 final size:27
Alignment explanation
Indices: 2341754--2341811 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
2341744 TAAAAATACT
2341754 AAATTATACACTCAAACCCTAAATCCC
1 AAATTATACACTCAAACCCTAAATCCC
* *
2341781 AAATTATA-A-TCAATCCCTAAATTCC
1 AAATTATACACTCAAACCCTAAATCCC
2341806 AAATTA
1 AAATTA
2341812 GAACCCCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 20 0.69
26 1 0.03
27 8 0.28
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATTATACACTCAAACCCTAAATCCC
Found at i:2348063 original size:37 final size:37
Alignment explanation
Indices: 2347969--2348065 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
2347959 CATTTTCGTC
*
2347969 CTACTAGGATTCAAACTT-CTAAAAATATGATAAAATT
1 CTACTAGGATTCAAA-TTCCTAAAAATATAATAAAATT
* * * * *
2348006 TTCCTAGGATTCAAACTCCTAAAAATATAATAGAGTT
1 CTACTAGGATTCAAATTCCTAAAAATATAATAAAATT
* *
2348043 CTACTAAGATTTAAATTCCTAAA
1 CTACTAGGATTCAAATTCCTAAA
2348066 GATAAGATCC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 1 0.02
37 47 0.98
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTCAAATTCCTAAAAATATAATAAAATT
Found at i:2348470 original size:18 final size:18
Alignment explanation
Indices: 2348430--2348473 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2348420 ATTATATGGA
2348430 TATT-TTATTCATTTATT
1 TATTATTATTCATTTATT
*
2348447 TTTTATTATTCATGTTA-T
1 TATTATTATTCAT-TTATT
2348465 TATTATTAT
1 TATTATTAT
2348474 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATTTATT
Found at i:2348780 original size:19 final size:18
Alignment explanation
Indices: 2348727--2348794 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
2348717 ATCTTATAAC
*
2348727 TTTATATATTTATATTATTT
1 TTTAT-TATTTAT-TCATTT
2348747 TTTATTA-TT-TTCATTT
1 TTTATTATTTATTCATTT
2348763 TTTATCTATTTATTCA-TT
1 TTTAT-TATTTATTCATTT
*
2348781 ATTATTATATTATT
1 TTTATTAT-TTATT
2348795 ATTATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
16 10 0.24
17 6 0.14
18 15 0.36
19 6 0.14
20 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTATTTATTCATTT
Found at i:2353355 original size:183 final size:183
Alignment explanation
Indices: 2353047--2353579 Score: 908
Period size: 183 Copynumber: 2.9 Consensus size: 183
2353037 ATTAAATCCG
*
2353047 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGACTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* * *
2353112 ATAGATTATGTTCAAACTATGACACTACTCGGACACTTGGTAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTAAGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
2353177 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTAAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTAAGTGATTTATCCCTC
2353230 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
2353295 ATAGATTAAGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTAAGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* * * *
2353360 TTGTCAGGCCAAAGGCTTTGTAATGAGACGAACCCTTCAGTGATTTATCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTAAGTGATTTATCCCTC
* *
2353413 TAAAGCTGAGCTATTCTACTAAGGCAATTGGTTATAGAGAAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
2353478 ATAGATTACA-TTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGC
66 ATAGATTA-AGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGC
* *
2353541 TTTTGTTAGGTCAAAGACTTTGTGATGAGATGAACCCTT
129 TTTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTT
2353580 CAGTTAAACC
Statistics
Matches: 331, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 329 0.99
184 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTAAGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTAAGTGATTTATCCCTC
Found at i:2355217 original size:31 final size:31
Alignment explanation
Indices: 2355179--2355303 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
2355169 CCCGAAGGAC
* *
2355179 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
2355210 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2355241 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2355272 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
2355303 C
1 C
2355304 CCTCGACCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:2355507 original size:23 final size:24
Alignment explanation
Indices: 2355481--2355527 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
2355471 ATATACTTGT
*
2355481 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
2355504 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
2355528 CAGGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:2356070 original size:21 final size:21
Alignment explanation
Indices: 2356040--2356083 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2356030 ATTCTGTCGT
* *
2356040 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2356061 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2356082 TT
1 TT
2356084 ACCCAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2357138 original size:36 final size:36
Alignment explanation
Indices: 2357098--2357214 Score: 108
Period size: 36 Copynumber: 3.1 Consensus size: 36
2357088 ATACTTTGTC
2357098 TCACTTGAGATTGTTTTTCTCGAAAGAAGATTTATT
1 TCACTTGAGATTGTTTTTCTCGAAAGAAGATTTATT
** ** * * *
2357134 TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTC
1 TCACTTGAGATTGTTTTTCTCGAAAGAAGATTTATT
* * *
2357170 TCGCTTGAGATCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TCACTTGAGATTGTTTT-TCTCGAAAGAA-G-ATTT-ATT
2357210 TCACT
1 TCACT
2357215 CAAGGTTGTT
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
36 42 0.71
37 7 0.12
38 1 0.02
39 4 0.07
40 5 0.08
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (36 bp):
TCACTTGAGATTGTTTTTCTCGAAAGAAGATTTATT
Found at i:2357149 original size:72 final size:75
Alignment explanation
Indices: 2357057--2357231 Score: 218
Period size: 72 Copynumber: 2.4 Consensus size: 75
2357047 ATGCAGATGA
* * * * *
2357057 TTATCTCACTCAA-ATTTGTTTTTCTTTAAACATA-CTTTGTCTCACTTGAGATTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGATCGTTTTCACTC
2357119 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
2357129 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGATCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGATCGTTTTCACTCGA
2357194 AAGAAGGCAT
66 AAGAAGGCAT
*
2357204 TTCATTTCACTCAAGGTTGTTTTT-TTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
2357232 GAAGATTTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
71 1 0.01
72 49 0.54
73 11 0.12
74 1 0.01
75 8 0.09
76 20 0.22
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGATCGTTTTCACTCGA
AAGAAGGCAT
Found at i:2357266 original size:73 final size:71
Alignment explanation
Indices: 2357057--2357268 Score: 216
Period size: 72 Copynumber: 2.9 Consensus size: 71
2357047 ATGCAGATGA
* * * * * *
2357057 TTATCTCACTCAA-ATTTGTTTTTCTTTAAACATA-CTTTGTCTCACTTGAGATTGTTTTTCTCG
1 TTATTTCACTCAAGA-TTGTTTTTC-TTAAACA-AGATTTATCTCGCTTGAGATAGTTTTCCTCG
2357120 AAAGAAGAT
63 AAAGAAGAT
* *
2357129 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGATCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTT-AAACAAGATTTATCTCGCTTGAGATAGTTTTC-CTCGA
2357194 AAGAAGGCAT
64 AAGAA-G-AT
* * *
2357204 TTCATTTCACTCAAGGTTGTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGATAGTTTTCCTCGA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGATAGTTTTCCTCGA
2357267 AA
64 AA
2357269 CAGAAAATTT
Statistics
Matches: 122, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
71 3 0.02
72 47 0.39
73 24 0.20
74 22 0.18
75 6 0.05
76 20 0.16
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (71 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAACAAGATTTATCTCGCTTGAGATAGTTTTCCTCGAAA
GAAGAT
Found at i:2357472 original size:108 final size:105
Alignment explanation
Indices: 2357302--2357622 Score: 449
Period size: 108 Copynumber: 3.1 Consensus size: 105
2357292 ACAGTTTCTC
* *
2357302 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCC-TGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCCTTGAGATAGTTTCCCTCGAAACAGAAAA
*
2357366 TTTTGTCTTCCTTTAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTTCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
2357406 TTGAAAACATTTCCCTTTAAATGATTTTTTTTTCTCTCTCTTGAGATAGTTTCCCTCGAAACAGA
1 TTGAAAACATTTCCCTTGAAATGA--TTTTTTTCTCTC-CTTGAGATAGTTTCCCTCGAAACAGA
2357471 AAATTTTGTC-TCTCTTGAGACAGTTTCTCTTGAAACATAAACA
63 AAATTTTGTCTTC-CTTGAGACAGTTTCTCTTGAAACATAAACA
* * * *
2357514 TTGAAAA-ATTTCCCTTGAAATGAATTTTATCTC-GCTTGAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCCTTGAGATAGTTTCCCTCGAAACAGAAAA
* ** *
2357574 TTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTTGTCTTCCTTGAGACAGTTTCTCTTGAAACATAAACA
2357614 TTGAAAACA
1 TTGAAAACA
2357623 ATTTAACGAA
Statistics
Matches: 197, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
100 43 0.22
101 2 0.01
102 1 0.01
103 22 0.11
104 22 0.11
105 8 0.04
106 11 0.06
107 18 0.09
108 70 0.36
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCCTTGAGATAGTTTCCCTCGAAACAGAAAA
TTTTGTCTTCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:2357569 original size:36 final size:36
Alignment explanation
Indices: 2357522--2357597 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
2357512 CATTGAAAAA
* * *
2357522 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
2357558 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
2357594 TTTC
1 TTTC
2357598 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:2358002 original size:105 final size:104
Alignment explanation
Indices: 2357797--2358217 Score: 530
Period size: 105 Copynumber: 4.0 Consensus size: 104
2357787 ATATCGTGAC
* * * *
2357797 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCT-
2357862 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2357903 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTT-CT
2357967 AATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
2358008 ACTCCAGACAACGCAAGTTCAAC-TCTACGACGAACGGACCGTTGCTTGTCAA-TAA-AA-TT-T
1 ACTCCAGACAACGCAAGTTCAACTTC-ACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCT
* * *
2358068 CATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 AATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
2358108 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTT-CT
** * *
2358173 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATT-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
2358214 ACTC
1 ACTC
2358218 AGAACAATGC
Statistics
Matches: 277, Mismatches: 27, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
100 77 0.28
101 7 0.03
102 2 0.01
103 4 0.01
104 5 0.02
105 97 0.35
106 85 0.31
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (104 bp):
ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTA
ATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:2358813 original size:37 final size:37
Alignment explanation
Indices: 2358761--2358864 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
2358751 ATTTTCGTCA
*
2358761 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * *
2358798 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * * *
2358835 TACTAAGATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
2358865 CCACAAACAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
Found at i:2359242 original size:15 final size:17
Alignment explanation
Indices: 2359220--2359258 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
2359210 ATTATATGGA
2359220 TATT-TATTCAT-TTAT
1 TATTATATTCATGTTAT
2359235 T-TTATATTCATGTTAT
1 TATTATATTCATGTTAT
2359251 TATTATAT
1 TATTATAT
2359259 GTATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 8 0.38
16 5 0.24
17 6 0.29
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTATATTCATGTTAT
Found at i:2359530 original size:14 final size:14
Alignment explanation
Indices: 2359496--2359551 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
2359486 TAACTTTATA
2359496 TATTTATATTATTTT
1 TATTTAT-TTATTTT
*
2359511 TA-TTATTTGTTTT
1 TATTTATTTATTTT
* *
2359524 TATTTATTCATTAT
1 TATTTATTTATTTT
2359538 TATTATATTATATT
1 TATT-TATT-TATT
2359552 AAAAAGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 8 0.24
14 16 0.48
15 6 0.18
16 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
TATTTATTTATTTT
Found at i:2360802 original size:21 final size:19
Alignment explanation
Indices: 2360777--2360817 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2360767 CAATTGATAC
2360777 AAATATTAGTTTTATTTTAAT
1 AAATA-TAGTTTTA-TTTAAT
*
2360798 AAATATATTTTTATTTAAT
1 AAATATAGTTTTATTTAAT
2360817 A
1 A
2360818 TTCAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
AAATATAGTTTTATTTAAT
Found at i:2369464 original size:20 final size:20
Alignment explanation
Indices: 2369429--2369469 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2369419 ATTATTTATT
* * *
2369429 AAAAATATTAATATCTTAAA
1 AAAAATATGAAAATCTGAAA
2369449 AAAAATATGAAAATCTGAAA
1 AAAAATATGAAAATCTGAAA
2369469 A
1 A
2369470 GCGCAAGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATATGAAAATCTGAAA
Found at i:2384005 original size:31 final size:31
Alignment explanation
Indices: 2383958--2384031 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
2383948 AACCGAATTT
* *
2383958 AACATTAGACACCTAAAAGTATAACGTCAGA
1 AACATTAGGCACCTAAAAGGATAACGTCAGA
* * *
2383989 AACGTTAGGCACCTAAAAGGGTAACGTCGGA
1 AACATTAGGCACCTAAAAGGATAACGTCAGA
*
2384020 AACACTAGGCAC
1 AACATTAGGCAC
2384032 TTATTTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (31 bp):
AACATTAGGCACCTAAAAGGATAACGTCAGA
Found at i:2387214 original size:23 final size:22
Alignment explanation
Indices: 2387188--2387246 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
2387178 GGAGAGAGAA
2387188 TAATTTTTTTA-CGATTAATATTT
1 TAATTTTTTTATCG-TTAA-ATTT
* *
2387211 TAATTATTCTATCGTTAAATTT
1 TAATTTTTTTATCGTTAAATTT
2387233 TATATTTTATTTAT
1 TA-ATTTT-TTTAT
2387247 AAAAGAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 6 0.21
23 17 0.59
24 6 0.21
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (22 bp):
TAATTTTTTTATCGTTAAATTT
Found at i:2389920 original size:2 final size:2
Alignment explanation
Indices: 2389913--2389938 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2389903 AATAACGTAA
2389913 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
2389939 TAGTAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2390237 original size:166 final size:172
Alignment explanation
Indices: 2389826--2390280 Score: 674
Period size: 166 Copynumber: 2.6 Consensus size: 172
2389816 TATATATATA
2389826 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAAGAAGAAAAAAAAAGTATAC
1 TATATACA-ATATATTAAAATATAACATTAAGCAAAAATAATC-----A-AAAAAAAAAGTATAC
2389891 GTATATAATAATAATAACGTAAATATATATATATATATATATATATATTAGTAAAAAGAAGATAA
59 GTATATAATAATAATAACGT--A-A-ATATATATATATATATATATATTAGTAAAAAGAAGATAA
2389956 TAGTAATAGTTAAATTAAAAAATAATATATACATATATAATAATTTGTAAAACAG
120 TAGTAATAGTTAAATT-AAAAATAATATATACA-ATATAATAATTTGTAAAACAG
*
2390011 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAATAAAAAAAGTATACGCATA
1 TATATACA-ATATATTAAAATATAACATTAAGCAAAAATAATCAAA-AAAAAAAGTATACGTATA
*
2390076 TAATAATAACAACGTAAATATATATATATATATA-A-ATTAGT-AAAAGAAGATAATAGTAATAG
64 TAATAATAATAACGTAAATATATATATATATATATATATTAGTAAAAAGAAGATAATAGTAATAG
2390138 TTAAATT-AAAATAATATATAC-ATAT-ATAATTTGTAAAACAG
129 TTAAATTAAAAATAATATATACAATATAATAATTTGTAAAACAG
2390179 TATATAC-ATATATTAAAATATAACATTAAGC-AAAATAATCAATAAAAAAAAGGTATACGTATA
1 TATATACAATATATTAAAATATAACATTAAGCAAAAATAATCAA-AAAAAAAA-GTATACGTATA
*
2390242 TAATAATAATAACGTATATATATATATATATATATATAT
64 TAATAATAATAACGTAAATATATATATATATATATATAT
2390281 ATATATATAT
Statistics
Matches: 260, Mismatches: 5, Indels: 27
0.89 0.02 0.09
Matches are distributed among these distances:
165 18 0.07
166 67 0.26
167 1 0.00
168 25 0.10
169 4 0.02
171 14 0.05
173 28 0.11
174 6 0.02
175 1 0.00
176 17 0.07
177 1 0.00
178 1 0.00
179 2 0.01
180 32 0.12
185 43 0.17
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.32
Consensus pattern (172 bp):
TATATACAATATATTAAAATATAACATTAAGCAAAAATAATCAAAAAAAAAAGTATACGTATATA
ATAATAATAACGTAAATATATATATATATATATATATTAGTAAAAAGAAGATAATAGTAATAGTT
AAATTAAAAATAATATATACAATATAATAATTTGTAAAACAG
Found at i:2390261 original size:2 final size:2
Alignment explanation
Indices: 2390256--2390307 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2390246 AATAATAACG
2390256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2390298 TA TA TA TA TA
1 TA TA TA TA TA
2390308 AATTAGTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2391973 original size:105 final size:105
Alignment explanation
Indices: 2391790--2392550 Score: 1228
Period size: 105 Copynumber: 7.4 Consensus size: 105
2391780 GTGTTGTTTC
* * * ** * *
2391790 GAGTCCGATGTCCTTCGTTGTGGAGTTGAAATTGAATCTG-AA-T--GAAAT-TTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
* *
2391850 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* * *
2391890 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTT-GTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTCGTTGACAA
* * *
2391954 GCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
2391995 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
2392060 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
2392100 GAGTCC-A-A-------TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
2392156 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
2392196 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
2392261 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
2392301 GAGTCTAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
2392366 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
2392406 GAGTCTAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
2392471 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
2392511 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
2392551 GGTAAAACCT
Statistics
Matches: 624, Mismatches: 21, Indels: 27
0.93 0.03 0.04
Matches are distributed among these distances:
96 94 0.15
97 1 0.00
98 1 0.00
100 35 0.06
101 1 0.00
102 1 0.00
103 1 0.00
104 8 0.01
105 480 0.77
106 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:2402822 original size:10 final size:10
Alignment explanation
Indices: 2402797--2402830 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2402787 AACGTTAGTA
*
2402797 AAATAGAAAT
1 AAATAAAAAT
*
2402807 AGATAAAAAT
1 AAATAAAAAT
2402817 AAATAAAAAT
1 AAATAAAAAT
2402827 AAAT
1 AAAT
2402831 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:2403987 original size:10 final size:10
Alignment explanation
Indices: 2403974--2404016 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
2403964 CTATTATAAG
2403974 TATATACATA
1 TATATACATA
*
2403984 TATATATATA
1 TATATACATA
*
2403994 TATATATATA
1 TATATACATA
*
2404004 TATACACATA
1 TATATACATA
2404014 TAT
1 TAT
2404017 TAAAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATACATA
Found at i:2404016 original size:2 final size:2
Alignment explanation
Indices: 2403974--2404007 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2403964 CTATTATAAG
*
2403974 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2404008 CACATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2404370 original size:174 final size:175
Alignment explanation
Indices: 2404002--2404458 Score: 783
Period size: 174 Copynumber: 2.6 Consensus size: 175
2403992 TATATATATA
*
2404002 TATATACACATATATTAAAATATAACATTAAGCAAAAATAATCAAAGAAGAAAAAAAAAGTATAC
1 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATC----AAGAAAAAAAAAGTATAC
*
2404067 GTATATAATAATAATAACGTAAATATATATATATATATATATATAGTAAAAAGAAGATAATAGTA
62 GTATATAATAATAATAACGTAAATATATATATATATATATAAATAGTAAAAAGAAGATAATAGTA
2404132 ATAGTTAAATTAAAAAATAATATATACATATATAATAATTTGTAAAACAG
127 ATAGTTAAATT-AAAAATAATATATACATATATAATAATTTGTAAAACAG
* *
2404182 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAA-ATAAAAAAAGTATACGCAT
1 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAGAAAAAAAAAGTATACGTAT
*
2404246 ATAATAATAACAACGTAAATATATATATATATATATAAATTAGTAAAAAGAAGATAATAGTAATA
66 ATAATAATAATAACGTAAATATATATATATATATATAAA-TAGTAAAAAGAAGATAATAGTAATA
2404311 GTTAAATT-AAAATAATATATACATATATAATAATTTGTAAAACAG
130 GTTAAATTAAAAATAATATATACATATATAATAATTTGTAAAACAG
*
2404356 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATAAAAAAAAAGGTATACGTA
1 TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAGAAAAAAAAA-GTATACGTA
2404421 TATAATAATAATAACGTAAATATATATATATATATATA
65 TATAATAATAATAACGTAAATATATATATATATATATA
2404459 TATATATATA
Statistics
Matches: 266, Mismatches: 8, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
174 82 0.31
175 62 0.23
176 80 0.30
180 42 0.16
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (175 bp):
TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAAGAAAAAAAAAGTATACGTAT
ATAATAATAATAACGTAAATATATATATATATATATAAATAGTAAAAAGAAGATAATAGTAATAG
TTAAATTAAAAATAATATATACATATATAATAATTTGTAAAACAG
Found at i:2404445 original size:85 final size:84
Alignment explanation
Indices: 2404001--2404455 Score: 311
Period size: 85 Copynumber: 5.2 Consensus size: 84
2403991 ATATATATAT
* *
2404001 ATATATACACATATATTAAAATATAACATTAAGCAAAAATAATCAAAGAAGAAAAAAAAAGTATA
1 ATATATACATATATATTAAAATATAACATTAAGCAAAAATAATC----AATAAAAAAAAAGTATA
2404066 CGTATATAATAATAATAACGTAA
62 CGTATATAATAATAATAACGTAA
* * * ** * * *
2404089 ATATATATATATATA-TATATATAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAATAAT
1 ATATATACATATATATTA-AAATA-TAACATTAAG-CAA-A--AATA-ATCAA-TAAAAAA-AA-
* **
2404153 A-TATACATATATAATAATTTGTAA---AA
56 AGTATACGTATATAATAA-TAATAACGTAA
*
2404179 CAGTATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAA-ATAAAAAAAGTATACG
1 -A-TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATAAAAAAAAAGTATACG
* *
2404243 CATATAATAATAACAACGTAA
64 TATATAATAATAATAACGTAA
* * * ** * *
2404264 ATATATATATATATATATAAATTAGTAAAAAGAAG-ATAATAGTAAT-AGTTAAATTAAAATAAT
1 ATATATACATATATAT-TAAAATA-TAACATTAAGCA-AA-AATAATCA-ATAAA--AAAA-AA-
* * **
2404327 ATATACATATATAATAATTTGTAA---AA
57 GTATACGTATATAATAA-TAATAACGTAA
2404353 CAGTATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATAAAAAAAAAGGTATAC
1 -A-TATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATAAAAAAAAA-GTATAC
2404418 GTATATAATAATAATAACGTAA
63 GTATATAATAATAATAACGTAA
*
2404440 ATATATATATATATAT
1 ATATATACATATATAT
2404456 ATATATATAT
Statistics
Matches: 277, Mismatches: 54, Indels: 75
0.68 0.13 0.18
Matches are distributed among these distances:
82 4 0.01
83 30 0.11
84 17 0.06
85 43 0.16
86 13 0.05
87 10 0.04
88 26 0.09
89 24 0.09
90 18 0.06
91 43 0.16
92 37 0.13
93 11 0.04
94 1 0.00
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (84 bp):
ATATATACATATATATTAAAATATAACATTAAGCAAAAATAATCAATAAAAAAAAAGTATACGTA
TATAATAATAATAACGTAA
Found at i:2404447 original size:2 final size:2
Alignment explanation
Indices: 2404440--2404482 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2404430 AATAACGTAA
2404440 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
2404482 A
1 A
2404483 AATTAGTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2407102 original size:30 final size:28
Alignment explanation
Indices: 2407066--2407137 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
2407056 TTTTTGTTTT
*
2407066 TTATAATTCTT-TTTACATTATAAAATTAAA
1 TTATAATT-TTATTTAAATTA-AAAATT-AA
*
2407096 TTATAATTTTATTTAAATTAAATATTAA
1 TTATAATTTTATTTAAATTAAAAATTAA
*
2407124 TTATCATTTATATT
1 TTATAATTT-TATT
2407138 ATCAAAGTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.27
29 11 0.30
30 16 0.43
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATAATTTTATTTAAATTAAAAATTAA
Found at i:2409064 original size:16 final size:16
Alignment explanation
Indices: 2409043--2409076 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2409033 GAGGTATGTT
2409043 CACGAACATAAACGAA
1 CACGAACATAAACGAA
2409059 CACGAACATAAACGAA
1 CACGAACATAAACGAA
2409075 CA
1 CA
2409077 AATTTTTTTT
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:0.56, C:0.26, G:0.12, T:0.06
Consensus pattern (16 bp):
CACGAACATAAACGAA
Found at i:2409168 original size:16 final size:16
Alignment explanation
Indices: 2409147--2409207 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
2409137 TAATAAATAA
2409147 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2409163 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* * *
2409179 ATGAATATAAATGAAC
1 ACGAACATAAACGAAC
2409195 ACGAACATAAACG
1 ACGAACATAAACG
2409208 TTGGATACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.56, C:0.20, G:0.13, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2410702 original size:30 final size:30
Alignment explanation
Indices: 2410406--2410685 Score: 551
Period size: 30 Copynumber: 9.3 Consensus size: 30
2410396 GAAGGACCTA
2410406 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410436 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410466 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410496 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
2410526 TCCAGAGGTCATAAAGATCATCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410556 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410586 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410616 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410646 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2410676 TCCAGAGGTC
1 TCCAGAGGTC
2410686 CCGAAGAACC
Statistics
Matches: 248, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 248 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:2411115 original size:2 final size:2
Alignment explanation
Indices: 2411103--2411133 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2411093 TACACAACTC
2411103 AT AT A- 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
2411134 TGTAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2415411 original size:30 final size:30
Alignment explanation
Indices: 2415055--2415394 Score: 662
Period size: 30 Copynumber: 11.3 Consensus size: 30
2415045 GAAGGACCTA
2415055 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415085 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415115 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415145 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415175 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415205 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
2415235 TCTAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415265 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415295 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415325 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
2415355 TCCAGAGGTCATAAAGATCCTCGGTAAGTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
2415385 TCCAGAGGTC
1 TCCAGAGGTC
2415395 CCGAAGAACC
Statistics
Matches: 307, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 307 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:2417680 original size:14 final size:14
Alignment explanation
Indices: 2417663--2417718 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
2417653 AATGAACATA
2417663 AACGAACATAACCG
1 AACGAACATAACCG
2417677 AACGAACAT-A---
1 AACGAACATAACCG
2417687 AACGAACATAACCG
1 AACGAACATAACCG
* *
2417701 TATGAACATAACCG
1 AACGAACATAACCG
2417715 AACG
1 AACG
2417719 TTCACAAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 23 0.68
ACGTcount: A:0.50, C:0.25, G:0.14, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:2417683 original size:24 final size:24
Alignment explanation
Indices: 2417656--2417717 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
2417646 ATAAATGAAT
2417656 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
* *
2417680 GAACATAAACGAACATAACCGTAT
1 GAACATAAACGAACATAACCGAAC
*
2417704 GAACATAACCGAAC
1 GAACATAAACGAAC
2417718 GTTCACAAAC
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:0.52, C:0.24, G:0.13, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:2426492 original size:675 final size:676
Alignment explanation
Indices: 2424988--2427012 Score: 4025
Period size: 675 Copynumber: 3.0 Consensus size: 676
2424978 GCACTCATAT
2424988 GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
1 GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
*
2425053 AACCGTAGGAGCTTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
66 AACCGTAGGAGATTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
2425118 TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
131 TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
2425183 ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
196 ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
2425248 GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
261 GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
2425313 AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
326 AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
2425378 TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
391 TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
2425443 TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACCTTTTTGCAT
456 TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACCTTTTTGCAT
2425508 TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
521 TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
2425573 AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATTCT
586 AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATTCT
2425638 ATTAAAGATTGTAAACAAATAAGAAC
651 ATTAAAGATTGTAAACAAATAAGAAC
2425664 GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
1 GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
2425729 AACCGTAGGAGATTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
66 AACCGTAGGAGATTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
2425794 TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
131 TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
2425859 ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
196 ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
2425924 GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
261 GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
2425989 AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
326 AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
2426054 TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
391 TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
2426119 TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACC-TTTTGCAT
456 TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACCTTTTTGCAT
2426183 TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
521 TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
2426248 AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATTCT
586 AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATTCT
2426313 ATTAAAGATTGTAAACAAATAAGAAC
651 ATTAAAGATTGTAAACAAATAAGAAC
2426339 GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
1 GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
2426404 AACCGTAGGAGATTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
66 AACCGTAGGAGATTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
2426469 TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
131 TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
2426534 ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
196 ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
2426599 GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
261 GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
2426664 AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
326 AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
2426729 TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
391 TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
2426794 TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACCTTTTTGCAT
456 TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACCTTTTTGCAT
2426859 TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
521 TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
*
2426924 AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATGCT
586 AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATTCT
2426989 ATTAAAGATTGTAAACAAATAAGA
651 ATTAAAGATTGTAAACAAATAAGA
2427013 TCCAGCTTGC
Statistics
Matches: 1346, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
675 675 0.50
676 671 0.50
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (676 bp):
GTAAATCAAAAGTCATGAAGAGATAGGAATTAAACATACTCCTCCATCTGTTGATGCATAAACAC
AACCGTAGGAGATTTGTCAATGTCTTTAATTAACCGATAAGCAACCAGTCTGTCATCGTCTCTAA
TCAAAGATAAAGAATCAGCAGGTTCTTCAAGATAACGTATAATCCGGTTGTTGTATATCTGCAGT
ATAAGTTAATGTTTACAATTTTTTTTAACATTCATAAGCTAAAAATGATATCATTAATTAACCTA
GCACATGCAGATGTTGTAAAACAATGCAGTGTACCTCAGCCACCAGAAAGGTCTCATCAGCCCCC
AAAGAAGATGCAACACTTAGAGCCTGGATAAGGTCTTCAAATTTCCCACTCTTCGGGACAGTAAC
TGTAAGTGGAGATGGCTGAGACGTTCCATCAGTGCTGATGATAGTTACAATCATTGTCCGCAAAG
TTGTTGATGGTAGAGGTAGTGACAGGTAGATGAATGGATCAAATGTTGTGGAGACCTTTTTGCAT
TCTGGACAAACTAATGTTGATTTAAATTGACCCTGCGAGGAATATAATCTAGACCAATTATGTAG
AATAATACATTTTCCAACCAATTGAAGCAAACATCACCTACTTGTTCACAGAAAATCAAAATTCT
ATTAAAGATTGTAAACAAATAAGAAC
Found at i:2442993 original size:2 final size:2
Alignment explanation
Indices: 2442986--2443044 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
2442976 GTTTTGTGAT
2442986 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2443028 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
2443045 GCCCTGCTTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2451435 original size:2 final size:2
Alignment explanation
Indices: 2451428--2451457 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2451418 CACCAAAATA
2451428 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
2451458 TATTGGCCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2452019 original size:21 final size:21
Alignment explanation
Indices: 2451993--2452037 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2451983 TGAACCACGT
2451993 TCAGGCTTAGGGCATGCTTTG
1 TCAGGCTTAGGGCATGCTTTG
2452014 TCAGGCTTAGGGCATGCTTTG
1 TCAGGCTTAGGGCATGCTTTG
2452035 TCA
1 TCA
2452038 AGCTCTACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (21 bp):
TCAGGCTTAGGGCATGCTTTG
Found at i:2456493 original size:17 final size:16
Alignment explanation
Indices: 2456468--2456547 Score: 70
Period size: 17 Copynumber: 4.7 Consensus size: 16
2456458 TAAAATAAAG
*
2456468 AATATATTTAATTTTT
1 AATAAATTTAATTTTT
*
2456484 AAATAAATTTAAATTTT
1 -AATAAATTTAATTTTT
* *
2456501 AATAAATTTAATATAT
1 AATAAATTTAATTTTT
*
2456517 AATTTAAAATTAAATTATTT
1 AA--T-AAATTTAATT-TTT
2456537 AATAAATTTAA
1 AATAAATTTAA
2456548 AAATCAAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
16 15 0.30
17 21 0.42
18 2 0.04
19 8 0.16
20 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAAATTTAATTTTT
Found at i:2456537 original size:27 final size:26
Alignment explanation
Indices: 2456477--2456563 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 26
2456467 GAATATATTT
* *
2456477 AATT-TTTAA-ATAAATTTAAATTTT
1 AATTATTTAATATAAATTTAAAATTA
*
2456501 AATAAATTTAATATATAATTTAAAATTA
1 AAT-TATTTAATATA-AATTTAAAATTA
*
2456529 AATTATTT-A-ATAAATTTAAAAATCA
1 AATTATTTAATATAAATTT-AAAATTA
*
2456554 AATAATTTAA
1 AATTATTTAA
2456564 AAATTACAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
24 8 0.16
25 16 0.31
26 7 0.14
27 7 0.14
28 13 0.25
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTATTTAATATAAATTTAAAATTA
Found at i:2458328 original size:2 final size:2
Alignment explanation
Indices: 2458287--2458311 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2458277 TTTTTAAATA
2458287 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2458312 ATTATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2459554 original size:23 final size:23
Alignment explanation
Indices: 2459528--2459607 Score: 115
Period size: 23 Copynumber: 3.4 Consensus size: 23
2459518 GTAAAAAACA
* *
2459528 TAAACGAACACAATAAACAAATG
1 TAAACGAACACAATAAACGAACG
*
2459551 TAAACGAACACAAATGAACGAACG
1 TAAACGAACAC-AATAAACGAACG
*
2459575 TAAACGAACACAATAAATGAACG
1 TAAACGAACACAATAAACGAACG
2459598 TAAACGAACA
1 TAAACGAACA
2459608 TAAATGAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 31 0.61
24 20 0.39
ACGTcount: A:0.57, C:0.19, G:0.12, T:0.11
Consensus pattern (23 bp):
TAAACGAACACAATAAACGAACG
Found at i:2459808 original size:14 final size:14
Alignment explanation
Indices: 2459788--2459938 Score: 73
Period size: 14 Copynumber: 11.9 Consensus size: 14
2459778 GATTGGACTA
*
2459788 AACATAAATGAACG
1 AACATAAACGAACG
*
2459802 TACATAAACGAACG
1 AACATAAACGAACG
* * *
2459816 CACATAAATGAATG
1 AACATAAACGAACG
2459830 AACAT--A--AACG
1 AACATAAACGAACG
* *
2459840 AATATAAATGAACG
1 AACATAAACGAACG
2459854 AACAT--A--AACG
1 AACATAAACGAACG
* *
2459864 AATATAAATGAACG
1 AACATAAACGAACG
2459878 AACAT--A--AACG
1 AACATAAACGAACG
* *
2459888 AATATAAATGAACG
1 AACATAAACGAACG
2459902 AACAT--A--AACG
1 AACATAAACGAACG
* *
2459912 AATATAAATGAACG
1 AACATAAACGAACG
2459926 AACATAAACGAAC
1 AACATAAACGAAC
2459939 ATATTACCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
10 31 0.30
12 8 0.08
14 66 0.63
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.16
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:2459846 original size:24 final size:24
Alignment explanation
Indices: 2459791--2459937 Score: 231
Period size: 24 Copynumber: 6.0 Consensus size: 24
2459781 TGGACTAAAC
* *
2459791 ATAAATGAACGTACATAAACGAACGCAC
1 ATAAATGAACGAACATAAACG-A---AT
*
2459819 ATAAATGAATGAACATAAACGAAT
1 ATAAATGAACGAACATAAACGAAT
2459843 ATAAATGAACGAACATAAACGAAT
1 ATAAATGAACGAACATAAACGAAT
2459867 ATAAATGAACGAACATAAACGAAT
1 ATAAATGAACGAACATAAACGAAT
2459891 ATAAATGAACGAACATAAACGAAT
1 ATAAATGAACGAACATAAACGAAT
2459915 ATAAATGAACGAACATAAACGAA
1 ATAAATGAACGAACATAAACGAA
2459938 CATATTACCA
Statistics
Matches: 115, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
24 95 0.83
27 1 0.01
28 19 0.17
ACGTcount: A:0.57, C:0.14, G:0.13, T:0.16
Consensus pattern (24 bp):
ATAAATGAACGAACATAAACGAAT
Found at i:2465168 original size:21 final size:22
Alignment explanation
Indices: 2465133--2465174 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2465123 GATCTAAGAA
*
2465133 TATTCAATTAAAAATTACATTC
1 TATTCAATAAAAAATTACATTC
2465155 TATTCAA-AAAAAATTACATT
1 TATTCAATAAAAAATTACATT
2465175 AAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTCAATAAAAAATTACATTC
Found at i:2476973 original size:61 final size:60
Alignment explanation
Indices: 2476856--2476973 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
2476846 TAGTCAGGTG
* * * ** *
2476856 ACCATTTTGTAACTTTTAATAGTTGATGGACTCAATAAAATAACTTCTTATAGTCAAAGA
1 ACCATTTTATAACTTTTAATAATCGATAAACTCAATAAAATAACTTCCTATAGTCAAAGA
* *
2476916 ACCATTTTATAACTTTTAATAATCGATAAAAGTCAATAAAAT-AGTATCCTATAGTCAA
1 ACCATTTTATAACTTTTAATAATCGAT-AAACTCAATAAAATAACT-TCCTATAGTCAA
2476974 GGGACTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
60 26 0.54
61 22 0.46
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (60 bp):
ACCATTTTATAACTTTTAATAATCGATAAACTCAATAAAATAACTTCCTATAGTCAAAGA
Found at i:2477694 original size:2 final size:2
Alignment explanation
Indices: 2477687--2477712 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2477677 AACTATTTAA
2477687 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
2477713 TATTTCCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2485591 original size:33 final size:34
Alignment explanation
Indices: 2485549--2485634 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 34
2485539 GCCAGTCAAT
* *
2485549 AGGGATGATGGCCCTATT-AGTAGGCCAAGTAGCA
1 AGGGATGATGCCCCT-TTAAGCAGGCCAAGTAGCA
2485583 AGGG-TGATGCCCCTTTAAGCAGGCCAAGTA--A
1 AGGGATGATGCCCCTTTAAGCAGGCCAAGTAGCA
* *
2485614 TCGGGATGATGCCCCTGTAAG
1 -AGGGATGATGCCCCTTTAAG
2485635 TAGCCAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
31 1 0.02
32 5 0.11
33 35 0.78
34 4 0.09
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (34 bp):
AGGGATGATGCCCCTTTAAGCAGGCCAAGTAGCA
Found at i:2488124 original size:13 final size:13
Alignment explanation
Indices: 2488106--2488131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2488096 TGAATTCAAA
2488106 ATTAAAATGATTC
1 ATTAAAATGATTC
2488119 ATTAAAATGATTC
1 ATTAAAATGATTC
2488132 GAACAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTAAAATGATTC
Found at i:2488418 original size:20 final size:20
Alignment explanation
Indices: 2488379--2488418 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2488369 TCTAATAATT
* *
2488379 TTAAATTTTTTTATATAAAA
1 TTAAATATTTTTATAAAAAA
*
2488399 TTAAATATTTTTCTAAAAAA
1 TTAAATATTTTTATAAAAAA
2488419 GAAAATACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATATTTTTATAAAAAA
Found at i:2488798 original size:22 final size:20
Alignment explanation
Indices: 2488773--2488814 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2488763 ATTTAAAAGA
*
2488773 AATAATGTTTTTATATAAATAT
1 AATAATATTTTT-T-TAAATAT
2488795 AATAATATTTTTTTAAATAT
1 AATAATATTTTTTTAAATAT
2488815 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AATAATATTTTTTTAAATAT
Found at i:2490475 original size:60 final size:60
Alignment explanation
Indices: 2490358--2490487 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
2490348 CTATCATATG
* * * * * * * *
2490358 TCCCCAAACTATGA-TGCTCATTTTAATTTGGTCATTAACCTTTTGAATATTTTAATTTCA
1 TCCCCAAACTACGACT-TTCATTTTAAATTAGTCATTAAACTTCTGAACATTTCAATTTCA
* *
2490418 TCCTCAAACTACGACTTTCATTTTAAATTAGTCTTTAAACTTCTGAACATTTCAATTTCA
1 TCCCCAAACTACGACTTTCATTTTAAATTAGTCATTAAACTTCTGAACATTTCAATTTCA
2490478 TCCCCAAACT
1 TCCCCAAACT
2490488 TTTGGATCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (60 bp):
TCCCCAAACTACGACTTTCATTTTAAATTAGTCATTAAACTTCTGAACATTTCAATTTCA
Found at i:2491190 original size:2 final size:2
Alignment explanation
Indices: 2491183--2491212 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2491173 CTACCCCGAT
2491183 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2491213 TTTATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2491242 original size:34 final size:33
Alignment explanation
Indices: 2491199--2491271 Score: 128
Period size: 34 Copynumber: 2.2 Consensus size: 33
2491189 TATATATATA
2491199 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATA-TTTTTATATTAAT
*
2491233 TATATATATAATATTTTATATTTTTATGTTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
2491266 TATATA
1 TATATA
2491272 ATACAAACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 18 0.47
34 20 0.53
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATATATATAATATTTTATATTTTTATATTAAT
Found at i:2491269 original size:42 final size:42
Alignment explanation
Indices: 2491191--2491270 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
2491181 ATTATATATA
*
2491191 TATATATATATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATATATATATAATATTTTATATTTATTATATTAAT
* *
2491233 TATATATATA-ATATTTTATATTTT-TATGTTAATTATAT
1 TATATATATATATATATAATATTTTATAT-TT-ATTATAT
2491271 AATACAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 3 0.09
41 14 0.42
42 16 0.48
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (42 bp):
TATATATATATATATATAATATTTTATATTTATTATATTAAT
Found at i:2496858 original size:26 final size:26
Alignment explanation
Indices: 2496804--2496860 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2496794 TTTAATATTT
* *
2496804 TTTATATTTTTTTAAAATATATGAAA
1 TTTATAATTTTTTAAAATATATAAAA
*
2496830 TTTATAATTTTTTAAATTATA-AAATA
1 TTTATAATTTTTTAAAATATATAAA-A
2496856 TTTAT
1 TTTAT
2496861 CATCATCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTATAATTTTTTAAAATATATAAAA
Found at i:2497215 original size:37 final size:37
Alignment explanation
Indices: 2497142--2497216 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
2497132 GTTGAAAAAT
* *
2497142 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
2497179 ATTTATATAATTATT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATT-TTCTTTAAAAAATTGAAAATCATAAA
2497216 A
1 A
2497217 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 17 0.52
39 2 0.06
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:2498176 original size:26 final size:26
Alignment explanation
Indices: 2498137--2498186 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2498127 AATAAATTAT
*
2498137 TTTTTCAAAATATATAAAATTTATAA
1 TTTTTCAAAATATAAAAAATTTATAA
2498163 TTTTT-AAAAGTATAAAAAATTTAT
1 TTTTTCAAAA-TATAAAAAATTTAT
2498187 TATTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TTTTTCAAAATATAAAAAATTTATAA
Found at i:2498197 original size:26 final size:25
Alignment explanation
Indices: 2498143--2498202 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
2498133 TTATTTTTTC
* *
2498143 AAAATATATAAAATTTATAATTTTTA
1 AAAATATAAAAAATTTATAA-TTATA
* *
2498169 AAAGTATAAAAAATTTATTATTATA
1 AAAATATAAAAAATTTATAATTATA
2498194 AAAA-ATAAA
1 AAAATATAAA
2498203 TTTATGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 5 0.17
25 7 0.24
26 17 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATATAAAAAATTTATAATTATA
Found at i:2502345 original size:2 final size:2
Alignment explanation
Indices: 2502338--2502373 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2502328 TGTGTTATTA
2502338 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
2502374 TCATTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2503703 original size:53 final size:53
Alignment explanation
Indices: 2503641--2503742 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
2503631 TATAATAAAA
*
2503641 TAAAAGAAAAATAATAAATATCGACGATCGACAACCAATATCAAAACTAGTAT
1 TAAAAGAAAAATAATAAATATCGACGATCGACAACCAAAATCAAAACTAGTAT
* * * *
2503694 TAAAGGAAAAATAATGAATATCGACGATCGACAACTAAAATTAAAACTA
1 TAAAAGAAAAATAATAAATATCGACGATCGACAACCAAAATCAAAACTA
2503743 TTGTTGATCG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.21
Consensus pattern (53 bp):
TAAAAGAAAAATAATAAATATCGACGATCGACAACCAAAATCAAAACTAGTAT
Found at i:2520625 original size:31 final size:31
Alignment explanation
Indices: 2520557--2520626 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
2520547 GATACCTAAT
*
2520557 TTTTTAGGGTTCAATTATGTACTTAAACTTGA
1 TTTTTA-GGTTCAATTATGTACTTAAACTAGA
*
2520589 CTTTTAGGTTCAATT-TGATACTTAAACATAG-
1 TTTTTAGGTTCAATTATG-TACTTAAAC-TAGA
2520620 TTTTTAG
1 TTTTTAG
2520627 TACAAATTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 24 0.73
32 7 0.21
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTTTAGGTTCAATTATGTACTTAAACTAGA
Found at i:2540854 original size:34 final size:33
Alignment explanation
Indices: 2540786--2540908 Score: 174
Period size: 34 Copynumber: 3.7 Consensus size: 33
2540776 AGGTGTTTTG
* *
2540786 GTTCTAGCTAAGCCCGTGAAAAGCTAGGGAAAT
1 GTTCTAGTTTAGCCCGTGAAAAGCTAGGGAAAT
* *
2540819 GTTCTAGTTTAGCTCATGAAAAGCTCAGGGAAAT
1 GTTCTAGTTTAGCCCGTGAAAAGCT-AGGGAAAT
*
2540853 GTTCTAGTTTAGCCCGTGAAAAGCTTAAGGAAAT
1 GTTCTAGTTTAGCCCGTGAAAAGC-TAGGGAAAT
*
2540887 GTTCTAATTTAGCCCGTGAAAA
1 GTTCTAGTTTAGCCCGTGAAAA
2540909 ACTATGAAGT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
33 21 0.26
34 58 0.73
35 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
GTTCTAGTTTAGCCCGTGAAAAGCTAGGGAAAT
Found at i:2543064 original size:2 final size:2
Alignment explanation
Indices: 2543059--2543084 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2543049 ATATATATAT
2543059 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
2543085 GAGTAGGGAA
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:2543863 original size:9 final size:10
Alignment explanation
Indices: 2543839--2543873 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
2543829 GAAAAATAGT
2543839 TAAAATTATAA
1 TAAAATTA-AA
2543850 TAAAATTAAA
1 TAAAATTAAA
2543860 -AAAATTAAA
1 TAAAATTAAA
2543869 TAAAA
1 TAAAA
2543874 ATGAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 6 0.26
11 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAATTAAA
Found at i:2546335 original size:31 final size:31
Alignment explanation
Indices: 2546298--2546377 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
2546288 TTCGAATATC
* *
2546298 ATAAAATAATCATTACACTTCTCAAATGATT
1 ATAAAATAATCATTAAACTTATCAAATGATT
* * * *
2546329 GTAAAATTATCATTAAAATTTATCAAATTATT
1 ATAAAATAATCATT-AAACTTATCAAATGATT
*
2546361 ATAAAATGATCATTAAA
1 ATAAAATAATCATTAAA
2546378 TTAATTGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 15 0.38
32 25 0.62
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (31 bp):
ATAAAATAATCATTAAACTTATCAAATGATT
Found at i:2546389 original size:31 final size:32
Alignment explanation
Indices: 2546319--2546398 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
2546309 ATTACACTTC
* * * *
2546319 TCAAATGATTGTAAAATTATCATTAAAATTTA
1 TCAAATTATTATAAAATGATCATTAAAATTAA
2546351 TCAAATTATTATAAAATGATCATT-AAATTAA
1 TCAAATTATTATAAAATGATCATTAAAATTAA
**
2546382 TTGAATTATTATAAAAT
1 TCAAATTATTATAAAAT
2546399 CATCGTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 21 0.50
32 21 0.50
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (32 bp):
TCAAATTATTATAAAATGATCATTAAAATTAA
Found at i:2563779 original size:33 final size:33
Alignment explanation
Indices: 2563741--2563805 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
2563731 TTGCTTACTT
2563741 TTATCCTTAAGGTAGCCTGGAATGCACATATCA
1 TTATCCTTAAGGTAGCCTGGAATGCACATATCA
2563774 TTATCCTTAAGGTAGCCTGGAATGCACATATC
1 TTATCCTTAAGGTAGCCTGGAATGCACATATC
2563806 TACTGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (33 bp):
TTATCCTTAAGGTAGCCTGGAATGCACATATCA
Found at i:2571046 original size:15 final size:16
Alignment explanation
Indices: 2571011--2571046 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2571001 CTTCTAATTT
2571011 TTTTTTGAGTTCAAGC
1 TTTTTTGAGTTCAAGC
*
2571027 CTTTTTGAGTTCAAG-
1 TTTTTTGAGTTCAAGC
2571042 TTTTT
1 TTTTT
2571047 ATATTTCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (16 bp):
TTTTTTGAGTTCAAGC
Found at i:2574242 original size:57 final size:57
Alignment explanation
Indices: 2574016--2574244 Score: 350
Period size: 57 Copynumber: 4.0 Consensus size: 57
2574006 GTTGGAGGAA
**
2574016 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGAA
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * * *
2574073 GAATACTTGCAGATTCCTTGGTTTTGTGCTGAGAGCTTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
2574130 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
* * * * * *
2574187 GATTACTTGCAGGTTCCTTGGCTTTGTGCTCAGGGCCTTATTGTTCGTGATGGGGTT
1 GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
2574244 G
1 G
2574245 TATGGTTATG
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 156 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.35
Consensus pattern (57 bp):
GAATACTTGCAGGTTCCTCGGCTTTGTGCTGAGAGCCTTACTGTTCGTGACGGGGTT
Found at i:2576093 original size:86 final size:86
Alignment explanation
Indices: 2575926--2576103 Score: 263
Period size: 86 Copynumber: 2.1 Consensus size: 86
2575916 CTGGAATAAC
* * * *
2575926 AAGGGTCTCGAAAAATTAGATTTATTACTATTGTTATAATAAAAAAACAAATAAAATATTATAGA
1 AAGGGTCTCAAAAAATTAGATTGATTACTATTGTTACAATAAAAAAACAAACAAAATATTATAGA
2575991 TCAATGGTAAAATTGAGATTT
66 TCAATGGTAAAATTGAGATTT
*
2576012 AAGGGTC-CAAAAAATTAGATTGATTACTATTGTTACAATAAAAAAAGCAAACAAAGTATTAT-G
1 AAGGGTCTCAAAAAATTAGATTGATTACTATTGTTACAATAAAAAAA-CAAACAAAATATTATAG
2576075 AAT-AAGTGGTAAAATTGAGATTT
65 -ATCAA-TGGTAAAATTGAGATTT
2576098 AAGGGT
1 AAGGGT
2576104 TTTTTTTTAG
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
85 39 0.46
86 45 0.54
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (86 bp):
AAGGGTCTCAAAAAATTAGATTGATTACTATTGTTACAATAAAAAAACAAACAAAATATTATAGA
TCAATGGTAAAATTGAGATTT
Found at i:2579146 original size:36 final size:36
Alignment explanation
Indices: 2579100--2579243 Score: 252
Period size: 36 Copynumber: 4.0 Consensus size: 36
2579090 ATCTTGGTCA
*
2579100 TAGTTCCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
1 TAGTACCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
*
2579136 TAGTACCAAGTGAGAGTTTTCTGCTTAGATAAGTTT
1 TAGTACCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
2579172 TAGTACCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
1 TAGTACCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
* *
2579208 TAGTTCCAAGTGAGAGTTTTCTGCTCAGACAAGTTT
1 TAGTACCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
2579244 GTGTATATGA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 103 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (36 bp):
TAGTACCAAGTGAGAGTTTTCTGCTCAGATAAGTTT
Found at i:2579155 original size:19 final size:19
Alignment explanation
Indices: 2579131--2579191 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
2579121 TGCTCAGATA
2579131 AGTTTTAGTACCAAGTGAG
1 AGTTTTAGTACCAAGTGAG
* * **
2579150 AGTTTT-CTGCTTAGAT-A-
1 AGTTTTAGTACCAAG-TGAG
2579167 AGTTTTAGTACCAAGTGAG
1 AGTTTTAGTACCAAGTGAG
2579186 AGTTTT
1 AGTTTT
2579192 CTGCTCAGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
17 7 0.23
18 10 0.33
19 13 0.43
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (19 bp):
AGTTTTAGTACCAAGTGAG
Found at i:2584429 original size:50 final size:51
Alignment explanation
Indices: 2584354--2584459 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 51
2584344 GCTTGTAAGG
* ** * *
2584354 ATGATGTCAACTTGATAATTCGGTCAC-TTAGGTGAAATTCTTTGGTTCTC
1 ATGATGTAAACTTGATAATTCGGTCACGTTACATAAAATTCTTTGGTTCAC
*
2584404 ATGATGTAAACTTGATAATTTGGTCACTGTTACATAAAATTCTTTGGTTCAC
1 ATGATGTAAACTTGATAATTCGGTCAC-GTTACATAAAATTCTTTGGTTCAC
2584456 ATGA
1 ATGA
2584460 CAACTTCAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 25 0.52
52 23 0.48
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (51 bp):
ATGATGTAAACTTGATAATTCGGTCACGTTACATAAAATTCTTTGGTTCAC
Found at i:2585121 original size:42 final size:42
Alignment explanation
Indices: 2585040--2585134 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
2585030 AGAGTTGTAT
* *
2585040 GGTGAGAAGGAACGGTCCCGCCTTCTATAGTACCTATCATCA
1 GGTGAGTAGGAACGGTCCCGCCTTCTATAGTACCGATCATCA
* * * *
2585082 GGTGAGTAGGAACGGTCCCGCTTTCTATGGTAGCGATCATCG
1 GGTGAGTAGGAACGGTCCCGCCTTCTATAGTACCGATCATCA
*
2585124 GGAGAGTAGGA
1 GGTGAGTAGGA
2585135 CCTATCATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (42 bp):
GGTGAGTAGGAACGGTCCCGCCTTCTATAGTACCGATCATCA
Found at i:2585153 original size:21 final size:21
Alignment explanation
Indices: 2585129--2585247 Score: 71
Period size: 21 Copynumber: 5.7 Consensus size: 21
2585119 CATCGGGAGA
2585129 GTAGGACCTATCATGCCTACG
1 GTAGGACCTATCATGCCTACG
* * ** *
2585150 GTAGTATCTATCATAACGA-G
1 GTAGGACCTATCATGCCTACG
*
2585170 AGTAGGACCTATCATGCCTTCG
1 -GTAGGACCTATCATGCCTACG
* * ****
2585192 GTAGTATCTATCATAAGGA-G
1 GTAGGACCTATCATGCCTACG
*
2585212 AGTAGGACCTATCATGCCTTCG
1 -GTAGGACCTATCATGCCTACG
* *
2585234 GTAGTATCTATCAT
1 GTAGGACCTATCAT
2585248 AAGGAGAGTA
Statistics
Matches: 67, Mismatches: 27, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (21 bp):
GTAGGACCTATCATGCCTACG
Found at i:2585163 original size:42 final size:42
Alignment explanation
Indices: 2585124--2585341 Score: 346
Period size: 42 Copynumber: 5.2 Consensus size: 42
2585114 GCGATCATCG
*
2585124 GGAGAGTAGGACCTATCATGCCTACGGTAGTATCTATCATAA
1 GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
*
2585166 CGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
1 GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
2585208 GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
1 GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
* * * *
2585250 GGAGAGTAGGACCCATCACGCCTTCGGTAATATCTATCATGA
1 GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
* * * *
2585292 GGGGAGTAGGACCTATCACGCCTTCGGTAATATCTATCACAA
1 GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
2585334 GGAGAGTA
1 GGAGAGTA
2585342 TGAATGGTCC
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 164 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
GGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAA
Found at i:2585258 original size:21 final size:21
Alignment explanation
Indices: 2585192--2585258 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2585182 CATGCCTTCG
2585192 GTAGTATCTATCATAAGGAGA
1 GTAGTATCTATCATAAGGAGA
* * *****
2585213 GTAGGACCTATCATGCCTTCG-
1 GTAGTATCTATCAT-AAGGAGA
2585234 GTAGTATCTATCATAAGGAGA
1 GTAGTATCTATCATAAGGAGA
2585255 GTAG
1 GTAG
2585259 GACCCATCAC
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (21 bp):
GTAGTATCTATCATAAGGAGA
Found at i:2585373 original size:84 final size:84
Alignment explanation
Indices: 2585115--2585399 Score: 250
Period size: 84 Copynumber: 3.4 Consensus size: 84
2585105 TCTATGGTAG
** * * * * *
2585115 CGATCATCGGGAGAGTAGGACCTATCATGCCTACGGTAGTATCTATCATAACGAGAGTAGG-ACC
1 CGATCATAAGGAGAGTAGGACCTATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGAACC
* * * *
2585179 TATCATGCCTTCGGTAGTAT
66 -ATCACGCCTTCGGGAATAA
* * * * *
2585199 CTATCATAAGGAGAGTAGGACCTATCATGCCTTCGGTAGTATCTATCATAAGGAGAGTAGGACCC
1 CGATCATAAGGAGAGTAGGACCTATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGAACC
* *
2585264 ATCACGCCTTCGGTAATAT
66 ATCACGCCTTCGGGAATAA
* * * * **
2585283 CTATCATGAGGGGAGTAGGACCTATCACGCCTTCGGTAATATCTATCACAAGGAGAGTATGAATG
1 CGATCATAAGGAGAGTAGGACCTATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGAACC
* * * *
2585348 GTCCCGTC-TCTGGGAGTAA
66 ATCACGCCTTC-GGGAATAA
** * *
2585367 CGATCATTTGGCGAGTAGGACCGATCACGCCTT
1 CGATCATAAGGAGAGTAGGACCTATCACGCCTT
2585400 TTATAGTACT
Statistics
Matches: 171, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
83 2 0.01
84 167 0.98
85 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (84 bp):
CGATCATAAGGAGAGTAGGACCTATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGAACC
ATCACGCCTTCGGGAATAA
Found at i:2585373 original size:126 final size:124
Alignment explanation
Indices: 2585115--2585399 Score: 311
Period size: 126 Copynumber: 2.3 Consensus size: 124
2585105 TCTATGGTAG
** * * * *
2585115 CGATCATCGGGAGAGTAGGACCTATCATGCCTACGGTAGTATCTATCATAACGAGAGTAGGACCT
1 CGATCATAAGGAGAGTAGGACCCATCACGCCTTCGGTAATATCTATCATAACGAGAGTAGGACCT
* * * * * *
2585180 ATCATGCCTTCGGTAGTATCTATCATAAGGAGAGTAGGACCTATCATGCCTTCGGTAGTAT
66 ATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGA-C-ATCATCCCTTCGGGAGTAA
* * * *
2585241 CTATCATAAGGAGAGTAGGACCCATCACGCCTTCGGTAATATCTATCATGAGGGGAGTAGGACCT
1 CGATCATAAGGAGAGTAGGACCCATCACGCCTTCGGTAATATCTATCATAACGAGAGTAGGACCT
* **
2585306 ATCACGCCTTCGGTAATATCTATCACAAGGAGAGTATGA-ATGGTCCCGTCTCTGGGAGTAA
66 ATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGACATCATCCC-T-TC-GGGAGTAA
** * *
2585367 CGATCATTTGGCGAGTAGGACCGATCACGCCTT
1 CGATCATAAGGAGAGTAGGACCCATCACGCCTT
2585400 TTATAGTACT
Statistics
Matches: 132, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
123 5 0.04
124 1 0.01
125 2 0.02
126 124 0.94
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (124 bp):
CGATCATAAGGAGAGTAGGACCCATCACGCCTTCGGTAATATCTATCATAACGAGAGTAGGACCT
ATCACGCCTTCGGTAATATCTATCACAAGGAGAGTAGGACATCATCCCTTCGGGAGTAA
Found at i:2591622 original size:18 final size:18
Alignment explanation
Indices: 2591589--2591623 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2591579 CGCGTAGTTT
*
2591589 AGTATTTGATGGATTATA
1 AGTATTTGATGCATTATA
*
2591607 AGTATTTGTTGCATTAT
1 AGTATTTGATGCATTAT
2591624 TTCTTCTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.49
Consensus pattern (18 bp):
AGTATTTGATGCATTATA
Found at i:2597297 original size:22 final size:21
Alignment explanation
Indices: 2597249--2597289 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2597239 ACAAAAATTA
2597249 TATAAAAATATAATTATTAAT
1 TATAAAAATATAATTATTAAT
*
2597270 TATAAAAA-ATAATTTTTAAT
1 TATAAAAATATAATTATTAAT
2597290 ATGTTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATAAAAATATAATTATTAAT
Found at i:2598956 original size:3 final size:3
Alignment explanation
Indices: 2598948--2598987 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2598938 TTTATCAAAT
2598948 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2598988 ACTTGGACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2608113 original size:55 final size:56
Alignment explanation
Indices: 2608024--2608142 Score: 179
Period size: 55 Copynumber: 2.2 Consensus size: 56
2608014 TTGATTTAAA
*
2608024 CTTT-ATTTTTGGCTATCAATAGAATAATTGATTTTGCATTGGATTGCGGATTAGG
1 CTTTGATTTTTGGCTATCAATAGAATAATTGATTTTGCATTGGAGTGCGGATTAGG
* * * *
2608079 CTTTGATTTTT-GCTATTAATAGGATCATTGATTTTGCATTGGAGTGCTGATTAGG
1 CTTTGATTTTTGGCTATCAATAGAATAATTGATTTTGCATTGGAGTGCGGATTAGG
2608134 CTTTGATTT
1 CTTTGATTT
2608143 ACTATTTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 52 0.90
56 6 0.10
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (56 bp):
CTTTGATTTTTGGCTATCAATAGAATAATTGATTTTGCATTGGAGTGCGGATTAGG
Found at i:2608828 original size:6 final size:6
Alignment explanation
Indices: 2608817--2608841 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2608807 AGAAGAGTAC
2608817 GAGGAA GAGGAA GAGGAA GAGGAA G
1 GAGGAA GAGGAA GAGGAA GAGGAA G
2608842 CTGAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:2611446 original size:116 final size:117
Alignment explanation
Indices: 2611236--2611466 Score: 331
Period size: 116 Copynumber: 2.0 Consensus size: 117
2611226 AGACGGACCT
* *
2611236 GATTTGAGCAATCAACAAAAGTAAACAATGATAGTTCTTGCACAAGTGAATAAATTTGACGAGTT
1 GATTCGAGCAATCAACAAAAGTAAACAATGATAGTTCTTGCACAAGAGAATAAATTTGACGAGTT
*
2611301 TGAGAATTCAATAGCAGTTAAAACACCAAACTGAACAT-AAGAGGATACACC
66 TGAGAATTCAATAGCAGTTAAAACACCAAACTGAACATAAAAAGGATACACC
* * * * *
2611352 GATTCGAGCAATCAACAAAAGTAAACAATGATAGTTCTTGCATAAGAGAGTAATTTTGATGATTT
1 GATTCGAGCAATCAACAAAAGTAAACAATGATAGTTCTTGCACAAGAGAATAAATTTGACGAGTT
* * * *
2611417 TGAGATTTCAATAGCCA-TTGAAACTCCAAACTGTACATAAAAAGGATACA
66 TGAGAATTCAATAG-CAGTTAAAACACCAAACTGAACATAAAAAGGATACA
2611467 AGAAGAACTT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 89 0.88
117 12 0.12
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (117 bp):
GATTCGAGCAATCAACAAAAGTAAACAATGATAGTTCTTGCACAAGAGAATAAATTTGACGAGTT
TGAGAATTCAATAGCAGTTAAAACACCAAACTGAACATAAAAAGGATACACC
Found at i:2613102 original size:190 final size:190
Alignment explanation
Indices: 2612776--2613343 Score: 1052
Period size: 190 Copynumber: 3.0 Consensus size: 190
2612766 GTTCATTAAT
* *
2612776 TCGATTGGTAACATAGAATTTTGCAGGTCGGACTCAGAGGTGCAGTTGGACTGTT-G-TT-TTAT
1 TCGATTGGTAACATAGAATTTTACAGGCCGGACTCAGAGGTGCAGTTGGACTGTTGGTTTATTAT
2612838 TTTAATTACAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
66 TTTAATTACAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
*
2612903 TTCCTTGATTTTCTACAATGAACAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
131 TTCCTTGATTTTCTTCAATGAACAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
*
2612963 TCGATCGGTAACATAGAATTTTACAGGCCGGACTCAGAGGTGCAGTTGGACTGTTGGTTTATTAT
1 TCGATTGGTAACATAGAATTTTACAGGCCGGACTCAGAGGTGCAGTTGGACTGTTGGTTTATTAT
2613028 TTTAATTACAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
66 TTTAATTACAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
2613093 TTCCTTGATTTTCTTCAATGAACAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
131 TTCCTTGATTTTCTTCAATGAACAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
*
2613153 TCGATTGGTAACATAGAATTTTACAGGCCGGACTCAGAGGTGCAGCTGGACTGTTGGTTTATTAT
1 TCGATTGGTAACATAGAATTTTACAGGCCGGACTCAGAGGTGCAGTTGGACTGTTGGTTTATTAT
*
2613218 TTTAATTGCAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
66 TTTAATTACAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
*
2613283 TTCCTTGATTTTCTTCAATGATCAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
131 TTCCTTGATTTTCTTCAATGAACAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
2613343 T
1 T
2613344 TGCCTTTTTT
Statistics
Matches: 370, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
187 52 0.14
188 1 0.00
189 2 0.01
190 315 0.85
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (190 bp):
TCGATTGGTAACATAGAATTTTACAGGCCGGACTCAGAGGTGCAGTTGGACTGTTGGTTTATTAT
TTTAATTACAATGTGAAGTTGAAAACTTCACCGGTAAAAGCATGAAAACAAAGAAAAACATGTGT
TTCCTTGATTTTCTTCAATGAACAGGTTGAAAGCTTCTCCGGTTCTCCCTCCACCACTTG
Found at i:2617558 original size:36 final size:37
Alignment explanation
Indices: 2617506--2617589 Score: 127
Period size: 36 Copynumber: 2.3 Consensus size: 37
2617496 TGGTAACTAA
2617506 CTTTGAAAAAATAGTTTTT-AAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
2617543 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
2617580 -GTTGAAAAAT
1 CTTTGAAAAAT
2617590 GATAATGGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 22 0.50
37 22 0.50
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:2622139 original size:37 final size:37
Alignment explanation
Indices: 2622084--2622170 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
2622074 TGGTAACCAA
*
2622084 CTTTGAAAAAATG-GTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTTCAAAGTTTGGTAAATGTTT
*
2622121 CTTTGAAAAATGATTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGATTTTTCAAAGTTTGGTAAATGTTT
*
2622158 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
2622171 AATAGGATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 19 0.41
37 27 0.59
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (37 bp):
CTTTGAAAAATGATTTTTCAAAGTTTGGTAAATGTTT
Found at i:2648903 original size:2 final size:2
Alignment explanation
Indices: 2648896--2648937 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2648886 ATATTTAAGC
2648896 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
2648938 TATTAAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2649180 original size:16 final size:17
Alignment explanation
Indices: 2649148--2649180 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2649138 TTAGAATTTG
*
2649148 AAAACCAATTAAATATT
1 AAAAACAATTAAATATT
2649165 AAAAACAATT-AATATT
1 AAAAACAATTAAATATT
2649181 CATTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAACAATTAAATATT
Found at i:2652335 original size:23 final size:23
Alignment explanation
Indices: 2652292--2652335 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2652282 AAATAATTTT
* *
2652292 ATTATATTTAAAACAATTAAATC
1 ATTATAATTAAAACAAATAAATC
2652315 ATTATAATTAAAA-AAGATAAA
1 ATTATAATTAAAACAA-ATAAA
2652336 ACTAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
ATTATAATTAAAACAAATAAATC
Found at i:2652422 original size:16 final size:18
Alignment explanation
Indices: 2652396--2652434 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
2652386 ACACACTTTA
*
2652396 TAAACAATCTTGTCAC-T
1 TAAACAATCTTATCACAT
2652413 TAAA-AATCTTATCACAT
1 TAAACAATCTTATCACAT
2652430 TAAAC
1 TAAAC
2652435 TTAATTATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAACAATCTTATCACAT
Found at i:2653494 original size:20 final size:21
Alignment explanation
Indices: 2653469--2653507 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2653459 ACTATTTACA
2653469 AATATTAGAAAC-TTATAATT
1 AATATTAGAAACATTATAATT
*
2653489 AATATTATAAACATTATAA
1 AATATTAGAAACATTATAA
2653508 AAAATATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
AATATTAGAAACATTATAATT
Found at i:2653513 original size:21 final size:20
Alignment explanation
Indices: 2653468--2653514 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2653458 TACTATTTAC
*
2653468 AAATATTAGAAACTTATAAT
1 AAATATTAGAAACTTATAAA
* *
2653488 TAATATTATAAACATTATAAA
1 AAATATTAGAAAC-TTATAAA
2653509 AAATAT
1 AAATAT
2653515 AAGATAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATATTAGAAACTTATAAA
Found at i:2653744 original size:31 final size:31
Alignment explanation
Indices: 2653709--2653767 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
2653699 ATTTTTGCTC
* * * *
2653709 AAATTCATGAGTTAAATTGATATTTTATCCA
1 AAATTCAGGAATTAAAATAATATTTTATCCA
*
2653740 AAATTTAGGAATTAAAATAATATTTTAT
1 AAATTCAGGAATTAAAATAATATTTTAT
2653768 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (31 bp):
AAATTCAGGAATTAAAATAATATTTTATCCA
Found at i:2658578 original size:17 final size:18
Alignment explanation
Indices: 2658543--2658589 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
2658533 TTTTTAAAGA
* *
2658543 AAATATATAAAATTTTAC
1 AAATATATAATATTATAC
*
2658561 -AATTTATAATATTATAC
1 AAATATATAATATTATAC
2658578 AAATATATAATA
1 AAATATATAATA
2658590 AGAACAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:2676189 original size:28 final size:28
Alignment explanation
Indices: 2676157--2676211 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2676147 CTCTATTTAT
*
2676157 ATTATGTTATTGAGCTAGTGCTTGAAAC
1 ATTATGTTATCGAGCTAGTGCTTGAAAC
* * *
2676185 ATTATGTTGTCGAGTTAGTGTTTGAAA
1 ATTATGTTATCGAGCTAGTGCTTGAAA
2676212 GCAACAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (28 bp):
ATTATGTTATCGAGCTAGTGCTTGAAAC
Found at i:2677741 original size:29 final size:29
Alignment explanation
Indices: 2677702--2677760 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2677692 ACAGTTCAAA
* *
2677702 TACATATAAATCTTTCCTATGTGTGATAC
1 TACATAGAAATCTTTCCTATGAGTGATAC
*
2677731 TACATAGAAATCTTTCCTATGAGTGGTAC
1 TACATAGAAATCTTTCCTATGAGTGATAC
2677760 T
1 T
2677761 TATATCCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATAGAAATCTTTCCTATGAGTGATAC
Found at i:2681106 original size:3 final size:3
Alignment explanation
Indices: 2681098--2681138 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2681088 TCTTTTATAT
2681098 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2681139 TTAAACCCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2684372 original size:20 final size:20
Alignment explanation
Indices: 2684280--2684372 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
2684270 ACTCAGTTTC
* *
2684280 TAAATTCGCAACACGAATATG
1 TAAA-TCGCAACGCGAATTTG
** * *
2684301 TAAATCGCATTGCGATTTTC
1 TAAATCGCAACGCGAATTTG
* * * *
2684321 CAAATTCGTAATGCGAATCTG
1 TAAA-TCGCAACGCGAATTTG
**
2684342 TAAATAACAACGCGAATTTG
1 TAAATCGCAACGCGAATTTG
2684362 TAAATCGCAAC
1 TAAATCGCAAC
2684373 ATAGAAGTCA
Statistics
Matches: 51, Mismatches: 20, Indels: 3
0.69 0.27 0.04
Matches are distributed among these distances:
20 33 0.65
21 18 0.35
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (20 bp):
TAAATCGCAACGCGAATTTG
Found at i:2684389 original size:20 final size:20
Alignment explanation
Indices: 2684366--2684573 Score: 126
Period size: 20 Copynumber: 10.3 Consensus size: 20
2684356 AATTTGTAAA
*
2684366 TCGCAACATAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
2684386 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
2684406 GCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
2684426 TCGTAACGC-GAA-TCTGTAAA-
1 TCGCAACACAGAAGTC---AAAT
2684446 TCGCAACAC-GAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
* * *
2684466 TCGCAATACATAAGTCAAGT
1 TCGCAACACAGAAGTCAAAT
*
2684486 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* * *
2684506 TCACAACACTGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
** *
2684527 TCATAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
2684547 TCGCAACAC-GATAGTTAAAT
1 TCGCAACACAGA-AGTCAAAT
2684567 TCGCAAC
1 TCGCAAC
2684574 GCGAATTTTA
Statistics
Matches: 145, Mismatches: 29, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
18 4 0.03
19 7 0.05
20 111 0.77
21 22 0.15
24 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:2684444 original size:80 final size:78
Alignment explanation
Indices: 2684348--2684573 Score: 217
Period size: 80 Copynumber: 2.8 Consensus size: 78
2684338 TCTGTAAATA
* *
2684348 ACAACGCGAATTTGTAAATCGCAACATAGAAGTCAAATTCGCAACGCGATAGTCAAATGCGCAAC
1 ACAACGCGAA-TTGTAAATCGCAACA-AGAAGTCAAATTCGCAACACGATAGTCAAATTCGCAAC
2684413 ACAAAAGTCAAATTC
64 ACAAAAGTCAAATTC
** * * *
2684428 GTAACGCGAATCTGTAAATCGCAACACGAATTTGT-AAA-TCGCAATAC-ATAAGTCAAGTTCGC
1 ACAACGCGAAT-TGTAAATCGCAACAAGAA---GTCAAATTCGCAACACGAT-AGTCAAATTCGC
2684490 AACACAAAAGTCAAATTC
61 AACACAAAAGTCAAATTC
* ** * *
2684508 ACAACACTGAATT-TCAAATTCATAACACAAAAGTCAAATTCGCAACACGATAGTTAAATTCGCA
1 ACAACGC-GAATTGT-AAA-TCGCAACA-AGAAGTCAAATTCGCAACACGATAGTCAAATTCGCA
2684572 AC
62 AC
2684574 GCGAATTTTA
Statistics
Matches: 117, Mismatches: 17, Indels: 23
0.75 0.11 0.15
Matches are distributed among these distances:
79 9 0.08
80 68 0.58
81 34 0.29
82 6 0.05
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.21
Consensus pattern (78 bp):
ACAACGCGAATTGTAAATCGCAACAAGAAGTCAAATTCGCAACACGATAGTCAAATTCGCAACAC
AAAAGTCAAATTC
Found at i:2684502 original size:100 final size:100
Alignment explanation
Indices: 2684321--2684514 Score: 271
Period size: 100 Copynumber: 1.9 Consensus size: 100
2684311 TGCGATTTTC
* * *
2684321 CAAATTCGTAATGCGAATCTGTAAATAACAACGCGAATTTGTAAATCGCAACATAGAAGTCAAAT
1 CAAATTCGTAACGCGAATCTGTAAATAACAACACGAATTTGTAAATCGCAACACAGAAGTCAAAT
* * * *
2684386 TCGCAACGCGATAGTCAAATGCGCAACACAAAAGT
66 TCGCAACACAAAAGTCAAATGCACAACACAAAAGT
** * * *
2684421 CAAATTCGTAACGCGAATCTGTAAATCGCAACACGAATTTGTAAATCGCAATACATAAGTCAAGT
1 CAAATTCGTAACGCGAATCTGTAAATAACAACACGAATTTGTAAATCGCAACACAGAAGTCAAAT
*
2684486 TCGCAACACAAAAGTCAAATTCACAACAC
66 TCGCAACACAAAAGTCAAATGCACAACAC
2684515 TGAATTTCAA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (100 bp):
CAAATTCGTAACGCGAATCTGTAAATAACAACACGAATTTGTAAATCGCAACACAGAAGTCAAAT
TCGCAACACAAAAGTCAAATGCACAACACAAAAGT
Found at i:2684739 original size:22 final size:22
Alignment explanation
Indices: 2684713--2684763 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2684703 CTAAGGCAAC
*
2684713 ATCCGTCCCCATCTCTGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* **
2684735 ATCCGTCCTCATCTCCGGTGAA
1 ATCCGTCCCCATCTCCGACGAA
2684757 ATCCGTC
1 ATCCGTC
2684764 TATCTCCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:2686941 original size:20 final size:20
Alignment explanation
Indices: 2686900--2687012 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
2686890 AACTAAAACC
* *
2686900 TGTTGCGAAATT-AAATTCG
1 TGTTGCGAATTTGAAAATCG
2686919 TGTTGCGAATTTGAAAATCG
1 TGTTGCGAATTTGAAAATCG
2686939 TGTTGCGAATTTGAAAATCG
1 TGTTGCGAATTTGAAAATCG
* *
2686959 TGTTGCGAATTTGAAATTTAG
1 TGTTGCGAATTTGAAA-ATCG
* **
2686980 TGTTGTGAATTTGACTTAT-G
1 TGTTGCGAATTTGA-AAATCG
2687000 TGTTGCGAATTTG
1 TGTTGCGAATTTG
2687013 GCTTCTGTGT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
19 11 0.13
20 55 0.67
21 16 0.20
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (20 bp):
TGTTGCGAATTTGAAAATCG
Found at i:2686990 original size:61 final size:59
Alignment explanation
Indices: 2686900--2687012 Score: 147
Period size: 61 Copynumber: 1.9 Consensus size: 59
2686890 AACTAAAACC
*
2686900 TGTTGCGAAATTAAATTCGTGTTGCGAATTTGA-AAATCGTGTTGCGAATTTGAAAATCG
1 TGTTGCGAAATTAAATTAGTGTTGCGAATTTGACAAAT-GTGTTGCGAATTTGAAAATCG
* * **
2686959 TGTTGCGAATTTGAAATTTAGTGTTGTGAATTTGACTTATGTGTTGCGAATTTG
1 TGTTGCGAAATT-AAA-TTAGTGTTGCGAATTTGACAAATGTGTTGCGAATTTG
2687013 GCTTCTGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 11 0.24
60 3 0.07
61 30 0.65
62 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (59 bp):
TGTTGCGAAATTAAATTAGTGTTGCGAATTTGACAAATGTGTTGCGAATTTGAAAATCG
Found at i:2687003 original size:41 final size:40
Alignment explanation
Indices: 2686900--2687012 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 40
2686890 AACTAAAACC
* * *
2686900 TGTTGCGAAATT-AAATTCGTGTTGCGAATTTGAAAATCG
1 TGTTGCGAATTTGAAAATCGTGTTGCGAATTTGAAAATAG
*
2686939 TGTTGCGAATTTGAAAATCGTGTTGCGAATTTGAAATTTAG
1 TGTTGCGAATTTGAAAATCGTGTTGCGAATTTGAAA-ATAG
* **
2686980 TGTTGTGAATTTGACTTAT-GTGTTGCGAATTTG
1 TGTTGCGAATTTGA-AAATCGTGTTGCGAATTTG
2687013 GCTTCTGTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 11 0.17
40 22 0.34
41 29 0.45
42 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.41
Consensus pattern (40 bp):
TGTTGCGAATTTGAAAATCGTGTTGCGAATTTGAAAATAG
Found at i:2687021 original size:20 final size:20
Alignment explanation
Indices: 2686918--2687027 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
2686908 AATTAAATTC
**
2686918 GTGTTGCGAATTTGA-AAAT
1 GTGTTGCGAATTTGACTTAT
**
2686937 CGTGTTGCGAATTTGA-AAAT
1 -GTGTTGCGAATTTGACTTAT
*
2686957 CGTGTTGCGAATTTGAAATT-T
1 -GTGTTGCGAATTTG-ACTTAT
*
2686978 AGTGTTGTGAATTTGACTTAT
1 -GTGTTGCGAATTTGACTTAT
* *
2686999 GTGTTGCGAATTTGGCTTCT
1 GTGTTGCGAATTTGACTTAT
2687019 GTGTTGCGA
1 GTGTTGCGA
2687028 TTTACAAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
20 63 0.80
21 16 0.20
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (20 bp):
GTGTTGCGAATTTGACTTAT
Found at i:2687044 original size:20 final size:20
Alignment explanation
Indices: 2687021--2687070 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2687011 TGGCTTCTGT
*
2687021 GTTGCGATTTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
*
2687041 GTTGCGAATTACATATTCGC
1 GTTGCGAATTACAAATTCGC
* *
2687061 ATTGCAAATT
1 GTTGCGAATT
2687071 TGACTATCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:2687396 original size:2 final size:2
Alignment explanation
Indices: 2687389--2687448 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
2687379 AAATAGTTGC
2687389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2687431 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2687449 GAGAGAGAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2687453 original size:2 final size:2
Alignment explanation
Indices: 2687448--2687499 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2687438 ATATATATAT
2687448 AG AG AG AG AG AG AG AG 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 AG AG AG AG AG AG AG AG
2687490 AG AG AG AG AG
1 AG AG AG AG AG
2687500 GTCTTTATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2687555 original size:21 final size:23
Alignment explanation
Indices: 2687507--2687553 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
2687497 GAGGTCTTTA
2687507 TAAATATATTATATATTTTTATC
1 TAAATATATTATATATTTTTATC
*
2687530 TAAATAT-TTA-ATTTTTTTAT-
1 TAAATATATTATATATTTTTATC
2687550 TAAA
1 TAAA
2687554 ATTCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 9 0.39
22 3 0.13
23 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TAAATATATTATATATTTTTATC
Found at i:2687563 original size:20 final size:22
Alignment explanation
Indices: 2687512--2687563 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
2687502 CTTTATAAAT
*
2687512 ATATT-ATATATTTTTATCTAA
1 ATATTCATATTTTTTTATCTAA
*
2687533 ATATTTA-ATTTTTTTAT-TAA
1 ATATTCATATTTTTTTATCTAA
2687553 A-ATTCATATTT
1 ATATTCATATTT
2687564 AAAGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.15
20 8 0.30
21 14 0.52
22 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTCATATTTTTTTATCTAA
Done.