Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 403 of 444
Found at i:117144992 original size:96 final size:96
Alignment explanation
Indices: 117144814--117145145 Score: 578
Period size: 96 Copynumber: 3.5 Consensus size: 96
117144804 GTATGAGATG
* * *
117144814 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT--ATGTGATAAGG
117144879 CCTAATGGCCAATGTGATGAATGTGAAAGTGTA
64 CCTAATGGCCAATGTGATGAATGTGAAAGTGTA
117144912 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
117144977 TAATGGCCAATGTGATGAATGTGAAAGTGTA
66 TAATGGCCAATGTGATGAATGTGAAAGTGTA
117145008 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
* *
117145073 TAATGGCCGATGTGATGAATGTGAAGGTGTA
66 TAATGGCCAATGTGATGAATGTGAAAGTGTA
*
117145104 TAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
117145146 TATATGTGTG
Statistics
Matches: 228, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
94 38 0.17
96 141 0.62
98 49 0.21
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (96 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:117145194 original size:48 final size:48
Alignment explanation
Indices: 117145137--117145288 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
117145127 CGATGTGATG
*
117145137 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
117145185 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
117145233 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
117145281 AATGTGAA
1 AATGTGAA
117145289 TGTTGTAACA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:117145370 original size:38 final size:38
Alignment explanation
Indices: 117145328--117145441 Score: 182
Period size: 36 Copynumber: 3.1 Consensus size: 38
117145318 AACTTGGAAA
*
117145328 TATGTTCTGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATGTTCTGGGTAAGACCCGATGACTACGTGTGGAGAT
*
117145366 TATGTCCT-GGTAAGA-CCGATGACTACGTGTGGAGAT
1 TATGTTCTGGGTAAGACCCGATGACTACGTGTGGAGAT
117145402 TATG-TC-GGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTTCTGGGTAAGACCCGATGACTACGTGTGGAGAT
117145438 TATG
1 TATG
117145442 NCCGAACCAA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
35 8 0.11
36 50 0.70
37 6 0.08
38 7 0.10
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (38 bp):
TATGTTCTGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:117154065 original size:46 final size:46
Alignment explanation
Indices: 117153989--117154112 Score: 130
Period size: 46 Copynumber: 2.7 Consensus size: 46
117153979 AAGCTCCTCC
* *
117153989 TAAGCTGATAAACAGTAAGCTCTATT-GAGCTGAAA-AAGGTAAGCTCTAT
1 TAAGCTG--AAACAGTAAGCTCT-TTCGAGCTGAAACAA--TAAGCTCCAA
*
117154038 TGAGCTG-AACAGTAAGCTCTTTCGAGCT-AAATCAATAAGCTCCAA
1 TAAGCTGAAACAGTAAGCTCTTTCGAGCTGAAA-CAATAAGCTCCAA
*
117154083 TAAGCTGAAACAGTAAGCTCTTACGAGCTG
1 TAAGCTGAAACAGTAAGCTCTTTCGAGCTG
117154113 TGGTGAGTCT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
45 19 0.29
46 38 0.58
47 2 0.03
49 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (46 bp):
TAAGCTGAAACAGTAAGCTCTTTCGAGCTGAAACAATAAGCTCCAA
Found at i:117154111 original size:23 final size:22
Alignment explanation
Indices: 117153998--117154112 Score: 99
Period size: 23 Copynumber: 5.0 Consensus size: 22
117153988 CTAAGCTGAT
117153998 AAACAGTAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCTA-TGAGCTG
*
117154021 AAAAAGGTAAGCTCTATTGAGCTG
1 AAACA-GTAAGCTCTA-TGAGCTG
*
117154045 -AACAGTAAGCTCTTTCGAGCT-
1 AAACAGTAAGCTCTAT-GAGCTG
* * *
117154066 AAATCAATAAGCTCCAATAAGCTG
1 AAA-CAGTAAGCT-CTATGAGCTG
*
117154090 AAACAGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTC-TATGAGCTG
117154113 TGGTGAGTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.01
22 17 0.23
23 33 0.45
24 23 0.31
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (22 bp):
AAACAGTAAGCTCTATGAGCTG
Found at i:117154754 original size:13 final size:13
Alignment explanation
Indices: 117154712--117154754 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
117154702 AAATATTTGA
117154712 TTTGTTCTTAATT
1 TTTGTTCTTAATT
*
117154725 ATGTGTTCTTAATT
1 -TTTGTTCTTAATT
117154739 TTTGTT-TTAATAT
1 TTTGTTCTTAAT-T
117154752 TTT
1 TTT
117154755 AGGATATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 5 0.19
13 9 0.35
14 12 0.46
ACGTcount: A:0.19, C:0.05, G:0.09, T:0.67
Consensus pattern (13 bp):
TTTGTTCTTAATT
Found at i:117158613 original size:27 final size:27
Alignment explanation
Indices: 117158583--117158636 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
117158573 CATTTATGAT
* *
117158583 TATTGAAACACTATAAATATTTGAAAA
1 TATTCAAACACTACAAATATTTGAAAA
* * *
117158610 TATTCTAACACTCCAAATGTTTGAAAA
1 TATTCAAACACTACAAATATTTGAAAA
117158637 GATGAAAACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (27 bp):
TATTCAAACACTACAAATATTTGAAAA
Found at i:117161311 original size:25 final size:27
Alignment explanation
Indices: 117161274--117161326 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
117161264 TCAAACATGC
117161274 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
117161300 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
117161326 A
1 A
117161327 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:117162865 original size:26 final size:26
Alignment explanation
Indices: 117162807--117162966 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
117162797 CATGAAATTC
*
117162807 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
*
117162832 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
117162858 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
117162884 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
117162909 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
117162935 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
117162961 TTATCA
1 TTATCA
117162967 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
25 46 0.36
26 83 0.64
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:117162896 original size:51 final size:51
Alignment explanation
Indices: 117162807--117162966 Score: 277
Period size: 51 Copynumber: 3.1 Consensus size: 51
117162797 CATGAAATTC
*
117162807 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
117162858 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
*
117162909 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTATTATCAT-GAACATTTACCTAACCCA
117162961 TTATCA
1 TTATCA
117162967 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 73 0.70
52 32 0.30
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
Found at i:117162938 original size:77 final size:77
Alignment explanation
Indices: 117162807--117162966 Score: 286
Period size: 77 Copynumber: 2.1 Consensus size: 77
117162797 CATGAAATTC
117162807 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCATTATCATGGAACAT
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCATTATCATGGAACAT
117162872 TTACCTAACCTA
66 TTACCTAACCTA
* *
117162884 TTATCATG-AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
117162948 TTTACCTAACCTA
65 TTTACCTAACCTA
117162961 TTATCA
1 TTATCA
117162967 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
76 13 0.16
77 67 0.84
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (77 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCATTATCATGGAACAT
TTACCTAACCTA
Found at i:117169477 original size:25 final size:27
Alignment explanation
Indices: 117169440--117169492 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
117169430 TCAAACATGC
117169440 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
117169466 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
117169492 A
1 A
117169493 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:117171010 original size:26 final size:26
Alignment explanation
Indices: 117170974--117171134 Score: 254
Period size: 26 Copynumber: 6.2 Consensus size: 26
117170964 CATGAAATTC
*
117170974 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGGAACATTTACCTAACCT-A
* *
117171000 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
117171026 TTATCATGGATCATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
117171052 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
117171077 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
117171103 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
117171129 TTATCA
1 TTATCA
117171135 ATTTGTATCA
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
25 23 0.18
26 102 0.81
27 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:117171073 original size:77 final size:78
Alignment explanation
Indices: 117170974--117171134 Score: 279
Period size: 77 Copynumber: 2.1 Consensus size: 78
117170964 CATGAAATTC
* *
117170974 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGATCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
117171039 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
117171052 TTATCATG-AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
117171116 TTTACCTAACCTA
66 TTTACCTAACCTA
117171129 TTATCA
1 TTATCA
117171135 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 71 0.90
78 8 0.10
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:117172319 original size:72 final size:71
Alignment explanation
Indices: 117172177--117172320 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 71
117172167 TAAAAATTAA
*
117172177 TAAATTAATATTAGATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
1 TAAATTAATATTAAATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
117172242 TTATTG
66 TTATTG
*
117172248 TAAATTAATATTAAATTATTAAGAATAAAAATTAGAACATTAATACTGATGTGTTGGAATATTCA
1 TAAATTAATATTAAATTATTAAGAATAAAAATTAG-ACATTAATAATGATGTGTTGGAATATTCA
117172313 ATTATTG
65 ATTATTG
117172320 T
1 T
117172321 GATTTTGATC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 34 0.49
72 36 0.51
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (71 bp):
TAAATTAATATTAAATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
TTATTG
Found at i:117172561 original size:18 final size:18
Alignment explanation
Indices: 117172540--117172576 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
117172530 TTAATTTAAA
117172540 ATAATTTTTTATGATAGT
1 ATAATTTTTTATGATAGT
*
117172558 ATAATTTTTTATGGTAGT
1 ATAATTTTTTATGATAGT
117172576 A
1 A
117172577 AATAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATAATTTTTTATGATAGT
Found at i:117177943 original size:35 final size:33
Alignment explanation
Indices: 117177872--117177936 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
117177862 ATGAAAGATG
*
117177872 ATTTATTACTAAATAATTAACTAATTATATAGT
1 ATTTATTACTAAATAATTAACTAATTACATAGT
*
117177905 ATTTATT-GTAAATAATTTATACTAAATTACAT
1 ATTTATTACTAAATAA-TTA-ACT-AATTACAT
117177937 TATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 7 0.26
33 10 0.37
34 3 0.11
35 7 0.26
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
ATTTATTACTAAATAATTAACTAATTACATAGT
Found at i:117184468 original size:47 final size:47
Alignment explanation
Indices: 117184402--117184762 Score: 296
Period size: 48 Copynumber: 7.6 Consensus size: 47
117184392 TTTGTGTGCT
*
117184402 AGTGTCAGA-CATGTCTGGGACAT-GCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TATTATGAGAGCC
* * * *
117184448 AGTGTAAGACCATGTTTGGGACATGGCAGCGG-C-ATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATT---ATGAGAGCC
* * * *
117184496 AGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTATGA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATTATGA-GAGCC
* * * *
117184540 AGTGTAAGACCATGTTTGGGACATGGCATCAGCACGTA-TA-GAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TATTATGA-GAGCC
* *
117184588 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TAT-TATGAGAGCC
* * * *
117184638 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCCTCGATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT--ATTATGAGAGCC
* * * *
117184687 AGTGTAAGACCATGTCTGGGACATGACATC-GACT-TGATGGATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATTAT-GA-GAGCC
117184734 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
117184763 TGGCATTATA
Statistics
Matches: 262, Mismatches: 34, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 19 0.07
46 23 0.09
47 60 0.23
48 69 0.26
49 37 0.14
50 38 0.15
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATTATGAGAGCC
Found at i:117184659 original size:98 final size:96
Alignment explanation
Indices: 117184496--117184762 Score: 282
Period size: 98 Copynumber: 2.8 Consensus size: 96
117184486 GACGAGAGCT
* * * *
117184496 AGTGTAAGA-CATGTTTGGGACATG-CATCGGCT--ATGAGATGTG-TCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGACATCGACTGGAT-AGATGAGCT-AGTGTAAGACCATGTC
117184556 TGGGACATGGCATCAG-CACG-TATAGAGGT-GTC
64 TGGGACATGGCATCAGCCACGATATAGA--TAGTC
* *
117184588 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATATGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGACATC-G-ACTGGATAGAT--GAGCTAGTGTAAGACCATG
* * * * *
117184652 TCTGGGACATGGCTTCGGCCTCGATTTTGATAGTC
62 TCTGGGACATGGCATCAGCCACGATATAGATAGTC
* *
117184687 AGTGTAAGACCATGTCTGGGACATGACATCGACTTGATGGATGAGCTAGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGACATCGACTGGATAGATGAGCTAGTGTAAGACCATGTCTG
117184752 GGACATGGCAT
66 GGACATGGCAT
117184763 TGGCATTATA
Statistics
Matches: 147, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
92 9 0.06
93 14 0.10
94 4 0.03
95 1 0.01
96 37 0.25
97 4 0.03
98 38 0.26
99 36 0.24
100 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGACTGGATAGATGAGCTAGTGTAAGACCATGTCTG
GGACATGGCATCAGCCACGATATAGATAGTC
Found at i:117192410 original size:13 final size:13
Alignment explanation
Indices: 117192392--117192417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117192382 TGGCGAATAG
117192392 GTACGTGTTCGAC
1 GTACGTGTTCGAC
117192405 GTACGTGTTCGAC
1 GTACGTGTTCGAC
117192418 CTTGCCTATT
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:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GTACGTGTTCGAC
Found at i:117195075 original size:13 final size:13
Alignment explanation
Indices: 117195057--117195082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117195047 AAGCAATCAA
117195057 ACACGGGCGTGTC
1 ACACGGGCGTGTC
117195070 ACACGGGCGTGTC
1 ACACGGGCGTGTC
117195083 CCTGTCGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:117195921 original size:54 final size:54
Alignment explanation
Indices: 117195839--117195945 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
117195829 ATTGTCCAAA
117195839 TCATTTAGTTTTCCCAAAAGTTATTTCCCCAATTTACTTTCTATGCATTCTTAC
1 TCATTTAGTTTTCCCAAAAGTTATTTCCCCAATTTACTTTCTATGCATTCTTAC
117195893 TCATTTAGTTTTCCCAAAAGTTATTTCCCCAATTTACTTTCTATGCATTCTTA
1 TCATTTAGTTTTCCCAAAAGTTATTTCCCCAATTTACTTTCTATGCATTCTTA
117195946 GTTTAGTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.47
Consensus pattern (54 bp):
TCATTTAGTTTTCCCAAAAGTTATTTCCCCAATTTACTTTCTATGCATTCTTAC
Found at i:117196523 original size:21 final size:21
Alignment explanation
Indices: 117196498--117196540 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
117196488 AAATAGATTA
117196498 GAAGTAAATAGAAAAAAATAG
1 GAAGTAAATAGAAAAAAATAG
117196519 GAAGTAAATAGAAAAAAATAG
1 GAAGTAAATAGAAAAAAATAG
117196540 G
1 G
117196541 TTTACTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (21 bp):
GAAGTAAATAGAAAAAAATAG
Found at i:117200252 original size:16 final size:16
Alignment explanation
Indices: 117200231--117200284 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
117200221 CGGGTTAGAT
117200231 AATTAAAATAATTAAG
1 AATTAAAATAATTAAG
* * *
117200247 AATT-AATTAAATAAA
1 AATTAAAATAATTAAG
117200262 ATATTAAAA-AATT-AG
1 A-ATTAAAATAATTAAG
117200277 AATTAAAA
1 AATTAAAA
117200285 AAATAGGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 7 0.23
15 11 0.37
16 10 0.33
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
AATTAAAATAATTAAG
Found at i:117200307 original size:27 final size:26
Alignment explanation
Indices: 117200251--117200308 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
117200241 ATTAAGAATT
*
117200251 AATTAAATAAAATATTAAAAAATTAG
1 AATTAAATAAAATATTAAAAAATTAA
*
117200277 AATTAAA-AAAATAGGTTAAGAAATTAA
1 AATTAAATAAAATA--TTAAAAAATTAA
117200304 AATTA
1 AATTA
117200309 GGTGTCCGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 7 0.25
27 15 0.54
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTAAATAAAATATTAAAAAATTAA
Found at i:117202265 original size:21 final size:17
Alignment explanation
Indices: 117202247--117202283 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
117202237 GTACCATATC
117202247 AACATTTATCATACACAT
1 AACATTTATCATAC-CAT
*
117202265 AACATTTATCATGCCAT
1 AACATTTATCATACCAT
117202282 AA
1 AA
117202284 ATCATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (17 bp):
AACATTTATCATACCAT
Found at i:117203474 original size:42 final size:42
Alignment explanation
Indices: 117203355--117203474 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
117203345 TACCATACCA
* * * * * *
117203355 ATGCCATATCCCAGATATGGTCTTATATGGATTCTCATATCG
1 ATGCCATATCGCAGATATGGTCTTAAACGAAATCTCAAATCG
* * *
117203397 ATTCCA-ATAGACCAGCTATGGTCTTAAACGAAATCTCAAATCG
1 ATGCCATATCG--CAGATATGGTCTTAAACGAAATCTCAAATCG
* *
117203440 ATGCCATATCGCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCGCAGATATGGTCTTAAACGAAATCT
117203475 TAGCTAACCC
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
41 2 0.03
42 26 0.43
43 30 0.49
44 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCGCAGATATGGTCTTAAACGAAATCTCAAATCG
Found at i:117205170 original size:21 final size:21
Alignment explanation
Indices: 117205144--117205196 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
117205134 AGTGGTGGCA
*
117205144 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGTTACTATAGCG
* * *
117205165 GTGAGATTGGATACTATAGTG
1 GTGAGATTAGTTACTATAGCG
117205186 GTGAGATTAGT
1 GTGAGATTAGT
117205197 GTAACGCCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGAGATTAGTTACTATAGCG
Found at i:117206395 original size:31 final size:31
Alignment explanation
Indices: 117206346--117206421 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
117206336 CCATGTGATC
* * * *
117206346 CACACAGGTGTGTAGGCCCACATGGGTAGGG
1 CACACGGGCGTGTGGGCCCACACGGGTAGGG
117206377 CACACGGGCGTGTGGGCCCACACGGGTAGGG
1 CACACGGGCGTGTGGGCCCACACGGGTAGGG
117206408 CACACGGGCGTGTG
1 CACACGGGCGTGTG
117206422 AACCCAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.18, C:0.26, G:0.42, T:0.13
Consensus pattern (31 bp):
CACACGGGCGTGTGGGCCCACACGGGTAGGG
Found at i:117211609 original size:30 final size:31
Alignment explanation
Indices: 117211572--117211655 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
117211562 AAGTGGAGGG
117211572 GAGGAAAAAAGGGAAAGAAAAG-G-GGAGACAA
1 GAGGAAAAAA-GGAAAGAAAAGAGAGGAGA-AA
*
117211603 -AGGAAAAAATGAAAAGAGAAAGAGAGGAGAAA
1 GAGGAAAAAA-GGAAAGA-AAAGAGAGGAGAAA
*
117211635 GAGGAAAGAAAAGAAAGAAAA
1 GAGGAAA-AAAGGAAAGAAAA
117211656 ATGGAGAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
30 15 0.34
31 4 0.09
32 6 0.14
33 16 0.36
34 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.33, T:0.01
Consensus pattern (31 bp):
GAGGAAAAAAGGAAAGAAAAGAGAGGAGAAA
Found at i:117218020 original size:18 final size:19
Alignment explanation
Indices: 117217999--117218034 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
117217989 ACCTACCAGA
117217999 AGTAAATAAAA-AAAATTT
1 AGTAAATAAAATAAAATTT
*
117218017 AGTAATTAAAATAAAATT
1 AGTAAATAAAATAAAATT
117218035 AAATTGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
AGTAAATAAAATAAAATTT
Found at i:117224236 original size:39 final size:39
Alignment explanation
Indices: 117224171--117224330 Score: 248
Period size: 39 Copynumber: 4.1 Consensus size: 39
117224161 GGTGACCCGA
*
117224171 ACAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGC
1 ACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGC
* * *
117224211 ACAGTTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
* *
117224250 ACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
*
117224289 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
117224328 ACA
1 ACA
117224331 TTCATACACA
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 99 0.88
40 13 0.12
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
Found at i:117232296 original size:39 final size:39
Alignment explanation
Indices: 117232095--117232285 Score: 337
Period size: 39 Copynumber: 4.9 Consensus size: 39
117232085 TATGGTGACC
* * *
117232095 CGCACAAATGCCTTCGGGACTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
117232135 CGCACAGTTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
117232174 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
117232213 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
117232252 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
117232286 CAATTCGCAC
Statistics
Matches: 146, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 130 0.89
40 16 0.11
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:117234423 original size:367 final size:367
Alignment explanation
Indices: 117233750--117234480 Score: 1462
Period size: 367 Copynumber: 2.0 Consensus size: 367
117233740 TCAAAATAAA
117233750 TTTTAAATTATTTTTATGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACCAGGGTCAATTTT
1 TTTTAAATTATTTTTATGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACCAGGGTCAATTTT
117233815 GGGCTGTCACATCTGACGTTCGAGGAGGAGCCTATGCAAATTATAGATTGCGACGTTAAGGTCTT
66 GGGCTGTCACATCTGACGTTCGAGGAGGAGCCTATGCAAATTATAGATTGCGACGTTAAGGTCTT
117233880 ACGTCGGAAGTCTATTCCCTTGGTGAAGGTGCTGTGGTGGAATCATAGCACTGAGGAGGCTACTT
131 ACGTCGGAAGTCTATTCCCTTGGTGAAGGTGCTGTGGTGGAATCATAGCACTGAGGAGGCTACTT
117233945 GGGAGCTAGAGGATTCGATGCGACAGCAGTATCCTCACCTTTTCTGATCAGGTAAAATTCGAGGA
196 GGGAGCTAGAGGATTCGATGCGACAGCAGTATCCTCACCTTTTCTGATCAGGTAAAATTCGAGGA
117234010 CGAATTTTCTTTTAAGGGTAGACTTGTAACGCCCCAAATTTCTATAATTTCAGCTTTTGTGATTG
261 CGAATTTTCTTTTAAGGGTAGACTTGTAACGCCCCAAATTTCTATAATTTCAGCTTTTGTGATTG
117234075 TTGAGCATGGAAATATCGAAACTTTTGTTTTTATTCTTTTTG
326 TTGAGCATGGAAATATCGAAACTTTTGTTTTTATTCTTTTTG
117234117 TTTTAAATTATTTTTATGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACCAGGGTCAATTTT
1 TTTTAAATTATTTTTATGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACCAGGGTCAATTTT
117234182 GGGCTGTCACATCTGACGTTCGAGGAGGAGCCTATGCAAATTATAGATTGCGACGTTAAGGTCTT
66 GGGCTGTCACATCTGACGTTCGAGGAGGAGCCTATGCAAATTATAGATTGCGACGTTAAGGTCTT
117234247 ACGTCGGAAGTCTATTCCCTTGGTGAAGGTGCTGTGGTGGAATCATAGCACTGAGGAGGCTACTT
131 ACGTCGGAAGTCTATTCCCTTGGTGAAGGTGCTGTGGTGGAATCATAGCACTGAGGAGGCTACTT
117234312 GGGAGCTAGAGGATTCGATGCGACAGCAGTATCCTCACCTTTTCTGATCAGGTAAAATTCGAGGA
196 GGGAGCTAGAGGATTCGATGCGACAGCAGTATCCTCACCTTTTCTGATCAGGTAAAATTCGAGGA
117234377 CGAATTTTCTTTTAAGGGTAGACTTGTAACGCCCCAAATTTCTATAATTTCAGCTTTTGTGATTG
261 CGAATTTTCTTTTAAGGGTAGACTTGTAACGCCCCAAATTTCTATAATTTCAGCTTTTGTGATTG
117234442 TTGAGCATGGAAATATCGAAACTTTTGTTTTTATTCTTT
326 TTGAGCATGGAAATATCGAAACTTTTGTTTTTATTCTTT
117234481 CTGGTATATA
Statistics
Matches: 364, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
367 364 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (367 bp):
TTTTAAATTATTTTTATGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACCAGGGTCAATTTT
GGGCTGTCACATCTGACGTTCGAGGAGGAGCCTATGCAAATTATAGATTGCGACGTTAAGGTCTT
ACGTCGGAAGTCTATTCCCTTGGTGAAGGTGCTGTGGTGGAATCATAGCACTGAGGAGGCTACTT
GGGAGCTAGAGGATTCGATGCGACAGCAGTATCCTCACCTTTTCTGATCAGGTAAAATTCGAGGA
CGAATTTTCTTTTAAGGGTAGACTTGTAACGCCCCAAATTTCTATAATTTCAGCTTTTGTGATTG
TTGAGCATGGAAATATCGAAACTTTTGTTTTTATTCTTTTTG
Found at i:117235987 original size:40 final size:40
Alignment explanation
Indices: 117235926--117236001 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
117235916 CGGTACCTTA
*
117235926 TGGTGTGTAGGGCTGGATGGGTTGATTAAATCCCCATACT
1 TGGTGTGTAGGGCTGGATGGGTCGATTAAATCCCCATACT
* * **
117235966 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TGGTGTGTAGGGCTGGATGGGTCGATTAAATCCCCA
117236002 CATGGTGTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.33
Consensus pattern (40 bp):
TGGTGTGTAGGGCTGGATGGGTCGATTAAATCCCCATACT
Found at i:117239592 original size:21 final size:22
Alignment explanation
Indices: 117239568--117239615 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
117239558 TAAGTTGATA
117239568 TGTTGAAAGGTATA-TTGGTTG
1 TGTTGAAAGGTATACTTGGTTG
* *
117239589 TGTTTGGAGGGTATACTTGGTTG
1 TG-TTGAAAGGTATACTTGGTTG
117239612 TGTT
1 TGTT
117239616 TGAAGGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (22 bp):
TGTTGAAAGGTATACTTGGTTG
Found at i:117239610 original size:23 final size:22
Alignment explanation
Indices: 117239576--117239688 Score: 100
Period size: 23 Copynumber: 4.9 Consensus size: 22
117239566 TATGTTGAAA
117239576 GGTATATTGGTTGTGTTTGGAG
1 GGTATATTGGTTGTGTTTGGAG
*
117239598 GGTATACTTGGTTGTGTTTGAAG
1 GGTATA-TTGGTTGTGTTTGGAG
* *
117239621 GTTATATATATGGTTGTGTTCGGAG
1 G--GTATAT-TGGTTGTGTTTGGAG
* * *
117239646 GGTACATATGGTTGTCTTTAGAG
1 GGTATAT-TGGTTGTGTTTGGAG
* * *
117239669 GGAAAATTGATTGTGTTTGG
1 GGTATATTGGTTGTGTTTGG
117239689 TAGGTGATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
22 16 0.22
23 38 0.52
24 1 0.01
25 18 0.25
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.42
Consensus pattern (22 bp):
GGTATATTGGTTGTGTTTGGAG
Found at i:117244313 original size:13 final size:13
Alignment explanation
Indices: 117244295--117244323 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
117244285 TACAAGATTG
117244295 ATATGTTATATTA
1 ATATGTTATATTA
117244308 ATATGTTATATTA
1 ATATGTTATATTA
117244321 ATA
1 ATA
117244324 AAACCTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
ATATGTTATATTA
Found at i:117245413 original size:61 final size:61
Alignment explanation
Indices: 117245314--117245436 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 61
117245304 CTATGTACAT
* * *
117245314 TTCATGTTGATATACAAGGACCAATTTTTAATAGTAAAAGT-GAATGAAATTTTTAATAGTA
1 TTCATGTTGATATACAAAGACCAATTTTTAATAATAAAAGTAG-ATAAAATTTTTAATAGTA
* *
117245375 TTCATGTTGATATATAAAGACCATTTTTTAATAATAAAAGTAGATAAAATTTTTAATAGTA
1 TTCATGTTGATATACAAAGACCAATTTTTAATAATAAAAGTAGATAAAATTTTTAATAGTA
117245436 T
1 T
117245437 GACTAACTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 55 0.98
62 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (61 bp):
TTCATGTTGATATACAAAGACCAATTTTTAATAATAAAAGTAGATAAAATTTTTAATAGTA
Found at i:117245851 original size:12 final size:12
Alignment explanation
Indices: 117245834--117245859 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
117245824 ACAAATATTT
117245834 AAAATATTTATA
1 AAAATATTTATA
117245846 AAAATATTTATA
1 AAAATATTTATA
117245858 AA
1 AA
117245860 TATTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:117245852 original size:21 final size:23
Alignment explanation
Indices: 117245826--117245877 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
117245816 ATTTTTTAAC
*
117245826 AAATATTTA-AAATATT-TATAA
1 AAATATTTATAAATATTAAATAA
117245847 AAATATTTATAAATATTAAATAA
1 AAATATTTATAAATATTAAATAA
117245870 ATAATATT
1 A-AATATT
117245878 AAATCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.33
22 7 0.26
23 5 0.19
24 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATTTATAAATATTAAATAA
Found at i:117245862 original size:10 final size:10
Alignment explanation
Indices: 117245826--117245863 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 10
117245816 ATTTTTTAAC
117245826 AAATATTTA-
1 AAATATTTAT
117245835 AAATATTTAT
1 AAATATTTAT
117245845 AAAAATATTTAT
1 --AAATATTTAT
117245857 AAATATT
1 AAATATT
117245864 AAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
12 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AAATATTTAT
Found at i:117245903 original size:17 final size:19
Alignment explanation
Indices: 117245873--117245921 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
117245863 TAAATAAATA
* *
117245873 ATATTAAATCATTTTTA-T
1 ATATAAAATCATTTATAGT
117245891 ATATAAAAT-ATTTATAGTT
1 ATATAAAATCATTTATAG-T
117245910 ATATAAAA-CATT
1 ATATAAAATCATT
117245922 CATAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATAAAATCATTTATAGT
Found at i:117250985 original size:24 final size:24
Alignment explanation
Indices: 117250953--117251003 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
117250943 ATCTTTGGTA
117250953 ATGCTCCGTAACCCTATTCTGGCG
1 ATGCTCCGTAACCCTATTCTGGCG
117250977 ATGCTCCGTAACCCTATTCTGGCG
1 ATGCTCCGTAACCCTATTCTGGCG
117251001 ATG
1 ATG
117251004 AATACAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (24 bp):
ATGCTCCGTAACCCTATTCTGGCG
Found at i:117255476 original size:17 final size:17
Alignment explanation
Indices: 117255436--117255478 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
117255426 TTAATTATGT
*
117255436 TTAAAAAATTTTAAAAA
1 TTAAAAATTTTTAAAAA
117255453 TTCAAAAATTTATTAAAAA
1 TT-AAAAATTT-TTAAAAA
117255472 -TAAAAAT
1 TTAAAAAT
117255479 ATCAAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAATTTTTAAAAA
Found at i:117255868 original size:21 final size:21
Alignment explanation
Indices: 117255844--117255885 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
117255834 AATTTAAAGA
117255844 ATGTTAAAAAATAGACAACTT
1 ATGTTAAAAAATAGACAACTT
117255865 ATGTTAAAAAATAGACAACTT
1 ATGTTAAAAAATAGACAACTT
117255886 TAAAGTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (21 bp):
ATGTTAAAAAATAGACAACTT
Found at i:117257112 original size:43 final size:43
Alignment explanation
Indices: 117257048--117257149 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 43
117257038 AGCTACAAGG
* *
117257048 GACACACGACCGTGTCACCTGGCCGTGTGTCACAAATGGCTGA
1 GACACACGCCCGTGTCACCTGGCCGTGTGTCACAAACGGCTGA
* *
117257091 GACACACGCCCGTGTCGCCTGGCCGTGTGTCACACACGGCTGA
1 GACACACGCCCGTGTCACCTGGCCGTGTGTCACAAACGGCTGA
*
117257134 GACACCCGCCCGTGTC
1 GACACACGCCCGTGTC
117257150 TCTAACCATG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (43 bp):
GACACACGCCCGTGTCACCTGGCCGTGTGTCACAAACGGCTGA
Found at i:117258048 original size:39 final size:39
Alignment explanation
Indices: 117257994--117258113 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 39
117257984 ATTTTCAATA
*
117257994 CACCGGCACATAGCCTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
* * *
117258033 CACCGGTACAAAGCCTGCAAGACACATAGCCCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
*
117258072 CACCGACACACAA-CCTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACA-AAGCCTGCTAGGCACATAGCCCGAATAAT
117258111 CAC
1 CAC
117258114 TGTATTTCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 70 0.97
40 2 0.03
ACGTcount: A:0.35, C:0.34, G:0.17, T:0.13
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
Found at i:117259750 original size:46 final size:46
Alignment explanation
Indices: 117259683--117259771 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
117259673 CCTTGAGAGA
* * * *
117259683 ATTCACTATTTTAGTACCTCATACCACAAGTGTATTCAAGCTCAAT
1 ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTCAAT
*
117259729 ATTCATTATCTTAATACCTCATACAACAAGTGTATCCAAGCTC
1 ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTC
117259772 TAACACCCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.34
Consensus pattern (46 bp):
ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTCAAT
Found at i:117262406 original size:6 final size:6
Alignment explanation
Indices: 117262395--117262473 Score: 158
Period size: 6 Copynumber: 13.2 Consensus size: 6
117262385 ATAAAATGTA
117262395 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
117262443 GTATAT GTATAT GTATAT GTATAT GTATAT G
1 GTATAT GTATAT GTATAT GTATAT GTATAT G
117262474 GAGATGTTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:117264394 original size:9 final size:9
Alignment explanation
Indices: 117264369--117264399 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
117264359 TAACTGTGAA
117264369 AAATAAAAT
1 AAATAAAAT
117264378 AGAATAAAAT
1 A-AATAAAAT
117264388 AAATAAAAT
1 AAATAAAAT
117264397 AAA
1 AAA
117264400 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:117268848 original size:9 final size:9
Alignment explanation
Indices: 117268823--117268853 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
117268813 AATTTGTGAA
117268823 AAATAAAAT
1 AAATAAAAT
117268832 AGAATAAAAT
1 A-AATAAAAT
117268842 AAATAAAAT
1 AAATAAAAT
117268851 AAA
1 AAA
117268854 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:117271132 original size:105 final size:105
Alignment explanation
Indices: 117270950--117271173 Score: 351
Period size: 105 Copynumber: 2.1 Consensus size: 105
117270940 AGTGTGAAAC
**
117270950 GTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAAGTATGGTATTAACCATACCGAGTTCT
1 GTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAAGTATGGTATTAACCATACCGAGTTAA
*
117271015 GAAACGTAGGTATGGTATCATC-CATACCGAGTTGTAAAAT
66 GAAACGTAGGTATGGCAT-ATCTCATACCGAGTTGTAAAAT
* * * *
117271055 GTAGGTATGGTATTAACTATACTGAGTTGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAA
1 GTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAAGTATGGTATTAACCATACCGAGTTAA
* *
117271120 GAAACGTAGGTATGGCATTTCTCATACCGAGTTGTGAAAT
66 GAAACGTAGGTATGGCATATCTCATACCGAGTTGTAAAAT
117271160 GTAGGTATGGTATT
1 GTAGGTATGGTATT
117271174 TCAATGAGGA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
104 2 0.02
105 107 0.98
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (105 bp):
GTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAAGTATGGTATTAACCATACCGAGTTAA
GAAACGTAGGTATGGCATATCTCATACCGAGTTGTAAAAT
Found at i:117271175 original size:35 final size:35
Alignment explanation
Indices: 117270942--117271173 Score: 304
Period size: 35 Copynumber: 6.6 Consensus size: 35
117270932 CACGGCAAAG
* *
117270942 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
117270977 TGTGAAACGTAAGTATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
117271012 TCTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* * * * *
117271047 TGTAAAATGTAGGTATGGTATTAACTATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
*
117271082 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
** *
117271117 TAAGAAACGTAGGTATGGCATT-TCTCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATC-CATACCGAGT
*
117271152 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
117271174 TCAATGAGGA
Statistics
Matches: 171, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
34 2 0.01
35 169 0.99
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:117274939 original size:23 final size:23
Alignment explanation
Indices: 117274908--117274961 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
117274898 ATAAAGACAT
*
117274908 GTGGCAAATAATTATCGTGCCAA
1 GTGGGAAATAATTATCGTGCCAA
* *
117274931 GTGGGAAATATTTATTGTGCCAA
1 GTGGGAAATAATTATCGTGCCAA
*
117274954 AT-GGAAAT
1 GTGGGAAAT
117274962 TTCTTAACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (23 bp):
GTGGGAAATAATTATCGTGCCAA
Found at i:117276101 original size:18 final size:18
Alignment explanation
Indices: 117276078--117276115 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
117276068 AGCAACTACG
117276078 ATCAACTACATTCAATTT
1 ATCAACTACATTCAATTT
117276096 ATCAACTACATTCAATTT
1 ATCAACTACATTCAATTT
117276114 AT
1 AT
117276116 ACTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (18 bp):
ATCAACTACATTCAATTT
Found at i:117292389 original size:13 final size:12
Alignment explanation
Indices: 117292351--117292400 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
117292341 AGCAATTTTT
117292351 TTCTTTTTCTT-
1 TTCTTTTTCTTC
117292362 TTAACTTTTTCTTC
1 TT--CTTTTTCTTC
117292376 TTCTTTTTCATTC
1 TTCTTTTTC-TTC
*
117292389 -TCTTCTTCTTC
1 TTCTTTTTCTTC
117292400 T
1 T
117292401 CCCTCTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
11 5 0.15
12 14 0.42
13 12 0.36
14 2 0.06
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (12 bp):
TTCTTTTTCTTC
Found at i:117293216 original size:19 final size:17
Alignment explanation
Indices: 117293186--117293235 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
117293176 ATATGTAAAT
117293186 AATATATTTTTTTATCA
1 AATATATTTTTTTATCA
*
117293203 AATTATAGTTTTTTTTTCA
1 AA-TATA-TTTTTTTATCA
117293222 AATA-ATTTTTTTAT
1 AATATATTTTTTTAT
117293236 TTTTAGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 8 0.28
17 3 0.10
18 6 0.21
19 12 0.41
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
AATATATTTTTTTATCA
Found at i:117293511 original size:23 final size:23
Alignment explanation
Indices: 117293467--117293512 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
117293457 AAATGAATAA
*
117293467 TTTAAAAAATAAAGAGATTAAAT
1 TTTAAAAAATAAAGAGACTAAAT
*
117293490 TTTAACAAATAAA-ATGACTAAAT
1 TTTAAAAAATAAAGA-GACTAAAT
117293513 CCAAAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (23 bp):
TTTAAAAAATAAAGAGACTAAAT
Found at i:117298275 original size:57 final size:57
Alignment explanation
Indices: 117298187--117298301 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
117298177 AATCATAACC
117298187 TTTGCTTTATAAATAACTAGAGAGAATGGTGTTGACATTTAAAACCACATTTTTTTT
1 TTTGCTTTATAAATAACTAGAGAGAATGGTGTTGACATTTAAAACCACATTTTTTTT
117298244 TTTGCTTTATAAATAACTAGAGAGAATGGTGTTGACATTTAAAACCACATTTTTTTT
1 TTTGCTTTATAAATAACTAGAGAGAATGGTGTTGACATTTAAAACCACATTTTTTTT
117298301 T
1 T
117298302 CCAGATTATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (57 bp):
TTTGCTTTATAAATAACTAGAGAGAATGGTGTTGACATTTAAAACCACATTTTTTTT
Found at i:117304315 original size:70 final size:70
Alignment explanation
Indices: 117304202--117304342 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
117304192 AAAAAAAAAC
117304202 ATTGTGTCGTTGAATCTTATATTCATAGCGATTATGATTCAAGAAATATGATTA-TCATTTTTGT
1 ATTGTGTCGTTGAATCTTATATTCATAGCGATTATGATTCAAGAAATATGATTACT-ATTTTTGT
117304266 ATTTTA
65 ATTTTA
*
117304272 ATTGTGTTGTTGAATCTTATATTCATAGCGATTATGATTCAAGAAATATGATTACTATTTTTGTA
1 ATTGTGTCGTTGAATCTTATATTCATAGCGATTATGATTCAAGAAATATGATTACTATTTTTGTA
117304337 TTTTA
66 TTTTA
117304342 A
1 A
117304343 ACATGTGAAT
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 68 0.99
71 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (70 bp):
ATTGTGTCGTTGAATCTTATATTCATAGCGATTATGATTCAAGAAATATGATTACTATTTTTGTA
TTTTA
Found at i:117306320 original size:21 final size:21
Alignment explanation
Indices: 117306262--117306320 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 21
117306252 TATCTGTCGA
* *
117306262 ATTTCTCTCAA-TTTTCTCTT
1 ATTTCTCTCAACTTTTTTTTT
* **
117306282 AATT-TCTC-ACTTAATTTTT
1 ATTTCTCTCAACTTTTTTTTT
117306301 ATTTCTCTCAACTTTTTTTT
1 ATTTCTCTCAACTTTTTTTT
117306321 ATATATTAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
20 7 0.25
21 8 0.29
ACGTcount: A:0.19, C:0.20, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTCTCTCAACTTTTTTTTT
Found at i:117307138 original size:23 final size:21
Alignment explanation
Indices: 117307071--117307139 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
117307061 AAAATTAAAG
*
117307071 AAATATATAAATATATTTTAA
1 AAATATATAAAAATATTTTAA
*
117307092 AAATATATATAAAA-ATTTTGA
1 AAATATATA-AAAATATTTTAA
117307113 AAATATAATAACAAATATTTTTAA
1 AAATAT-ATAA-AAATA-TTTTAA
117307137 AAA
1 AAA
117307140 AGTATTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 22 0.55
22 9 0.22
23 1 0.03
24 8 0.20
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
AAATATATAAAAATATTTTAA
Found at i:117308054 original size:10 final size:10
Alignment explanation
Indices: 117307997--117308061 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
117307987 GTTTCTTGAC
*
117307997 ATTTTTATAC
1 ATTTTTATAT
*
117308007 ATTTTT-TAA
1 ATTTTTATAT
117308016 ATTTATTATTAT
1 ATTT-TTA-TAT
* *
117308028 ATTTTAAAAT
1 ATTTTTATAT
* *
117308038 ATATTTATGT
1 ATTTTTATAT
117308048 ATTTTTATAT
1 ATTTTTATAT
117308058 ATTT
1 ATTT
117308062 CAAATTAAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
9 6 0.14
10 28 0.67
11 2 0.05
12 6 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:117308450 original size:23 final size:22
Alignment explanation
Indices: 117308424--117308466 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
117308414 TTATAAAAAA
*
117308424 AAAAGTAAATATTTATTGTTTTT
1 AAAAGCAAA-ATTTATTGTTTTT
*
117308447 AAAAGCATAATTTATTGTTT
1 AAAAGCAAAATTTATTGTTT
117308467 AAGGTGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (22 bp):
AAAAGCAAAATTTATTGTTTTT
Found at i:117312521 original size:36 final size:37
Alignment explanation
Indices: 117312474--117312546 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
117312464 CACAAAATAT
117312474 TCCCACTCAACAGAGTAGGGAAAC-AAACCTAATCAA
1 TCCCACTCAACAGAGTAGGGAAACAAAACCTAATCAA
*
117312510 TCCCACTCAACAGAGTTGGGAAACAAAACCTAATCAA
1 TCCCACTCAACAGAGTAGGGAAACAAAACCTAATCAA
117312547 AGACAATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 23 0.66
37 12 0.34
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (37 bp):
TCCCACTCAACAGAGTAGGGAAACAAAACCTAATCAA
Found at i:117314530 original size:18 final size:18
Alignment explanation
Indices: 117314504--117314541 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
117314494 ACAATGCGAT
*
117314504 TATTGAATTTATTGTATA
1 TATTAAATTTATTGTATA
117314522 TATTAAATTTATTGTATA
1 TATTAAATTTATTGTATA
117314540 TA
1 TA
117314542 AAAGGACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
TATTAAATTTATTGTATA
Found at i:117316482 original size:21 final size:20
Alignment explanation
Indices: 117316441--117316482 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
117316431 ATGAATGTAA
* *
117316441 TTTTATTTATTTAAAATTAT
1 TTTTATTTAATAAAAATTAT
117316461 TTTTATTTAATAAAATATTAT
1 TTTTATTTAATAAAA-ATTAT
117316482 T
1 T
117316483 AAAATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATTTAATAAAAATTAT
Found at i:117325722 original size:9 final size:9
Alignment explanation
Indices: 117325708--117325740 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
117325698 TGTGATTGGC
117325708 AAGTGTCTT
1 AAGTGTCTT
117325717 AAGTGTCTT
1 AAGTGTCTT
117325726 AAGTGTCTT
1 AAGTGTCTT
117325735 AAGTGT
1 AAGTGT
117325741 AATGCCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
AAGTGTCTT
Found at i:117331697 original size:55 final size:55
Alignment explanation
Indices: 117331624--117331741 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 55
117331614 GTGCCCTTAG
* * * * * * * *
117331624 CCCGTGTACAATACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTG
1 CCCGTGTATAACAATGACTTTAAAAAACGACCATGACACACGCCCATATGGCCTA
* *
117331679 TCCGTGTATAACAATGACTTTAAAAAACGACCATGACATACGCCCATATGGCCTA
1 CCCGTGTATAACAATGACTTTAAAAAACGACCATGACACACGCCCATATGGCCTA
117331734 CCCGTGTA
1 CCCGTGTA
117331742 CTAAACTAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (55 bp):
CCCGTGTATAACAATGACTTTAAAAAACGACCATGACACACGCCCATATGGCCTA
Found at i:117332731 original size:49 final size:48
Alignment explanation
Indices: 117332521--117332784 Score: 190
Period size: 49 Copynumber: 5.6 Consensus size: 48
117332511 TTGTCAATGC
* *
117332521 CATGTCCCAGACATGGTCTCACACAGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATG
* ** * ** * *
117332569 CCATGTCCCAGACATGGTCTTATACTATCTCTCGTAT-ATATATGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTATC--ATCATCGAGGCCGATG
* * * * *
117332619 CATGTCCCGGACAT-GTCTTACACTAG--AACGA-C-TCTTA-GTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATC-ATCATC-GAGGCCGATG
* ** * *
117332663 CGTGTTTCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCAGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATG
* *
117332710 CCATGTCCCAGACATGGTCTTACACTGGC-ACTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTA-TCATCATCGAGGCCGATG
117332758 CATGTCCCAGACAT-GTCTTACACTGGC
1 CATGTCCCAGACATGGTCTTACACTGGC
117332785 ACACAAGAAA
Statistics
Matches: 167, Mismatches: 35, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
44 26 0.16
45 4 0.02
46 18 0.11
47 21 0.13
48 29 0.17
49 58 0.35
50 9 0.05
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATG
Found at i:117338788 original size:55 final size:55
Alignment explanation
Indices: 117338728--117338849 Score: 185
Period size: 55 Copynumber: 2.2 Consensus size: 55
117338718 CGTATGTAAC
* * *
117338728 ACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTGCCCGTGTAC-AA
1 ACTGACTTTAAAACACGACCATGACACACACCCGTGTGGCCTACCCGTGTACTAA
*
117338782 TACTGACTTCAAAACACGACCATGACACACACCCGTGTGGCCTACCCGTGTACTAA
1 -ACTGACTTTAAAACACGACCATGACACACACCCGTGTGGCCTACCCGTGTACTAA
117338838 ACTGAC-TTAAAA
1 ACTGACTTTAAAA
117338850 TTTTAAGTGC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
54 5 0.08
55 54 0.89
56 2 0.03
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (55 bp):
ACTGACTTTAAAACACGACCATGACACACACCCGTGTGGCCTACCCGTGTACTAA
Found at i:117339899 original size:89 final size:91
Alignment explanation
Indices: 117339658--117339924 Score: 244
Period size: 89 Copynumber: 2.9 Consensus size: 91
117339648 ATTATCGAGG
* * * * * * *
117339658 CCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACGT-GCTGATGCATGTCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCACTC--ATA-ATGTGGCTGATGAATGTCCC
* *
117339722 GGACATGTCTTACATTAGCACGACTCTTAG
63 AGACATGTCTTACATTAGCAC-ACTCTTAA
** *
117339752 CCGATG-CATGTCCCAGACA-CATCTTACATTGGCTA-TCATCATCGTGGCTGAT-ACATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGGC-ACTCATAAT-GTGGCTGATGA-ATGTCCC
*
117339813 AGACATGTCTTACATT-GCA-TCTC-TACA
63 AGACATGTCTTACATTAGCACACTCTTA-A
* *
117339840 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCACTCATAATGTGGCCGATGAATGTCCCAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCACTCATAATGTGGCTGATGAATGTCCCAGA
* * *
117339905 CATGTTTTACACTGGCACAC
66 CATGTCTTACATTAGCACAC
117339925 AAGAAATCCG
Statistics
Matches: 141, Mismatches: 21, Indels: 25
0.75 0.11 0.13
Matches are distributed among these distances:
87 2 0.01
88 9 0.06
89 43 0.30
90 29 0.21
91 28 0.20
92 11 0.08
93 13 0.09
94 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
CCGATGCCATGTCCCAGACATGGTCTTACATTGGCACTCATAATGTGGCTGATGAATGTCCCAGA
CATGTCTTACATTAGCACACTCTTAA
Found at i:117358308 original size:13 final size:13
Alignment explanation
Indices: 117358282--117358362 Score: 90
Period size: 13 Copynumber: 6.2 Consensus size: 13
117358272 ACCATTACAA
* *
117358282 AAATGGTAAAATG
1 AAATGGTTATATG
* *
117358295 AAATGTTTAGATG
1 AAATGGTTATATG
117358308 AAATGGTTATATG
1 AAATGGTTATATG
* *
117358321 AAATGATTACATG
1 AAATGGTTATATG
*
117358334 AAATGGTTAAATG
1 AAATGGTTATATG
*
117358347 AATTGGTTATATG
1 AAATGGTTATATG
117358360 AAA
1 AAA
117358363 ATAGATGTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 56 1.00
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.33
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:117363929 original size:21 final size:22
Alignment explanation
Indices: 117363899--117363939 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
117363889 CTTGTAGTTT
117363899 TTAATTAGCTCAATTAAGCTCA
1 TTAATTAGCTCAATTAAGCTCA
117363921 TTAA-TAGCTCAATTAAGCT
1 TTAATTAGCTCAATTAAGCT
117363940 GAGTGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (22 bp):
TTAATTAGCTCAATTAAGCTCA
Found at i:117365865 original size:35 final size:34
Alignment explanation
Indices: 117365784--117365867 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
117365774 GTGTTACCTG
* *
117365784 GTGTGCTAGATAGTACTGGCTCTTATGAGCATAT
1 GTGTGCTGGATGGTACTGGCTCTTATGAGCATAT
* * *
117365818 GATGTG-TCGGATGGTAGTGGCTGTTATGAGCATCT
1 G-TGTGCT-GGATGGTACTGGCTCTTATGAGCATAT
117365853 AGTGTGCTGGATGGT
1 -GTGTGCTGGATGGT
117365868 TAACCGTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
34 2 0.05
35 37 0.90
36 2 0.05
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.35
Consensus pattern (34 bp):
GTGTGCTGGATGGTACTGGCTCTTATGAGCATAT
Found at i:117366794 original size:45 final size:45
Alignment explanation
Indices: 117366693--117366819 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 45
117366683 TTTTCTCAAA
* * *
117366693 TCACTGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
117366735 TCACCTGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * * *
117366779 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCACGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
117366820 ATCAAGTCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
42 9 0.13
43 14 0.20
44 8 0.11
45 38 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:117367197 original size:43 final size:43
Alignment explanation
Indices: 117367150--117367260 Score: 213
Period size: 43 Copynumber: 2.6 Consensus size: 43
117367140 CGGCATTACG
117367150 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
117367193 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
117367236 CCTGCTAGGCACGAAGGTCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
117367261 TAATACCAGT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.32, C:0.33, G:0.24, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:117367386 original size:40 final size:38
Alignment explanation
Indices: 117367258--117367454 Score: 241
Period size: 38 Copynumber: 5.1 Consensus size: 38
117367248 GAAGGTCCGA
* * * * * *
117367258 ATATAATACCAGTACTAGGCCTGCAGGATTTATCCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
117367296 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** * *
117367334 ATATTTTACCAGCACGAAGCCTGTGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
*
117367374 ATATAATGCCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
117367412 ATATAATACCAGCACGAAGCCTGCAGGTTTTAACCCTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
117367450 ATATA
1 ATATA
117367455 CATCGAATAT
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
38 98 0.72
39 10 0.07
40 28 0.21
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:117369600 original size:14 final size:13
Alignment explanation
Indices: 117369574--117369598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117369564 GGAAAATTGC
117369574 ATGAAAATTTTTA
1 ATGAAAATTTTTA
117369587 ATGAAAATTTTT
1 ATGAAAATTTTT
117369599 TATCGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
ATGAAAATTTTTA
Found at i:117369695 original size:17 final size:18
Alignment explanation
Indices: 117369654--117369696 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
117369644 TGTCAAAGTT
*
117369654 GGATTCTAATAGCTATAA
1 GGATTCAAATAGCTATAA
*
117369672 GGA-TCAAATAGCTAT-G
1 GGATTCAAATAGCTATAA
117369688 GGATTCAAA
1 GGATTCAAA
117369697 ATGTGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (18 bp):
GGATTCAAATAGCTATAA
Found at i:117369843 original size:18 final size:21
Alignment explanation
Indices: 117369801--117369844 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 21
117369791 CTAAATTAGA
117369801 AATTAAATTAATTAATATATG
1 AATTAAATTAATTAATATATG
117369822 --TTAAA-TAATTAA-ATA-G
1 AATTAAATTAATTAATATATG
117369838 AATTAAA
1 AATTAAA
117369845 CCCATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
16 1 0.05
17 3 0.14
18 12 0.57
19 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
AATTAAATTAATTAATATATG
Found at i:117370754 original size:33 final size:33
Alignment explanation
Indices: 117370712--117370887 Score: 178
Period size: 33 Copynumber: 5.4 Consensus size: 33
117370702 TAAATGATAC
*
117370712 ATTTGAAAAGGTTATGTACACTTTGTGTATACA
1 ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
117370745 ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
1 ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
* *
117370778 ATTTGAAAAGGCTATG---ACTTTGTGTGTAGA
1 ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
* * * * * *
117370808 ACTTGAAAAGGATACGTACACTATGAGTGTACC
1 ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
* ** * * * *
117370841 ACTTGAAAAGGGAATGTACACCTCGAGTGTACG
1 ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
*
117370874 ATTGGAAAAGGTTA
1 ATTTGAAAAGGTTA
117370888 CGTCCTTCGA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
30 26 0.22
33 93 0.78
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (33 bp):
ATTTGAAAAGGTTATGTACACTTTGTGTGTACA
Found at i:117370798 original size:63 final size:64
Alignment explanation
Indices: 117370674--117370851 Score: 170
Period size: 63 Copynumber: 2.8 Consensus size: 64
117370664 CCCAAAAGGG
* *
117370674 GTAT-CAACTTGAAAAGGATACATGTAC-CTA--AATGATAC-ATTTGAAAAGGTTATGTACACT
1 GTATACAACTTGAAAAGGATAC--GTACACTATGAGTG-TACAATTTGAAAAGGCTATG-A-ACT
117370734 TTGT
61 TTGT
* * * * *
117370738 GTATACAATTTGAAAAGGTTATGTACACTTTGTGTGTACAATTTGAAAAGGCTATG-ACTTTGT
1 GTATACAACTTGAAAAGGATACGTACACTATGAGTGTACAATTTGAAAAGGCTATGAACTTTGT
* * * *
117370801 GTGTAGAACTTGAAAAGGATACGTACACTATGAGTGTACCACTTGAAAAGG
1 GTATACAACTTGAAAAGGATACGTACACTATGAGTGTACAATTTGAAAAGG
117370852 GAATGTACAC
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
63 53 0.57
64 6 0.06
65 17 0.18
66 17 0.18
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (64 bp):
GTATACAACTTGAAAAGGATACGTACACTATGAGTGTACAATTTGAAAAGGCTATGAACTTTGT
Found at i:117376429 original size:26 final size:23
Alignment explanation
Indices: 117376384--117376430 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
117376374 CATATAATAT
*
117376384 TTATCATATAATACCATACTATA
1 TTATCATAAAATACCATACTATA
117376407 TTATCATCAAAATACACATTACTA
1 TTATCAT-AAAATAC-CA-TACTA
117376431 GTCATTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 2 0.10
26 5 0.25
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (23 bp):
TTATCATAAAATACCATACTATA
Found at i:117376922 original size:33 final size:33
Alignment explanation
Indices: 117376894--117377071 Score: 252
Period size: 33 Copynumber: 5.4 Consensus size: 33
117376884 GTACATTCCA
* * * *
117376894 TTTTTAAGTGGTACACACAAAGTTTACATATCC
1 TTTTCAAGTTGTACACACAAAGTGTACATAACC
* *
117376927 TTTTCAAATTGTACACTCAAAGTGTACATAACC
1 TTTTCAAGTTGTACACACAAAGTGTACATAACC
117376960 TTTTCAAGTTGTACACACAAAGTGTACATAACC
1 TTTTCAAGTTGTACACACAAAGTGTACATAACC
* *
117376993 TTTTCAAGTTGTACATACAAAGTGTACATAGCCC
1 TTTTCAAGTTGTACACACAAAGTGTACATA-ACC
*
117377027 TTTTCAAATTGTACACACAAAGTGTACATAACC
1 TTTTCAAGTTGTACACACAAAGTGTACATAACC
117377060 -TTTCAAG-TGTAC
1 TTTTCAAGTTGTAC
117377072 CATTTAGGTA
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
31 5 0.04
32 6 0.05
33 89 0.68
34 30 0.23
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTCAAGTTGTACACACAAAGTGTACATAACC
Found at i:117383028 original size:37 final size:37
Alignment explanation
Indices: 117382976--117383049 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
117382966 ATGAAATGGT
*
117382976 GTTACTTCAATCAATAAAGCAATATTGGAGAAAAGCA
1 GTTACTTCAACCAATAAAGCAATATTGGAGAAAAGCA
*
117383013 GTTACTTCAACCAATAAAGCGATATTGGAGAAAAGCA
1 GTTACTTCAACCAATAAAGCAATATTGGAGAAAAGCA
117383050 ACAACCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.23
Consensus pattern (37 bp):
GTTACTTCAACCAATAAAGCAATATTGGAGAAAAGCA
Found at i:117383366 original size:35 final size:35
Alignment explanation
Indices: 117383326--117383397 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
117383316 CCAAAGGAAA
*
117383326 AAGGAAGGATTGCAAATGTTGATGTACTATCCTTG
1 AAGGAAGGATTCCAAATGTTGATGTACTATCCTTG
117383361 AAGGAAGGATTCCAAATGTTGATGTACTATCCTTG
1 AAGGAAGGATTCCAAATGTTGATGTACTATCCTTG
117383396 AA
1 AA
117383398 CAAATGGTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (35 bp):
AAGGAAGGATTCCAAATGTTGATGTACTATCCTTG
Found at i:117383411 original size:35 final size:35
Alignment explanation
Indices: 117383338--117383411 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
117383328 GGAAGGATTG
** *
117383338 CAAATGTTGATGTACTATCCTTGAAGGAAGGATTC
1 CAAATGTTGATGTACTATCCTTGAACAAAGGATAC
117383373 CAAATGTTGATGTACTATCCTTGAACAAATGG-TAC
1 CAAATGTTGATGTACTATCCTTGAACAAA-GGATAC
117383408 CAAA
1 CAAA
117383412 CTTGAACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (35 bp):
CAAATGTTGATGTACTATCCTTGAACAAAGGATAC
Found at i:117389588 original size:2 final size:2
Alignment explanation
Indices: 117389581--117389642 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
117389571 GAGCCAAATA
117389581 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
*
117389623 AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG
117389643 GGAATCAGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:117390584 original size:19 final size:20
Alignment explanation
Indices: 117390547--117390586 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
117390537 ACATCATCAC
117390547 TAATGCATACATTTCGAAAA
1 TAATGCATACATTTCGAAAA
* *
117390567 TAATG-ATATATTTTGAAAA
1 TAATGCATACATTTCGAAAA
117390586 T
1 T
117390587 CGAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TAATGCATACATTTCGAAAA
Found at i:117391027 original size:24 final size:24
Alignment explanation
Indices: 117390993--117391038 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
117390983 TTTGAGTTCT
*
117390993 GAATTTTTTTATC-ATTTTTAATTA
1 GAATTTATTTA-CAATTTTTAATTA
117391017 GAATTTATTTACAATTTTTAAT
1 GAATTTATTTACAATTTTTAAT
117391039 AATGATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
GAATTTATTTACAATTTTTAATTA
Found at i:117393853 original size:15 final size:15
Alignment explanation
Indices: 117393833--117393876 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
117393823 AAACAATAAT
117393833 ATAAGTGACTAAAAC
1 ATAAGTGACTAAAAC
117393848 ATAAGTGACTAAAAC
1 ATAAGTGACTAAAAC
117393863 ATAAGTGACTAAAA
1 ATAAGTGACTAAAA
117393877 TGTAATCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (15 bp):
ATAAGTGACTAAAAC
Found at i:117395331 original size:30 final size:32
Alignment explanation
Indices: 117395265--117395338 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
117395255 CTTCCCAAAA
*
117395265 TTTACTCCTCTATTTACTTTTCCTCCAATATT
1 TTTACTCCTCTATTCACTTTTCCTCCAATATT
117395297 TTTACTCC-CTA-TCAC-TTTCCTCACAA-ATT
1 TTTACTCCTCTATTCACTTTTCCTC-CAATATT
117395326 GTTTACTCCTCTA
1 -TTTACTCCTCTA
117395339 CCCTCAAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 10 0.26
30 14 0.37
31 6 0.16
32 8 0.21
ACGTcount: A:0.20, C:0.31, G:0.01, T:0.47
Consensus pattern (32 bp):
TTTACTCCTCTATTCACTTTTCCTCCAATATT
Found at i:117395440 original size:124 final size:125
Alignment explanation
Indices: 117395210--117395437 Score: 329
Period size: 124 Copynumber: 1.8 Consensus size: 125
117395200 TAACATCTCT
* *
117395210 TCTACCCCAAACCAATTTTCTCCCAAATTCTTTTTTGAATATTTTCTTCCCAAAATTTACTCCTC
1 TCTACCCCAAACCAATTTTCTCCCAAATTCTTTTTTGAATATTTTCTTCCCAAAAGTTACTCCCC
* *
117395275 TATTTACTTTTCCTCCAATATTTTTACTCCCTATCACTTTCCTCACAAATTGTTTACTCC
66 TATTTACTTTTCCTCCAAAATTTTTACTCCCTACCACTTTCCTCACAAATTGTTTACTCC
* *
117395335 TCTACCCTCAAACCCATTTTCTCCCCAATT-TTTTTTGAAT-TTTT-TTCCCCAAAAGTTACTCC
1 TCTACCC-CAAACCAATTTTCTCCCAAATTCTTTTTTGAATATTTTCTT-CCCAAAAGTTACTCC
* * *
117395397 CCTATTTATTTTTCC-CCAAAATTTTTACTCCTTCCCACTTT
64 CCTATTTACTTTTCCTCCAAAATTTTTACTCCCTACCACTTT
117395438 TCCCTTAACA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
123 24 0.26
124 31 0.34
125 17 0.18
126 20 0.22
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (125 bp):
TCTACCCCAAACCAATTTTCTCCCAAATTCTTTTTTGAATATTTTCTTCCCAAAAGTTACTCCCC
TATTTACTTTTCCTCCAAAATTTTTACTCCCTACCACTTTCCTCACAAATTGTTTACTCC
Found at i:117397926 original size:21 final size:21
Alignment explanation
Indices: 117397902--117397941 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
117397892 GTGGTTTTTT
117397902 AAATAACTAAAAAATTATATA
1 AAATAACTAAAAAATTATATA
* * *
117397923 AAATTATTTAAAAATTATA
1 AAATAACTAAAAAATTATA
117397942 AATATATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATAACTAAAAAATTATATA
Found at i:117397943 original size:19 final size:18
Alignment explanation
Indices: 117397911--117397955 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
117397901 TAAATAACTA
*
117397911 AAAAATTATATAAAATTATTT
1 AAAAATTATA-AATA-TA-TT
117397932 AAAAATTATAAATATATT
1 AAAAATTATAAATATATT
117397950 AAAAAT
1 AAAAAT
117397956 AATTTAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 3 0.13
21 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATTATAAATATATT
Found at i:117398330 original size:19 final size:19
Alignment explanation
Indices: 117398299--117398346 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
117398289 TCCAAAAAGG
117398299 ATTATTAAA-AATAAAAAA
1 ATTATTAAATAATAAAAAA
* *
117398317 ATTATCAAATAATATAAAA
1 ATTATTAAATAATAAAAAA
117398336 ATTATTAAATA
1 ATTATTAAATA
117398347 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTATTAAATAATAAAAAA
Found at i:117398506 original size:21 final size:21
Alignment explanation
Indices: 117398466--117398515 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
117398456 AAACATATTT
*
117398466 AAAACAT-TTAAAATTTTATA
1 AAAACATATTAAAATTCTATA
*
117398486 AAAACATATTAAGATTCTATA
1 AAAACATATTAAAATTCTATA
117398507 AAAATCATA
1 AAAA-CATA
117398516 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAACATATTAAAATTCTATA
Found at i:117399937 original size:40 final size:41
Alignment explanation
Indices: 117399893--117400004 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 41
117399883 ACTATGTTTG
117399893 GCACTTAGTGTGCG-TTTCGAGATAGCTTCGGCTATATACA
1 GCACTTAGTGTGCGATTTCGAGATAGCTTCGGCTATATACA
* * * * * * **
117399933 GCACTAAATGTGTGAATT-GAAATAGCTTCGGCTTTATGTA
1 GCACTTAGTGTGCGATTTCGAGATAGCTTCGGCTATATACA
**
117399973 GCA-TTAAGTGTGCGATACCGAGATAGCTTCGG
1 GCACTT-AGTGTGCGATTTCGAGATAGCTTCGG
117400005 TTTAATGTGA
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
39 1 0.02
40 39 0.72
41 14 0.26
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (41 bp):
GCACTTAGTGTGCGATTTCGAGATAGCTTCGGCTATATACA
Found at i:117401821 original size:20 final size:21
Alignment explanation
Indices: 117401793--117401834 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
117401783 ACCAGTCCAA
* *
117401793 TTTAGGTTTT-TATGTTTTTT
1 TTTAAGTTTTATAAGTTTTTT
117401813 TTTAAGTTTTATAAGTTTTTT
1 TTTAAGTTTTATAAGTTTTTT
117401834 T
1 T
117401835 GCCATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (21 bp):
TTTAAGTTTTATAAGTTTTTT
Found at i:117401901 original size:17 final size:16
Alignment explanation
Indices: 117401881--117402010 Score: 80
Period size: 18 Copynumber: 7.2 Consensus size: 16
117401871 AATTTTATTT
117401881 TTTTATAATTTTTTACA
1 TTTTATAATTTTTTA-A
*
117401898 TTTTAATTATTTTTTAAGAA
1 TTTT-ATAATTTTTT---AA
*
117401918 TTCTAATAATTTTTTAA
1 TT-TTATAATTTTTTAA
*
117401935 TTTAAATAAGTTTTATTAA
1 TTT-TATAA-TTTT-TTAA
117401954 TTTTATAATTTTTTATA
1 TTTTATAATTTTTTA-A
*
117401971 TTTTATCTATTTTTATAA
1 TTTTAT-AATTTTT-TAA
* *
117401989 TATTTACAAGTTTTTATA
1 T-TTTATAATTTTTTA-A
117402007 TTTT
1 TTTT
117402011 TATTATAGTT
Statistics
Matches: 92, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
16 4 0.04
17 29 0.32
18 32 0.35
19 13 0.14
20 12 0.13
21 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTATAATTTTTTAA
Found at i:117401955 original size:19 final size:17
Alignment explanation
Indices: 117401885--117401973 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 17
117401875 TTATTTTTTT
*
117401885 ATAATTTTTTACATTTTA
1 ATAATTTTTTA-ATTTAA
*
117401903 ATTATTTTTTAAGAATTCT-A
1 ATAATTTTTT---AATT-TAA
117401923 ATAATTTTTTAATTTAA
1 ATAATTTTTTAATTTAA
*
117401940 ATAAGTTTTATTAATTT-T
1 ATAA-TTTT-TTAATTTAA
117401958 ATAATTTTTTATATTT
1 ATAATTTTTTA-ATTT
117401974 TATCTATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.07
17 17 0.28
18 17 0.28
19 7 0.12
20 13 0.22
21 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
ATAATTTTTTAATTTAA
Found at i:117401959 original size:9 final size:9
Alignment explanation
Indices: 117401871--117401986 Score: 55
Period size: 9 Copynumber: 12.9 Consensus size: 9
117401861 AGTTTACATC
117401871 AATTTTATT
1 AATTTTATT
*
117401880 -TTTTTA-T
1 AATTTTATT
117401887 AATTTT-TT
1 AATTTTATT
117401895 ACATTTTAATT
1 A-ATTTT-ATT
* **
117401906 ATTTTTTAAG
1 A-ATTTTATT
* *
117401916 AATTCTAAT
1 AATTTTATT
117401925 AATTTT-TT
1 AATTTTATT
* *
117401933 AATTTAAAT
1 AATTTTATT
117401942 AAGTTTTATT
1 AA-TTTTATT
117401952 AATTTTA-T
1 AATTTTATT
117401960 AATTTT-TT
1 AATTTTATT
117401968 ATATTTTATCT
1 A-ATTTTAT-T
*
117401979 ATTTTTAT
1 AATTTTAT
117401987 AATATTTACA
Statistics
Matches: 80, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 26 0.32
9 28 0.35
10 16 0.20
11 9 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
AATTTTATT
Found at i:117401969 original size:10 final size:10
Alignment explanation
Indices: 117401954--117402099 Score: 50
Period size: 10 Copynumber: 14.3 Consensus size: 10
117401944 GTTTTATTAA
117401954 TTTTATAATT
1 TTTTATAATT
117401964 TTTTAT-ATT
1 TTTTATAATT
* *
117401973 TTATCT-A-T
1 TTTTATAATT
117401981 TTTTATAA-T
1 TTTTATAATT
* * *
117401990 ATTTACAAGT
1 TTTTATAATT
*
117402000 TTTTATATTT
1 TTTTATAATT
*
117402010 TTATTATAGTT
1 TT-TTATAATT
117402021 ATTATTATAA-T
1 -TT-TTATAATT
* *
117402032 TTTAATAAGT
1 TTTTATAATT
** *
117402042 TGATATCATT
1 TTTTATAATT
117402052 TTTAATATTTAATAT
1 TTT--TA--TAAT-T
*
117402067 TTTTGTAATT
1 TTTTATAATT
* *
117402077 TTTTCTTATT
1 TTTTATAATT
117402087 TTTTATAATT
1 TTTTATAATT
117402097 TTT
1 TTT
117402100 AAGAGTTTTT
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
8 5 0.05
9 21 0.21
10 44 0.44
11 12 0.12
12 10 0.10
13 1 0.01
14 3 0.03
15 4 0.04
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:117401985 original size:36 final size:35
Alignment explanation
Indices: 117401873--117402016 Score: 114
Period size: 36 Copynumber: 4.0 Consensus size: 35
117401863 TTTACATCAA
* *
117401873 TTTTATT-TTTTTATAATTTTTTACATTTTAATTATT
1 TTTTATTAATTTTATAATTTTTTATATTTT-ATTA-T
** * * * *
117401909 TTTTAAGAATTCTAATAATTTTTTA-ATTTAAATAAG
1 TTTTATTAATT-TTATAATTTTTTATATTT-TATTAT
117401945 TTTTATTAATTTTATAATTTTTTATATTTTATCTAT
1 TTTTATTAATTTTATAATTTTTTATATTTTAT-TAT
* *
117401981 TTTTA-TAATATTTACAAGTTTTTATATTTTTATTAT
1 TTTTATTAAT-TTTATAATTTTTTATA-TTTTATTAT
117402017 AGTTATTATT
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
35 18 0.21
36 41 0.48
37 15 0.17
38 12 0.14
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (35 bp):
TTTTATTAATTTTATAATTTTTTATATTTTATTAT
Found at i:117402462 original size:17 final size:17
Alignment explanation
Indices: 117402440--117402472 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117402430 AGTTAAAAGA
117402440 AATTATAAAAAATTAAG
1 AATTATAAAAAATTAAG
*
117402457 AATTATAAGAAATTAA
1 AATTATAAAAAATTAA
117402473 TAAAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
AATTATAAAAAATTAAG
Found at i:117402610 original size:19 final size:19
Alignment explanation
Indices: 117402586--117402643 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
117402576 GTGTTTATAT
117402586 AGTTTTAATAATATTTAAA
1 AGTTTTAATAATATTTAAA
* *
117402605 AGTTTTAAAAATTATTTATA
1 AGTTTTAATAA-TATTTAAA
*
117402625 A-TTCTTAAT-ATTTTTAAA
1 AGTT-TTAATAATATTTAAA
117402643 A
1 A
117402644 TAATTTTCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.22
19 13 0.41
20 12 0.38
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
AGTTTTAATAATATTTAAA
Found at i:117409080 original size:62 final size:62
Alignment explanation
Indices: 117408983--117409106 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
117408973 TCTAGGTGAT
117408983 ATGATGAAATTGTATCCTATTACATCTAAATAAGATTCTCCATAAATTTATCTCCAAAAGAC
1 ATGATGAAATTGTATCCTATTACATCTAAATAAGATTCTCCATAAATTTATCTCCAAAAGAC
117409045 ATGATGAAATTGTATCCTATTACATCTAAATAAGATTCTCCATAAATTTATCTCCAAAAGAC
1 ATGATGAAATTGTATCCTATTACATCTAAATAAGATTCTCCATAAATTTATCTCCAAAAGAC
117409107 CCACATCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (62 bp):
ATGATGAAATTGTATCCTATTACATCTAAATAAGATTCTCCATAAATTTATCTCCAAAAGAC
Found at i:117413616 original size:26 final size:27
Alignment explanation
Indices: 117413587--117413648 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
117413577 TCTTTGATGT
* *
117413587 GCAAATGGTT-TGCCTATCTCATAGGC
1 GCAAATGGTTGTGCCTATCCCAGAGGC
117413613 GCAAATGGTTGTGCCTATCCCAGAGGC
1 GCAAATGGTTGTGCCTATCCCAGAGGC
117413640 GCAAATGGT
1 GCAAATGGT
117413649 GGGGCCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (27 bp):
GCAAATGGTTGTGCCTATCCCAGAGGC
Found at i:117416586 original size:18 final size:18
Alignment explanation
Indices: 117416560--117416594 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
117416550 TTTTTTTTAT
* *
117416560 TGTTTATATTATTTGTAA
1 TGTTAATATTAATTGTAA
117416578 TGTTAATATTAATTGTA
1 TGTTAATATTAATTGTA
117416595 TTATTTGTAT
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:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTAATATTAATTGTAA
Found at i:117420441 original size:93 final size:93
Alignment explanation
Indices: 117420329--117420501 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
117420319 CGCCCATAAG
* *
117420329 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
117420394 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
117420422 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
117420487 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
117420502 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:117420497 original size:46 final size:46
Alignment explanation
Indices: 117420322--117420497 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
117420312 TGTAACCCGC
* * *
117420322 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
117420368 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
117420418 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
117420461 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
117420498 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:117420516 original size:46 final size:45
Alignment explanation
Indices: 117420373--117420516 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
117420363 CGCATCCATA
* *
117420373 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
117420421 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
117420466 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
117420512 AGTGA
1 AGTGA
117420517 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:117423476 original size:46 final size:45
Alignment explanation
Indices: 117423416--117423681 Score: 330
Period size: 46 Copynumber: 6.0 Consensus size: 45
117423406 TTTGACATGA
* * * * * *
117423416 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** **
117423462 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
117423508 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
117423554 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
117423600 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
117423638 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
117423682 AGAGCACACT
Statistics
Matches: 195, Mismatches: 15, Indels: 20
0.85 0.07 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 147 0.75
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:117423645 original size:38 final size:38
Alignment explanation
Indices: 117423594--117423669 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
117423584 ACATTTTATA
117423594 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
117423632 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
117423670 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:117425829 original size:11 final size:11
Alignment explanation
Indices: 117425813--117425864 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
117425803 TATACTAAAT
117425813 AAATAATAATA
1 AAATAATAATA
*
117425824 AAATAAT-ATT
1 AAATAATAATA
* *
117425834 AAATATCTCATA
1 AAATA-ATAATA
*
117425846 AAATATTAATA
1 AAATAATAATA
117425857 AAATAATA
1 AAATAATA
117425865 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:117426492 original size:33 final size:33
Alignment explanation
Indices: 117426449--117426533 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
117426439 ATGAACTTGA
*
117426449 GCCGGAAGGAGTGGAGTACGACAATTGATACGG
1 GCCGGAAGGAGTGGAGTACGACAATGGATACGG
* * *
117426482 GCCGGGAGGAGTGGAGTACGGCTATGGATACGG
1 GCCGGAAGGAGTGGAGTACGACAATGGATACGG
* *
117426515 GCCAGAAGGAGCGGAGTAC
1 GCCGGAAGGAGTGGAGTAC
117426534 TGAGGTGGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.44, T:0.13
Consensus pattern (33 bp):
GCCGGAAGGAGTGGAGTACGACAATGGATACGG
Found at i:117429723 original size:60 final size:62
Alignment explanation
Indices: 117429596--117429723 Score: 190
Period size: 60 Copynumber: 2.1 Consensus size: 62
117429586 TAAACTAAAC
* * * *
117429596 ACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACAT
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAACAA
*
117429658 A-AAAAATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAA-AA
1 ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAACAA
117429717 ACAAAAA
1 ACAAAAA
117429724 AATACATTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
59 2 0.03
60 50 0.83
61 7 0.12
62 1 0.02
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (62 bp):
ACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAACAA
Found at i:117430400 original size:23 final size:24
Alignment explanation
Indices: 117430352--117430401 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
117430342 GCGTGAATGA
* *
117430352 AAAAAATACTCCATTTTCGTATAT
1 AAAAAATACTCAATTTTCGTAAAT
117430376 AAAAAATAC-CAATTTT-GATAAAT
1 AAAAAATACTCAATTTTCG-TAAAT
117430399 AAA
1 AAA
117430402 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.04
23 13 0.57
24 9 0.39
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAAATACTCAATTTTCGTAAAT
Done.