Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 65 of 292
Found at i:19397691 original size:78 final size:79
Alignment explanation
Indices: 19397534--19397716 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
19397524 TCGTTCAAAC
* * **
19397534 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
19397599 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
19397614 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
19397678 CAATTTGCACAATT
66 CAATTTGCACAATT
19397692 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
19397717 CTGAACATTC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:19404570 original size:28 final size:27
Alignment explanation
Indices: 19404471--19404589 Score: 143
Period size: 27 Copynumber: 4.4 Consensus size: 27
19404461 CATTAATCGA
*
19404471 TAAAATGACTATTTTGCCCTTTTGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
19404498 TAAAATGACTATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
19404525 TGAAATGACTATTTTGCCCTTATGTA-G
1 TAAAATGACTATTTTGCCCTTATG-AGG
* * *
19404552 TAAAAATGACAATTCTG-CCTCTATGTGG
1 T-AAAATGACTATTTTGCCCT-TATGAGG
19404580 TAAAATGACT
1 TAAAATGACT
19404590 GAAATGCCCT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
27 60 0.76
28 19 0.24
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:19407248 original size:46 final size:46
Alignment explanation
Indices: 19407198--19407370 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
19407188 TGGTTGAGCA
*
19407198 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
19407244 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
19407291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
19407337 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19407371 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19407354 original size:93 final size:93
Alignment explanation
Indices: 19407195--19407365 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
19407185 GGATGGTTGA
* * *
19407195 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
19407260 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
19407288 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
19407353 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19407366 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19407632 original size:19 final size:20
Alignment explanation
Indices: 19407595--19407632 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
19407585 ATAAGGTGGT
19407595 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
19407615 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
19407633 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:19410365 original size:40 final size:39
Alignment explanation
Indices: 19410200--19410383 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
19410190 AAATTGAATG
* * *
19410200 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
19410240 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
19410280 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
19410320 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
19410359 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
19410384 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:19410408 original size:80 final size:81
Alignment explanation
Indices: 19410240--19410428 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
19410230 GCTGGAAATT
* * * *
19410240 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19410305 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
19410321 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19410384 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19410400 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19410429 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19418130 original size:40 final size:39
Alignment explanation
Indices: 19417965--19418148 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
19417955 AAATTGAATG
* * *
19417965 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
19418005 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
19418045 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
19418085 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
19418124 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
19418149 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:19418173 original size:80 final size:81
Alignment explanation
Indices: 19418005--19418193 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
19417995 GCTGGAAATT
* * * *
19418005 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19418070 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
19418086 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19418149 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19418165 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19418194 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19421417 original size:40 final size:39
Alignment explanation
Indices: 19421252--19421435 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
19421242 AAATTGAATG
* * *
19421252 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
19421292 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
19421332 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
19421372 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
19421411 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
19421436 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:19421460 original size:80 final size:81
Alignment explanation
Indices: 19421292--19421480 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
19421282 GCTGGAAATT
* * * *
19421292 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
19421357 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
19421373 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
19421436 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
19421452 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
19421481 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:19424051 original size:43 final size:42
Alignment explanation
Indices: 19423985--19424141 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 42
19423975 AGCTCGTACA
* *
19423985 ATGCCAACGTCCCAGA-TGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATA-CG
** * * *
19424028 ATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAAGTACG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACG
* * * * *
19424070 ATGCCAATGTCCTAGAGATGGTCTTACATGTAAATCATAATCCA
1 ATGCCAATGTCCCAGACAGGGTCTTACATGT-AATCA-AATACG
* * * *
19424114 ATGCCAACGTCCTAGGCATGGTCTTACA
1 ATGCCAATGTCCCAGACAGGGTCTTACA
19424142 CGATAACACA
Statistics
Matches: 91, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
42 26 0.29
43 36 0.40
44 29 0.32
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACG
Found at i:19427713 original size:28 final size:29
Alignment explanation
Indices: 19427615--19427713 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
19427605 TCACAAATTG
* *
19427615 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
19427644 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
19427672 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
19427700 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19427714 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:19432325 original size:6 final size:6
Alignment explanation
Indices: 19432295--19432413 Score: 75
Period size: 6 Copynumber: 19.3 Consensus size: 6
19432285 AAGAAACATT
* * *
19432295 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
19432344 ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
19432395 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
19432414 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
5 5 0.06
6 69 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:19432349 original size:25 final size:25
Alignment explanation
Indices: 19432316--19432385 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
19432306 AATCAAAATG
19432316 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
19432341 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
19432366 AGAATTAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
19432386 TATCAGGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:19432353 original size:31 final size:30
Alignment explanation
Indices: 19432316--19432413 Score: 116
Period size: 31 Copynumber: 3.4 Consensus size: 30
19432306 AATCAAAATG
19432316 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
19432347 AGAATCAGAAT----T-AGGTGACAGAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
*
19432372 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
19432403 AAAATCAGAAT
1 AGAATCAGAAT
19432414 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 23 0.40
26 1 0.02
30 1 0.02
31 32 0.56
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:19432400 original size:25 final size:25
Alignment explanation
Indices: 19432316--19432410 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
19432306 AATCAAAATG
*
19432316 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
19432341 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
19432366 AGAATTAGAATCAGAATCA-GTATC
1 AGAATCAGAATCAGAATCAGGTAAC
*
19432390 AGGTAA-CAGAATCAAAATCAG
1 A-G-AATCAGAATCAGAATCAG
19432411 AATGTGAATG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.07
25 54 0.90
26 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:19432678 original size:27 final size:26
Alignment explanation
Indices: 19432630--19432681 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19432620 GCGAGGCTGC
*
19432630 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
19432656 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
19432682 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:19432748 original size:67 final size:67
Alignment explanation
Indices: 19432599--19432741 Score: 241
Period size: 67 Copynumber: 2.1 Consensus size: 67
19432589 TATATATCTA
* * *
19432599 TGGCGAAGCCACCAGATTGCTGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATA
1 TGGCGAGGCCACCAGATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAACAGATATA
19432664 TG
66 TG
* *
19432666 TGGCGAGGCCACCAGATTGCAGCGAGGCTACTAGATATTGTGACGAAGTCACCAGAATAGATATA
1 TGGCGAGGCCACCAGATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAACAGATATA
19432731 TG
66 TG
19432733 TGGCGAGGC
1 TGGCGAGGC
19432742 TGCCAGAACG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (67 bp):
TGGCGAGGCCACCAGATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAACAGATATA
TG
Found at i:19432996 original size:27 final size:27
Alignment explanation
Indices: 19432966--19433232 Score: 324
Period size: 27 Copynumber: 9.9 Consensus size: 27
19432956 AACACCCCAG
** * *
19432966 GGGTAAAATGGTAATTTTATAAATAGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
19432993 GGGTAAAAC-GATAATTCTCTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
19433020 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
**
19433047 GGGTAAAACAGTAATTTTGTAAATAAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
19433074 GGGTAAAACAGTAATTCTGTTAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
19433101 GGTTAAAAC-GATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
* *
19433128 GGGTAAAATAGTAATTTTGTAAAT-AA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
19433154 GGGTAAAATAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
19433181 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
19433208 GGGTAAAACAGTAATTTTGTAAATC
1 GGGTAAAACAGTAATTTTGTAAATC
19433233 TAGGATATTT
Statistics
Matches: 209, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 25 0.12
27 182 0.87
28 2 0.01
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:19433101 original size:81 final size:81
Alignment explanation
Indices: 19432966--19433231 Score: 376
Period size: 81 Copynumber: 3.3 Consensus size: 81
19432956 AACACCCCAG
** * * *
19432966 GGGTAAAATGGTAATTTTATAAATAGAGGGTAAAAC-GATAATTCTCTAAATCGAGGGTAAAACA
1 GGGTAAAACAGTAATTTTGTAAATAAAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACA
19433030 GTAATTTTGTAAATCGA
65 GTAATTTTGTAAATCGA
* *
19433047 GGGTAAAACAGTAATTTTGTAAATAAAGGGTAAAACAGTAATTCTGTTAATCGAGGTTAAAAC-G
1 GGGTAAAACAGTAATTTTGTAAATAAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
*
19433111 ATAATTCTGTAAATCGA
66 -TAATTTTGTAAATCGA
* * * *
19433128 GGGTAAAATAGTAATTTTGTAAAT-AAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACAGTAATTTTGTAAATAAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
*
19433192 TAATTTTGTAAATTGA
66 TAATTTTGTAAATCGA
19433208 GGGTAAAACAGTAATTTTGTAAAT
1 GGGTAAAACAGTAATTTTGTAAAT
19433232 CTAGGATATT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
80 71 0.43
81 93 0.56
82 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (81 bp):
GGGTAAAACAGTAATTTTGTAAATAAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:19440571 original size:42 final size:43
Alignment explanation
Indices: 19440508--19440617 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
19440498 GATTCGGTAT
* * *
19440508 TTACGTGTAAGACCACATCTGGGACATTAGCATCG-TATCTGA
1 TTACATGTAAGACCACGTCTGGGACAGTAGCATCGATATCTGA
* ** * *
19440550 TTTCATGTAAGACC-CTGTCTGGGGTAGTGGCATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTAGCATCGATATCTGA
19440593 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCACGTCTGGGAC
19440618 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.02
42 26 0.48
43 26 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCACGTCTGGGACAGTAGCATCGATATCTGA
Found at i:19440624 original size:43 final size:42
Alignment explanation
Indices: 19440508--19440625 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
19440498 GATTCGGTAT
* * * *
19440508 TTACGTGTAAGACCACATCTGGGACATTAGCATCGTATCTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCGTATCTGA
* *
19440550 TTTCATGTAAGACC-CTGTCTGGG--GTAGTGGCATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACGT--TGGCATCG-TATCTGA
19440593 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
19440626 TGTACGATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 25 0.40
43 32 0.52
44 1 0.02
45 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACGTTGGCATCGTATCTGA
Found at i:19448333 original size:27 final size:27
Alignment explanation
Indices: 19448297--19448350 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19448287 TGTCATGTGA
* *
19448297 AATTGAATGTCAAATTATTGTTACATG
1 AATTGAATGTCAAATTACTATTACATG
*
19448324 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGTCAAATTACTATTACATG
19448351 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (27 bp):
AATTGAATGTCAAATTACTATTACATG
Found at i:19448768 original size:50 final size:49
Alignment explanation
Indices: 19448591--19448835 Score: 240
Period size: 49 Copynumber: 4.9 Consensus size: 49
19448581 TCTATTGTGA
* * * ** *
19448591 GGTCACGTATGTAGTACTAAATGCAAACTACTACGTGTA-CTGAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
** * * * *
19448640 GGTCGTATGTGTAGTACTAAGTGCAGGGTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
19448690 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
19448740 AGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
19448790 GGTCGCATGTGTCGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
19448836 GCCTTGTCTA
Statistics
Matches: 157, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 73 0.46
50 48 0.31
51 36 0.23
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:19448787 original size:101 final size:98
Alignment explanation
Indices: 19448593--19448822 Score: 255
Period size: 101 Copynumber: 2.3 Consensus size: 98
19448583 TATTGTGAGG
* * ** * **
19448593 TCACGTATGTAGTACTAAATGCAAACTACTACGTGTACTGAATAATTGGTCGTATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGAATAATTGGTCACATGTGTAGTACT
* * *
19448658 AAGTGCAGGGTACTATGCGTACCCGATAACTTCGA
66 AAGTACAGGCTACTACGCGTACCCGATAA-TT-GA
**
19448693 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGTTAGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGAATAATT-GGTCACATGTGTAGTA
* * *
19448757 CTAAGTACAGGCTACTACGTGTACCGGATAATTGG
64 CTAAGTACAGGCTACTACGCGTACCCGATAATTGA
* * *
19448792 TCGCATGTGTCGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
19448823 TGCGTACCAG
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
99 29 0.26
100 39 0.35
101 42 0.38
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGAATAATTGGTCACATGTGTAGTACT
AAGTACAGGCTACTACGCGTACCCGATAATTGA
Found at i:19454156 original size:19 final size:19
Alignment explanation
Indices: 19454118--19454157 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19454108 AAGCTCACAA
*
19454118 TTTCATATACAACATATAC
1 TTTCATATACAAAATATAC
* *
19454137 TTTCATATATAAAATTTAC
1 TTTCATATACAAAATATAC
19454156 TT
1 TT
19454158 GGCCGATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTCATATACAAAATATAC
Found at i:19454658 original size:45 final size:43
Alignment explanation
Indices: 19454520--19454674 Score: 140
Period size: 45 Copynumber: 3.6 Consensus size: 43
19454510 TCGTACAATT
* * *
19454520 CCAATGTCCCAGACGTGGTCTTACATGTAATCAC-ATATCGACG
1 CCAACGTCCCAGACGTGGTCTTACACG-AATCACAATATCGATG
* * *
19454563 CC-ACTGTCCTAGACAG-GATCTTACACGAATC-GAATA-CGATG
1 CCAAC-GTCCCAGAC-GTGGTCTTACACGAATCACAATATCGATG
* * *
19454604 TCGATGTCCCAGACGTGGTCTTACACGCAATCACATATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACG-AATCACA-ATATCGATG
*
19454649 CCAACGTCCCAAACGTGGTCTTACAC
1 CCAACGTCCCAGACGTGGTCTTACAC
19454675 AAGAACACAT
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.01
41 23 0.26
42 13 0.15
43 20 0.23
44 4 0.05
45 27 0.31
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACACGAATCACAATATCGATG
Found at i:19455802 original size:14 final size:15
Alignment explanation
Indices: 19455785--19455813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19455775 TAACGAAAAT
19455785 TTCACACAT-ATAAA
1 TTCACACATAATAAA
19455799 TTCACACATAATAAA
1 TTCACACATAATAAA
19455814 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:19460920 original size:14 final size:15
Alignment explanation
Indices: 19460901--19460932 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
19460891 TTAAATAAAA
19460901 AAATTCACACAT-AT
1 AAATTCACACATAAT
19460915 AAATTCACACATAAT
1 AAATTCACACATAAT
19460930 AAA
1 AAA
19460933 CATAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATTCACACATAAT
Found at i:19463912 original size:16 final size:16
Alignment explanation
Indices: 19463893--19463923 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19463883 CTTCTTCACT
19463893 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19463909 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19463924 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19463929 original size:20 final size:20
Alignment explanation
Indices: 19463890--19463929 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19463880 AAACTTCTTC
* *
19463890 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19463910 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19463930 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19464371 original size:55 final size:54
Alignment explanation
Indices: 19464119--19464373 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
19464109 ACACGGGTAC
* * *
19464119 CTTACC-ATTGCCATGACTTGCCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * * *
19464168 CTTACC-ATTACCATGTCTCGACATGGTCTTACATGGCATTCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
19464221 CTCA-CAAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGGAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
19464276 CTTATCAA-TGTCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
19464329 CCTTACCAATTGTCATGCCTTCG-CATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTT-GACATGGTCTTACATGGTATCCTT
19464374 CAACCCTAAT
Statistics
Matches: 166, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
49 36 0.22
52 4 0.02
53 41 0.25
54 11 0.07
55 68 0.41
56 6 0.04
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:19469221 original size:14 final size:13
Alignment explanation
Indices: 19469167--19469224 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
19469157 TGACACTTTA
*
19469167 TTTTGAAGATATG
1 TTTTAAAGATATG
* * *
19469180 TTTTCAAGTTAAG
1 TTTTAAAGATATG
* *
19469193 TTTTTAAGCTATG
1 TTTTAAAGATATG
19469206 TTTTAAAAGATATG
1 TTTT-AAAGATATG
19469220 TTTTA
1 TTTTA
19469225 CGTGTGCTCC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
13 25 0.69
14 11 0.31
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (13 bp):
TTTTAAAGATATG
Found at i:19469272 original size:13 final size:14
Alignment explanation
Indices: 19469254--19469306 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
19469244 CTATGCTTTC
19469254 AAGTAT-GTTTTAT
1 AAGTATAGTTTTAT
19469267 AAGTATAGTTTTAT
1 AAGTATAGTTTTAT
19469281 AAGTATAGTTTTAT
1 AAGTATAGTTTTAT
19469295 AAGCTAT-GTTTT
1 AAG-TATAGTTTT
19469307 TGCAATCTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
13 6 0.16
14 29 0.76
15 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (14 bp):
AAGTATAGTTTTAT
Found at i:19474823 original size:18 final size:18
Alignment explanation
Indices: 19474800--19474837 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19474790 ATTCAGTTAA
19474800 AAAGTTACAAATAGAAGG
1 AAAGTTACAAATAGAAGG
19474818 AAAGTTACAAATAGAAGG
1 AAAGTTACAAATAGAAGG
19474836 AA
1 AA
19474838 GAAATCATTA
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:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (18 bp):
AAAGTTACAAATAGAAGG
Found at i:19477317 original size:20 final size:20
Alignment explanation
Indices: 19477270--19477317 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
19477260 TTAAAGAAGC
*
19477270 AATTAAATCAATTTGATTAA
1 AATTAAATCAAATTGATTAA
* **
19477290 AATCAAATCAAATTGATTGG
1 AATTAAATCAAATTGATTAA
19477310 AATTAAAT
1 AATTAAAT
19477318 AAAGTCAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (20 bp):
AATTAAATCAAATTGATTAA
Found at i:19479941 original size:40 final size:39
Alignment explanation
Indices: 19479869--19480093 Score: 220
Period size: 39 Copynumber: 5.6 Consensus size: 39
19479859 GCTACTCGTT
* * *
19479869 CAAATACCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* * * *
19479909 TAAATGCCTTCGGGACATAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAATTAGTAACTCGCA
* *
19479949 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
*
19479988 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
* * * * *
19480027 CAAATGCCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCATAGCCCGGAAT-TAGTAAC-TCGCA
* *
19480068 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CATAGCCCGGA
19480094 TATCATTCGA
Statistics
Matches: 160, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 74 0.46
40 59 0.37
41 27 0.17
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:19479980 original size:79 final size:80
Alignment explanation
Indices: 19479869--19480093 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 80
19479859 GCTACTCGTT
* * * * * *
19479869 CAAATACCTTCGG-GACATAGCCCAGTTATAGTAACTCGCATAAATGCCTTCGGGACATAACTCG
1 CAAATGCCTTCGGAG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAACCCG
*
19479933 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * *
19479949 CCAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGAGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACATAACCCG
19480011 GAATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
19480027 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAGCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAACCCG
19480092 GA
65 GA
19480094 TATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 34 0.27
79 49 0.40
80 30 0.24
81 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGAGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
AATTAGTAACTCGCA
Found at i:19479988 original size:39 final size:39
Alignment explanation
Indices: 19479897--19480093 Score: 243
Period size: 39 Copynumber: 4.9 Consensus size: 39
19479887 AGCCCAGTTA
* * * * *
19479897 TAGTAACTCGCATAAATGCCTTCGGGACATAACTCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
*
19479937 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
19479976 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* *
19480015 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT
* * *
19480054 ATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
19480094 TATCATTCGA
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 74 0.54
40 39 0.28
41 25 0.18
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
Found at i:19483694 original size:66 final size:65
Alignment explanation
Indices: 19483576--19483709 Score: 173
Period size: 66 Copynumber: 2.0 Consensus size: 65
19483566 AACAAAATCA
* *
19483576 AAATAAAATATGTTAAACAGGAGAATAAATCCCGAAACAAAAATATTTAATTAATTT-TTCGTTT
1 AAATAAAATATGTTAAACAGGAAAATAAATCCCGAAACAAAAATATTGAATT-ATTTCTT-GTTT
19483640 GG
64 GG
* * * *
19483642 AAATAAAATCTGTTAAACAGCGAAAATAAATCCTGAAAC-AGATTATTGAATTATTTCTTGTTTG
1 AAATAAAATATGTTAAACAG-GAAAATAAATCCCGAAACAAAAATATTGAATTATTTCTTGTTTG
19483706 G
65 G
19483707 AAA
1 AAA
19483710 CAATATCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
65 13 0.22
66 31 0.52
67 16 0.27
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.32
Consensus pattern (65 bp):
AAATAAAATATGTTAAACAGGAAAATAAATCCCGAAACAAAAATATTGAATTATTTCTTGTTTGG
Found at i:19483780 original size:81 final size:81
Alignment explanation
Indices: 19483666--19483858 Score: 226
Period size: 81 Copynumber: 2.4 Consensus size: 81
19483656 AAACAGCGAA
* * * * *
19483666 AATAAATCCTGAAACAGATTATTGAATTATTTCTTGTTTGGAAACAATATCAAAAAGGAATAAAA
1 AATAAATCCTGAAATAGATTATTAAATTATTTCTCGTTTGGAAACAAAATCAAAAACGAATAAAA
* *
19483731 TCTATTGAATGG-TGAG
66 TCTATTAAATGGCAG-G
* * * * *
19483747 AATAAATCCTGAAATAGATTATTCAATTGTTTCTCGTTTGGAAACAAAATTAGAATCGAATAAAA
1 AATAAATCCTGAAATAGATTATTAAATTATTTCTCGTTTGGAAACAAAATCAAAAACGAATAAAA
*
19483812 TCTGTTAAATGGCAGG
66 TCTATTAAATGGCAGG
* * *
19483828 ATTAAATCCAGAAATATATTATTAAATTATT
1 AATAAATCCTGAAATAGATTATTAAATTATT
19483859 AATTTTTATT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 93 0.99
82 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (81 bp):
AATAAATCCTGAAATAGATTATTAAATTATTTCTCGTTTGGAAACAAAATCAAAAACGAATAAAA
TCTATTAAATGGCAGG
Found at i:19484503 original size:20 final size:20
Alignment explanation
Indices: 19484478--19484526 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
19484468 AGGAGCAATT
*
19484478 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
**
19484498 AAATCAAATTGATTGGAATC
1 AAATCAAATTGATTAAAATC
*
19484518 AAATAAAAT
1 AAATCAAAT
19484527 CAAGACATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:19492256 original size:10 final size:10
Alignment explanation
Indices: 19492230--19492323 Score: 53
Period size: 10 Copynumber: 10.0 Consensus size: 10
19492220 TTAAGTAAAA
19492230 TTAAATTAA-
1 TTAAATTAAT
*
19492239 TCAAATTAAT
1 TTAAATTAAT
19492249 TTAAATTAAT
1 TTAAATTAAT
*
19492259 TTGATATT--T
1 TT-AAATTAAT
19492268 TTGGAAATTAAT
1 TT--AAATTAAT
**
19492280 TTTGATTAA-
1 TTAAATTAAT
*
19492289 GT-AA--AA-
1 TTAAATTAAT
19492295 TTAAATTAA-
1 TTAAATTAAT
19492304 TTAAATTAAT
1 TTAAATTAAT
19492314 TTAAATTAAT
1 TTAAATTAAT
19492324 ATGATAGTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
6 3 0.04
7 2 0.03
8 1 0.01
9 23 0.34
10 31 0.46
11 4 0.06
12 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:19492282 original size:65 final size:65
Alignment explanation
Indices: 19492198--19492391 Score: 336
Period size: 65 Copynumber: 3.0 Consensus size: 65
19492188 AATCTAAGTG
*
19492198 ATTTTTGGAAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATTTGA
1 ATTTTTGG-AAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGA
19492263 T
65 T
*
19492264 ATTTTTGGAAATTAATTTTGATTAAGTAAAATTAAATTAATTAAATTAATTTAAATTAATATGAT
1 ATTTTTGGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGAT
*
19492329 AGTTTT-GAAATTTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
1 ATTTTTGGAAA-TTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
19492392 GTAAAATTAA
Statistics
Matches: 123, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
64 4 0.03
65 111 0.90
66 8 0.07
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (65 bp):
ATTTTTGGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGAT
Found at i:19492307 original size:9 final size:9
Alignment explanation
Indices: 19492293--19492323 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
19492283 GATTAAGTAA
19492293 AATTAAATT
1 AATTAAATT
19492302 AATTAAATT
1 AATTAAATT
19492311 AATTTAAATT
1 AA-TTAAATT
19492321 AAT
1 AAT
19492324 ATGATAGTTT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTAAATT
Found at i:19492317 original size:19 final size:19
Alignment explanation
Indices: 19492228--19492426 Score: 70
Period size: 19 Copynumber: 10.2 Consensus size: 19
19492218 GATTAAGTAA
*
19492228 AATTAAATTAA-TCAAATT
1 AATTAAATTAATTTAAATT
*
19492246 AATTTAAATTAATTTGATATT
1 AA-TTAAATTAATTT-AAATT
* **
19492267 -TTTGGAAATTAATTTTGATT
1 AATT--AAATTAATTTAAATT
*
19492287 AAGT-AA--AA-TTAAATT
1 AATTAAATTAATTTAAATT
19492302 AATTAAATTAATTTAAATT
1 AATTAAATTAATTTAAATT
* *
19492321 AATATGATAGTTTTGAAATTTAATTTT
1 AAT-T-A-A--ATT--AATTTAA-ATT
* * * *
19492348 GATTAAGTAAAATTAAATT
1 AATTAAATTAATTTAAATT
*
19492367 AATCAAATTAATTTAAATT
1 AATTAAATTAATTTAAATT
** * *
19492386 AA-TATGGTAAAATTAAATT
1 AATTA-AATTAATTTAAATT
*
19492405 AATCAAATTAATTTAAATT
1 AATTAAATTAATTTAAATT
19492424 AAT
1 AAT
19492427 ATGGTATTTT
Statistics
Matches: 129, Mismatches: 32, Indels: 39
0.64 0.16 0.19
Matches are distributed among these distances:
15 8 0.06
16 4 0.03
18 7 0.05
19 64 0.50
20 12 0.09
21 16 0.12
22 2 0.02
24 3 0.02
25 1 0.01
26 8 0.06
27 4 0.03
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (19 bp):
AATTAAATTAATTTAAATT
Found at i:19492365 original size:5 final size:5
Alignment explanation
Indices: 19492357--19492425 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
19492347 TGATTAAGTA
* *
19492357 AAATT AAATT -AATC AAATT AATTT AAATT AATATGGT AAAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AA-AT--T -AAATT AAATT
* *
19492405 -AATC AAATT AATTT AAATT AA
1 AAATT AAATT AAATT AAATT AA
19492426 TATGGTATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
4 6 0.12
5 36 0.72
6 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:19492398 original size:38 final size:38
Alignment explanation
Indices: 19492354--19492432 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
19492344 TTTTGATTAA
19492354 GTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
1 GTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
19492392 GTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
1 GTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
19492430 GTA
1 GTA
19492433 TTTTTGGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (38 bp):
GTAAAATTAAATTAATCAAATTAATTTAAATTAATATG
Found at i:19499217 original size:40 final size:40
Alignment explanation
Indices: 19499105--19499257 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
19499095 GGATATAGCG
* * * * ***
19499105 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
19499145 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
19499185 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
19499225 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
19499258 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:19504529 original size:28 final size:28
Alignment explanation
Indices: 19504497--19504595 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
19504487 GCAATAAGCC
*
19504497 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
19504525 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
19504553 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
19504582 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19504596 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:19512198 original size:28 final size:28
Alignment explanation
Indices: 19512166--19512264 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
19512156 GCCATAAGCC
*
19512166 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
19512194 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
19512222 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
19512251 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19512265 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:19517974 original size:25 final size:26
Alignment explanation
Indices: 19517915--19517984 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 26
19517905 GATTTGCAGC
* *
19517915 TCATGAGAGCTTATCGATTCTTAGGT
1 TCATAAGAGCTTATCAATTCTTAGGT
* * *
19517941 T-GTATGAGCTTATCAATTTTTA-GT
1 TCATAAGAGCTTATCAATTCTTAGGT
* *
19517965 TCATAAGAGCATACCAATTC
1 TCATAAGAGCTTATCAATTC
19517985 ATAGCTCGTA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
24 3 0.09
25 29 0.88
26 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (26 bp):
TCATAAGAGCTTATCAATTCTTAGGT
Found at i:19520218 original size:47 final size:45
Alignment explanation
Indices: 19520147--19520318 Score: 188
Period size: 47 Copynumber: 3.7 Consensus size: 45
19520137 TTATTTGTGT
19520147 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGAGA
*
19520193 GCCAGTGTAAGACCATGTCTGGGACATAGCAT-GG-GCATTGA-GACGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT-ATGA-GA
* * * * *
19520239 GTGCTAGTGTAAGACCTGTCTGGGACATGCATCGGCTTCGATGATGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-AC-ATTATGAGA
19520288 GCCAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
19520319 AGCTAAGAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
45 6 0.06
46 19 0.18
47 60 0.56
48 15 0.14
49 3 0.03
50 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGAGA
Found at i:19520311 original size:94 final size:91
Alignment explanation
Indices: 19520145--19520419 Score: 268
Period size: 94 Copynumber: 2.9 Consensus size: 91
19520135 GGTTATTTGT
* * *
19520145 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GTGCTAGTGTAAGACCTGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATG
** *
19520210 TCTGGGACATAGCATGGGCATTGAGACG-A
66 TCTGGGACAT-GCATCAGC--TAAGA-GTA
** *
19520239 GTGCTAGTGTAAGACCTGTCTGGGACATGCATCGGCTTCGATGATGATAGCCAGTGTAAGA-CAT
1 GTGCTAGTGTAAGACCTGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCAT
*
19520303 GTCTGGGACATGCATCAGCTAAGAGTT
65 GTCTGGGACATGCATCAGCTAAGAGTA
* * * * * *
19520330 GTGCTAGTATAAGACCATGTCTGGGACATGGAATCAG-CATGTATATATACGAGAGCTAGTGTAA
1 GTGCTAGTGTAAGACC-TGTCTGGGACAT-GCATCGGCCA--CAT-GAT--GAGAGCCAGTGTAA
19520394 GACCATGTCTGGGACATGGCATCAGC
59 GACCATGTCTGGGACAT-GCATCAGC
19520420 CTCGATGACG
Statistics
Matches: 151, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
90 1 0.01
91 19 0.13
92 12 0.08
93 13 0.09
94 51 0.34
95 19 0.13
96 14 0.09
97 14 0.09
98 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (91 bp):
GTGCTAGTGTAAGACCTGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATG
TCTGGGACATGCATCAGCTAAGAGTA
Found at i:19538185 original size:14 final size:15
Alignment explanation
Indices: 19538166--19538194 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19538156 TGTCGAAACT
19538166 AAAAAGAAAA-AAAG
1 AAAAAGAAAAGAAAG
19538180 AAAAAGAAAAGAAAG
1 AAAAAGAAAAGAAAG
19538195 GAAGCTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAG
Found at i:19545975 original size:7 final size:7
Alignment explanation
Indices: 19545963--19546000 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
19545953 AGGTTTAATA
19545963 TAATATT
1 TAATATT
19545970 TAATATT
1 TAATATT
19545977 TAA-ATT
1 TAATATT
19545983 TAATATT
1 TAATATT
19545990 TAATATT
1 TAATATT
19545997 TAAT
1 TAAT
19546001 TTTTTTTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TAATATT
Found at i:19545985 original size:13 final size:14
Alignment explanation
Indices: 19545963--19546000 Score: 69
Period size: 13 Copynumber: 2.8 Consensus size: 14
19545953 AGGTTTAATA
19545963 TAATATTTAATATT
1 TAATATTTAATATT
19545977 TAA-ATTTAATATT
1 TAATATTTAATATT
19545990 TAATATTTAAT
1 TAATATTTAAT
19546001 TTTTTTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATATTTAATATT
Found at i:19546296 original size:15 final size:15
Alignment explanation
Indices: 19546276--19546309 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19546266 TTCAATTACT
19546276 TTTAATTTAGT-TTAA
1 TTTAATTTA-TCTTAA
19546291 TTTAATTTATCTTAA
1 TTTAATTTATCTTAA
19546306 TTTA
1 TTTA
19546310 TTTTTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTAATTTATCTTAA
Found at i:19548712 original size:46 final size:46
Alignment explanation
Indices: 19548662--19548832 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
19548652 TGGTTGAGCA
*
19548662 TCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19548708 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19548753 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
19548800 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19548833 GGGGGGGTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 19 0.18
45 15 0.14
46 35 0.33
47 24 0.23
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19555803 original size:46 final size:46
Alignment explanation
Indices: 19555753--19555878 Score: 200
Period size: 46 Copynumber: 2.7 Consensus size: 46
19555743 TGGTTGAGCA
* *
19555753 TCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
19555799 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
19555845 -CCCAAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
19555879 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.05
46 71 0.95
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:19559116 original size:12 final size:12
Alignment explanation
Indices: 19559099--19559138 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
19559089 TACCAAACTT
19559099 ATCATACATTTA
1 ATCATACATTTA
*
19559111 ATCATACATTTC
1 ATCATACATTTA
19559123 A-CATACAATTTA
1 ATCATAC-ATTTA
19559135 ATCA
1 ATCA
19559139 ATTCAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.21
12 17 0.71
13 2 0.08
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (12 bp):
ATCATACATTTA
Found at i:19559148 original size:20 final size:20
Alignment explanation
Indices: 19559120--19559158 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19559110 AATCATACAT
*
19559120 TTCACATACAATTT-AATCAA
1 TTCAAATAC-ATTTCAATCAA
19559140 TTCAAATACATTTCAATCA
1 TTCAAATACATTTCAATCA
19559159 CAACTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
TTCAAATACATTTCAATCAA
Found at i:19563801 original size:40 final size:40
Alignment explanation
Indices: 19563693--19563902 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
19563683 CGGGATTTAA
* * * * *
19563693 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
19563733 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19563773 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19563813 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19563853 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19563893 CCGGATATAT
1 CCGGATATAT
19563903 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:19571020 original size:40 final size:40
Alignment explanation
Indices: 19570912--19571121 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
19570902 CGGGATTTAA
* * * * *
19570912 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
19570952 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19570992 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19571032 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19571072 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
19571112 CCGGATATAT
1 CCGGATATAT
19571122 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:19590663 original size:15 final size:15
Alignment explanation
Indices: 19590643--19590676 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19590633 GAATTGTCAT
19590643 TGAATTGATATAGTG
1 TGAATTGATATAGTG
* *
19590658 TGAATTGCTATATTG
1 TGAATTGATATAGTG
19590673 TGAA
1 TGAA
19590677 CTGAGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (15 bp):
TGAATTGATATAGTG
Found at i:19590886 original size:47 final size:48
Alignment explanation
Indices: 19590774--19590900 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 48
19590764 GGTTATTTGT
19590774 GTGCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGC
1 GTGCTAATGTAAGACATGTCTGGGACATGCATCGG-C-CATTATGAGAGC
*
19590824 ---C-ACTGTAAGACCATGTCTGGGACATGACATCGG-CA-T-TGAGACGC
1 GTGCTAATGTAAGA-CATGTCTGGGACATG-CATCGGCCATTATGAGA-GC
*
19590868 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCTAATGTAAGACATGTCTGGGACATGCATC
19590901 AGTTAAGAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
43 5 0.07
44 3 0.04
45 2 0.03
46 12 0.18
47 32 0.47
48 14 0.21
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (48 bp):
GTGCTAATGTAAGACATGTCTGGGACATGCATCGGCCATTATGAGAGC
Found at i:19593219 original size:13 final size:13
Alignment explanation
Indices: 19593203--19593228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19593193 CTAGACACAC
19593203 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
19593216 GCCCGTGTCCTTT
1 GCCCGTGTCCTTT
19593229 CACACGGCTA
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:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCCGTGTCCTTT
Found at i:19594324 original size:47 final size:49
Alignment explanation
Indices: 19594120--19594436 Score: 261
Period size: 47 Copynumber: 6.7 Consensus size: 49
19594110 GGGATAAGTT
* * *
19594120 GCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTATCGTTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAG
* * * **
19594168 GCCGATGCCAAGGCCCAGACATGGTCTTACACTAGCTCTCCTAT-ATATATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-C-ATCATCGA-G
* * * *
19594219 TGCTGATGCCATGT-CCAGACATGGTCTTATACTAGC-A-CAAC-TCTTA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-GAG
* * *
19594265 ACCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAG
* * *
19594312 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTC-TCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGAG
* * * *
19594358 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTGATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAG
*
19594406 GTCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
19594437 GGCACAAAAA
Statistics
Matches: 217, Mismatches: 35, Indels: 36
0.75 0.12 0.12
Matches are distributed among these distances:
44 16 0.07
45 13 0.06
46 25 0.12
47 67 0.31
48 35 0.16
49 24 0.11
50 4 0.02
51 23 0.11
52 10 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAG
Found at i:19594413 original size:94 final size:94
Alignment explanation
Indices: 19594122--19594441 Score: 300
Period size: 94 Copynumber: 3.4 Consensus size: 94
19594112 GATAAGTTGC
* * * * *
19594122 CGATGCCATGTCCAGACATGGTCTTACACTGGCTA-TCGTTATCGAGGCCGATGCCAAGGCCCAG
1 CGATGCCATGTCCAGACATGGTCTTACACTAGC-ACTCG-TCTC-AAGCCGATGCCATGTCCCAG
*
19594186 ACATGGTCTTACACTAGCTCTCCTATATATAT-GT
63 ACATGGTCTTACACTAGCTCT-C-ATA-ATGTGGT
* * * *
19594220 GCTGATGCCATGTCCAGACATGGTCTTATACTAGCACAAC-TCTTAA-CCAATG-CATGTCCCAG
1 -C-GATGCCATGTCCAGACATGGTCTTACACTAGCAC-TCGTCTCAAGCCGATGCCATGTCCCAG
* * * * *
19594282 ACAT-GTCTTACACTGGCTATCATCATCGAGGC
63 ACATGGTCTTACACTAGCTCTCATAAT-GTGGT
19594314 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGT-CCAGACATGGTCTTACACTAGCACTCGTCTCAA-GCCGATGCCATGTCCCAGA
*
19594377 CATGGTCTTACACTAGCTCTGATAATGTGGT
64 CATGGTCTTACACTAGCTCTCATAATGTGGT
*
19594408 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
1 CGATGCCATGT-CCAGACATGGTCTTACACTAGCAC
19594442 AAAAATAACT
Statistics
Matches: 184, Mismatches: 26, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
90 1 0.01
91 24 0.13
92 14 0.08
93 8 0.04
94 52 0.28
95 32 0.17
96 12 0.07
97 5 0.03
98 1 0.01
99 4 0.02
100 30 0.16
101 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCAGACATGGTCTTACACTAGCACTCGTCTCAAGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCATAATGTGGT
Found at i:19603019 original size:40 final size:39
Alignment explanation
Indices: 19602971--19603153 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
19602961 GCTACTCGTT
*
19602971 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
* *
19603011 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTTAGTAACTCGCA
* *
19603051 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* * *
19603089 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
*
19603130 CAAA-GCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
19603154 ACATCATTCG
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 67 0.54
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:19603091 original size:78 final size:80
Alignment explanation
Indices: 19602973--19603154 Score: 219
Period size: 78 Copynumber: 2.3 Consensus size: 80
19602963 TACTCGTTCA
* * *
19602973 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
1 AATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGA
*
19603036 ATTTAGTAAC-TCGCAC
64 ATTTAGTAACTTAGCAC
** *
19603052 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGAAT
*
19603116 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
* *
19603131 AAAGCCTTCAGGACTTAGCCCGGA
1 AATGCCTTC-GGGCTTAGCCCGGA
19603155 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 47 0.53
79 26 0.29
80 13 0.15
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGAAT
TTAGTAACTTAGCAC
Found at i:19607345 original size:23 final size:23
Alignment explanation
Indices: 19607319--19607364 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19607309 AATTGTAACA
19607319 ATGTTTATCATATGAACTTACAT
1 ATGTTTATCATATGAACTTACAT
19607342 ATGTTTATCATATGAACTTACAT
1 ATGTTTATCATATGAACTTACAT
19607365 CGTACTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (23 bp):
ATGTTTATCATATGAACTTACAT
Found at i:19609377 original size:70 final size:70
Alignment explanation
Indices: 19609259--19609398 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
19609249 AGTCCGTAAT
* *
19609259 TTTCTTTTCTTGATCTAAATGTAATCAAAATTAACTTATTTAATTATCTCTTTATTCAATTTAGT
1 TTTCCTTTCTTGATCTAAATGTAATCAAAATTAACTTATTTAATTATCTCTCTATTCAATTTAGT
19609324 CTAAA
66 CTAAA
19609329 TTTCCTTTCTTGATCTAAATGTAATCAAAATTAACTTATTTAATTATCTCTCTATTCAATTTAGT
1 TTTCCTTTCTTGATCTAAATGTAATCAAAATTAACTTATTTAATTATCTCTCTATTCAATTTAGT
19609394 CTAAA
66 CTAAA
19609399 ATTCACATTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (70 bp):
TTTCCTTTCTTGATCTAAATGTAATCAAAATTAACTTATTTAATTATCTCTCTATTCAATTTAGT
CTAAA
Found at i:19614491 original size:19 final size:19
Alignment explanation
Indices: 19614467--19614507 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
19614457 AGGCCTTCGA
*
19614467 GGCCTAAAACATACATCTG
1 GGCCTAAAACATACATCGG
19614486 GGCCTAAAACATACATCGG
1 GGCCTAAAACATACATCGG
19614505 GGC
1 GGC
19614508 TATTCAGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (19 bp):
GGCCTAAAACATACATCGG
Found at i:19617260 original size:46 final size:46
Alignment explanation
Indices: 19617193--19617367 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
19617183 AACCCGCCCC
* *
19617193 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTACGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTACGCATCCA
* *
19617239 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA-G-TTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--TACGCATCCA
* * ** *
19617285 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTACGCATCCA
*
19617332 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
19617368 CTCAACCATC
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.03
46 66 0.62
47 33 0.31
48 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTACGCATCCA
Found at i:19617305 original size:93 final size:93
Alignment explanation
Indices: 19617198--19617368 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
19617188 GCCCCTAAGT
*** *
19617198 GAACTCGGACTCAACTCAACGAGCTCGGGTGTACGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATACGCATCCATAAGTGAACTCAGACTCAACTCAA
19617263 CGAGTTCGGATGCCTAGTTTCATTTCAC
66 CGAGTTCGGATGCCTAGTTTCATTTCAC
* *
19617291 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATACGCATCCATAAGTGAACTCAGACTCAACTCAA
19617356 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19617369 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATACGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTTCATTTCAC
Found at i:19622453 original size:40 final size:40
Alignment explanation
Indices: 19622349--19622563 Score: 305
Period size: 40 Copynumber: 5.4 Consensus size: 40
19622339 GATGATAACG
* *
19622349 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
19622389 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
19622428 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
19622468 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
19622508 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
19622548 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
19622564 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 53 0.32
40 110 0.67
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:19622521 original size:80 final size:80
Alignment explanation
Indices: 19622349--19622563 Score: 305
Period size: 79 Copynumber: 2.7 Consensus size: 80
19622339 GATGATAACG
* *
19622349 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGT-CCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGT
**
19622412 GCGAGTTACTAATTCC
65 GCGAACTACTAATTCC
19622428 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
19622493 CGAACTACT-ATATCC
66 CGAACTACTAAT-TCC
* * *
19622508 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
19622564 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
79 63 0.50
80 62 0.50
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAACTACTAATTCC
Found at i:19630461 original size:40 final size:40
Alignment explanation
Indices: 19630359--19630573 Score: 305
Period size: 40 Copynumber: 5.5 Consensus size: 40
19630349 CGGATGATAA
* * *
19630359 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
19630398 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
19630437 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
19630477 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
19630517 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
19630557 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
19630574 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 24 0.15
39 37 0.23
40 101 0.62
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:19633253 original size:15 final size:15
Alignment explanation
Indices: 19633235--19633268 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19633225 ATGAAGAAGC
19633235 CCAAAATAAAGAAAT
1 CCAAAATAAAGAAAT
* *
19633250 CCAAGATAAGGAAAT
1 CCAAAATAAAGAAAT
19633265 CCAA
1 CCAA
19633269 TTTACAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (15 bp):
CCAAAATAAAGAAAT
Found at i:19636661 original size:40 final size:40
Alignment explanation
Indices: 19636534--19636663 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
19636524 ATGCTGGAAA
* *
19636534 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
19636574 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
19636614 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
19636654 TTATATCCGG
1 TTATATCCGG
19636664 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:19644709 original size:40 final size:40
Alignment explanation
Indices: 19644582--19644711 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
19644572 ATGCTGGAAA
* *
19644582 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
19644622 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
19644662 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
19644702 TTATATCCGG
1 TTATATCCGG
19644712 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:19647561 original size:17 final size:18
Alignment explanation
Indices: 19647519--19647567 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
19647509 AGTTGAAAAG
19647519 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
19647538 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
19647555 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
19647568 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:19648453 original size:40 final size:40
Alignment explanation
Indices: 19648387--19648553 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
19648377 AAATTGAATG
* * *
19648387 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
19648426 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
19648466 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
19648506 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
19648546 ATATCCGG
1 ATATCCGG
19648554 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:19655154 original size:59 final size:58
Alignment explanation
Indices: 19655063--19655184 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 58
19655053 AGAGTATGAA
*
19655063 AAAAAAAAAAGAAAAAAAATGTTCATTCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAAAAAAAAGAAAAAAAATGTTCATCCTTCT-CATAGGCTTGGCCGAAAT-TACTAAGG
** ***
19655122 AAAAAAAAAAG-AAAAATTTGTTCATCCTTTCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAAAAAAAGAAAAAAAATGTTCATCC-TTCTCATAGGCTTGGCCGAAATTACTAAGG
*
19655180 GAAAA
1 AAAAA
19655185 GGGGAGGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
58 36 0.67
59 18 0.33
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (58 bp):
AAAAAAAAAAGAAAAAAAATGTTCATCCTTCTCATAGGCTTGGCCGAAATTACTAAGG
Found at i:19655543 original size:17 final size:18
Alignment explanation
Indices: 19655501--19655549 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
19655491 AGTTGAAAAG
19655501 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
19655520 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
19655537 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
19655550 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:19656434 original size:40 final size:40
Alignment explanation
Indices: 19656368--19656518 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
19656358 AAATTGAATG
* * *
19656368 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
19656407 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
19656447 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
19656487 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
19656519 ACTGATTATA
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:19661733 original size:40 final size:40
Alignment explanation
Indices: 19661688--19661817 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
19661678 CGGAATACAA
19661688 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
19661728 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
19661768 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
19661808 CCGGATATAA
1 CCGGATATAA
19661818 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:19673133 original size:99 final size:100
Alignment explanation
Indices: 19672953--19673192 Score: 306
Period size: 99 Copynumber: 2.4 Consensus size: 100
19672943 TCTATTGTGA
* * *
19672953 GGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCTGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAACTGTGATCACGTGTGTAG
* **
19673018 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
19673053 AGGTCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTA-CTGGATAA-T-TGGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCT-GAAAACTGTGATCACGTGTGT
*
19673115 AGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
19673152 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
19673193 AGATAGCTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
98 33 0.28
99 46 0.39
100 3 0.03
101 37 0.31
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:19673192 original size:49 final size:49
Alignment explanation
Indices: 19672960--19673197 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
19672950 TGAGGTCGCA
* * * * * *
19672960 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
19673011 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* **
19673061 TGTGTAGTACCAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
19673110 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
19673159 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
19673198 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 88 0.54
50 43 0.26
51 32 0.20
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:19680491 original size:68 final size:67
Alignment explanation
Indices: 19680419--19680568 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
19680409 CATCATGTGT
* * * *
19680419 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
19680481 ATGTAG
62 ATGTAG
** * *
19680487 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
19680552 AG
66 AG
19680554 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
19680569 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19680524 original size:64 final size:64
Alignment explanation
Indices: 19680443--19680626 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
19680433 AGACATTATG
* *
19680443 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19680507 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19680572 AA
63 AA
* * * *
19680574 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
19680627 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19684964 original size:64 final size:64
Alignment explanation
Indices: 19684883--19685065 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
19684873 AGACATTATG
* *
19684883 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19684947 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19685012 AA
63 AA
* * * *
19685014 ATG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
19685066 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
65 18 0.18
66 2 0.02
67 33 0.34
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19689503 original size:39 final size:38
Alignment explanation
Indices: 19689460--19689587 Score: 125
Period size: 39 Copynumber: 3.3 Consensus size: 38
19689450 CGGAATACAA
19689460 CCGGATATAACCACGT-GCACGAATGCCTTCGAGTCTTAG
1 CCGGATATAACCAC-TAGCACGAATGCCTTCG-GTCTTAG
* ** *
19689499 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAG
1 CCGGATATAACCACTAGCACGAATGCCTTC-GGTCTTAG
* * *
19689538 CCCGGATGTAGCCACTAGCAC-AATTGCCTTCGGTCTTAAC
1 -CCGGATATAACCACTAGCACGAA-TGCCTTCGGTCTT-AG
19689578 CCGGATATAA
1 CCGGATATAA
19689588 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
38 1 0.01
39 48 0.67
40 23 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGTCTTAG
Found at i:19696696 original size:40 final size:40
Alignment explanation
Indices: 19696651--19696780 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
19696641 CGGAATACAA
19696651 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
19696691 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
19696731 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
19696771 CCGGATATAA
1 CCGGATATAA
19696781 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:19696795 original size:40 final size:40
Alignment explanation
Indices: 19696651--19696814 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
19696641 CGGAATACAA
* **
19696651 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
19696691 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
19696731 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
19696771 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
19696811 CCGG
1 CCGG
19696815 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:19702292 original size:40 final size:40
Alignment explanation
Indices: 19702248--19702425 Score: 214
Period size: 40 Copynumber: 4.4 Consensus size: 40
19702238 GCTCGATTGT
* * * *
19702248 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
19702288 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
19702328 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
19702368 CTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAAC-TCGCACAAATGC
19702409 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
19702426 AATACCATTC
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.76
41 26 0.22
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
Found at i:19703141 original size:2 final size:2
Alignment explanation
Indices: 19703134--19703159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19703124 ATGTGCAAAC
19703134 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
19703160 GCTAGAGCCG
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:19710213 original size:40 final size:40
Alignment explanation
Indices: 19710169--19710346 Score: 205
Period size: 40 Copynumber: 4.4 Consensus size: 40
19710159 GCTCGATTGT
* * * *
19710169 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
19710209 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
19710249 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * * *
19710289 CTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAAC-TCGCACAAATGC
19710330 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
19710347 AATACCATTC
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.77
41 25 0.21
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
Found at i:19712313 original size:15 final size:15
Alignment explanation
Indices: 19712295--19712338 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
19712285 GAAGCCCAGA
19712295 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
19712310 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
19712325 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
19712339 TTTACAGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:19714289 original size:71 final size:71
Alignment explanation
Indices: 19714203--19714366 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19714193 CGATTTGTCT
19714203 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19714268 CTTTCA
66 CTTTCA
19714274 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19714339 CTTTCA
66 CTTTCA
19714345 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19714367 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19714404 original size:71 final size:70
Alignment explanation
Indices: 19714203--19714400 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
19714193 CGATTTGTCT
* * * *
19714203 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
19714268 CTTTCA
65 CTTTCA
* * * *
19714274 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
19714339 CTTTCA
65 CTTTCA
* *
19714345 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
19714401 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19730385 original size:29 final size:29
Alignment explanation
Indices: 19730352--19730482 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
19730342 GTGACGAGAT
19730352 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
19730381 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
19730410 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
19730439 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
19730468 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
19730483 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:19733646 original size:28 final size:28
Alignment explanation
Indices: 19733577--19733677 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
19733567 GACAAGATTG
* * * *
19733577 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
19733607 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19733635 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
19733664 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19733678 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19741583 original size:28 final size:28
Alignment explanation
Indices: 19741514--19741614 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
19741504 GACAAGATTG
* * * *
19741514 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
19741544 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19741572 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
19741601 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
19741615 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19743617 original size:23 final size:23
Alignment explanation
Indices: 19743586--19743687 Score: 109
Period size: 23 Copynumber: 4.4 Consensus size: 23
19743576 GCTGATGAAT
19743586 AGTAAGCTCTATTGAGCTAAAAC
1 AGTAAGCTCTATTGAGCTAAAAC
* * *
19743609 GGTAAGCTCTTTTGAGCT-GAAC
1 AGTAAGCTCTATTGAGCTAAAAC
*
19743631 AGTAAGCTC-ATATGAGCTGAAAC
1 AGTAAGCTCTAT-TGAGCTAAAAC
* * *
19743654 GGTAAGCTCCAATGAGCTGAAAAC
1 AGTAAGCTCTATTGAGCT-AAAAC
19743678 AGTAAGCTCT
1 AGTAAGCTCT
19743688 TACGAGCTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.02
22 17 0.27
23 33 0.52
24 13 0.20
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTAAAAC
Found at i:19743639 original size:45 final size:46
Alignment explanation
Indices: 19743562--19743695 Score: 139
Period size: 45 Copynumber: 2.8 Consensus size: 46
19743552 CCATATTCGA
*
19743562 TAAGCTCTTCTTGAGCTGATGAATAGTAAGCTCTAT-TGAGCTAAAACGG
1 TAAGCTCTT-TTGAGC---TGAACAGTAAGCTCTATATGAGCTAAAACGG
*
19743611 TAAGCTCTTTTGAGCTGAACAGTAAGCTC-ATATGAGCTGAAACGG
1 TAAGCTCTTTTGAGCTGAACAGTAAGCTCTATATGAGCTAAAACGG
*** *
19743656 TAAGCTCCAATGAGCTGAAAACAGTAAGCTCT-TACGAGCT
1 TAAGCTCTTTTGAGCTG--AACAGTAAGCTCTATATGAGCT
19743696 GATATATTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
44 2 0.03
45 39 0.52
47 19 0.25
48 6 0.08
49 9 0.12
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (46 bp):
TAAGCTCTTTTGAGCTGAACAGTAAGCTCTATATGAGCTAAAACGG
Found at i:19768947 original size:22 final size:22
Alignment explanation
Indices: 19768922--19768966 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19768912 TTGCAGTTTC
*
19768922 TGTTAGTACACATTCTTGGTCA
1 TGTTAGTACACACTCTTGGTCA
19768944 TGTTAGTACACACTCTTGGTCA
1 TGTTAGTACACACTCTTGGTCA
19768966 T
1 T
19768967 ATTTGCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (22 bp):
TGTTAGTACACACTCTTGGTCA
Found at i:19772854 original size:45 final size:45
Alignment explanation
Indices: 19772787--19772899 Score: 149
Period size: 45 Copynumber: 2.5 Consensus size: 45
19772777 ATGAACATAC
* * *
19772787 TTCATTTGAATTCAT-CATTTCCTTCCCATGAATATAGGATATAG
1 TTCATTGGAATACATACATTTCCTTCCCATGAATACAGGATATAG
* * *
19772831 CTT-ATTTGAATACTTACATTTCCTTTCCATGAATACAGGATATAG
1 -TTCATTGGAATACATACATTTCCTTCCCATGAATACAGGATATAG
19772876 TTCATTGGAATACATACATTTCCT
1 TTCATTGGAATACATACATTTCCT
19772900 CTCATTTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 12 0.20
45 48 0.80
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (45 bp):
TTCATTGGAATACATACATTTCCTTCCCATGAATACAGGATATAG
Found at i:19775155 original size:26 final size:26
Alignment explanation
Indices: 19775126--19775233 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
19775116 TGATACAAAT
19775126 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19775152 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19775178 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19775204 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19775230 TGAT
1 TGAT
19775234 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19778207 original size:26 final size:25
Alignment explanation
Indices: 19778170--19778253 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
19778160 TGATACAAAT
19778170 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
19778196 TGATAATGGGTTAGGTAAATGCTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
19778222 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
19778248 TGATAA
1 TGATAA
19778254 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 52 0.96
27 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:19779766 original size:26 final size:26
Alignment explanation
Indices: 19779737--19779789 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
19779727 TTTACAGTTT
19779737 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
19779763 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
19779789 T
1 T
19779790 GCATGTTTGA
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:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:19782442 original size:40 final size:40
Alignment explanation
Indices: 19782387--19782469 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
19782377 TTTGGCTACG
* *
19782387 GGCCATGATATAGGTA-TTCATAGAGGAGTTACCTTGGTTT
1 GGCCATGATATAGGTACTTCAGA-AGGAGTTACCTTGATTT
* * *
19782427 GGCCATGGTATAGGTACTTCGGAATGAGTTACCTTGATTT
1 GGCCATGATATAGGTACTTCAGAAGGAGTTACCTTGATTT
19782467 GGC
1 GGC
19782470 TTCGGGCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 33 0.89
41 4 0.11
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (40 bp):
GGCCATGATATAGGTACTTCAGAAGGAGTTACCTTGATTT
Found at i:19783697 original size:43 final size:43
Alignment explanation
Indices: 19783636--19783728 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
19783626 TTGAGACATA
* * *
19783636 GGCGTGTCTGGTGGCTGTGTGAGGTAGATGGTCTATTCATACG
1 GGCGTGTCTGGTGGCTGTGTGAGGTACATGGCCTATTCACACG
*
19783679 GGCGTGTCTGGTGGCTGTGTGAGGTACATGGCCTGTTCACACG
1 GGCGTGTCTGGTGGCTGTGTGAGGTACATGGCCTATTCACACG
19783722 GGCGTGT
1 GGCGTGT
19783729 GACCCTTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.12, C:0.17, G:0.41, T:0.30
Consensus pattern (43 bp):
GGCGTGTCTGGTGGCTGTGTGAGGTACATGGCCTATTCACACG
Found at i:19790151 original size:28 final size:27
Alignment explanation
Indices: 19790077--19790153 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
19790067 AACAGTATCG
**
19790077 TGGCAAAGCCACTAGTATCA-AAATATG
1 TGGCAAAGCCACTAGTA-CAGAAATACA
* * * *
19790104 TGGCTAAGCTACCAGAACAGCAAATACA
1 TGGCAAAGCCACTAGTACAG-AAATACA
19790132 TGGCAAAGCCACTAGTACAGAA
1 TGGCAAAGCCACTAGTACAGAA
19790154 CTTCCTCCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 2 0.05
27 15 0.39
28 21 0.55
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (27 bp):
TGGCAAAGCCACTAGTACAGAAATACA
Found at i:19799030 original size:48 final size:47
Alignment explanation
Indices: 19798946--19799122 Score: 194
Period size: 48 Copynumber: 3.7 Consensus size: 47
19798936 ATATTGATGA
* * *
19798946 CATGTCCTAGACATGGTCTCACA-GGAAATCATATATCGATGCCAATGC
1 CATGTCC-AGACATGGTCTTACATGG-GATCACATATCGATGCCAATGC
* * * * * * *
19798994 GATATACCAGATATGGTTTTACATTGGATCACATATCAATGCCAACGC
1 CATGT-CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
*
19799042 CATGTCCTAGACATGGTCTAACATGGGATCACATATCGATGCCAATGC
1 CATGTCC-AGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
*
19799090 CATGTCCCATACATGGTCTTACATGGGATCACA
1 CATGT-CCAGACATGGTCTTACATGGGATCACA
19799123 CATAATTATG
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.02
48 98 0.93
49 5 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
Found at i:19799078 original size:96 final size:96
Alignment explanation
Indices: 19798946--19799122 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
19798936 ATATTGATGA
* * * *
19798946 CATGTCCTAGACATGGTCTCACAGGAAATCATATATCGATGCCAATGCGATATACCAGATATGGT
1 CATGTCCTAGACATGGTCTAACAGGAAATCACATATCGATGCCAATGCCATATACCAGACATGGT
* *
19799011 TTTACATTGGATCACATATCAATGCCAACGC
66 CTTACATGGGATCACATATCAATGCCAACGC
* * * *
19799042 CATGTCCTAGACATGGTCTAACATGG-GATCACATATCGATGCCAATGCCATGTCCCATACATGG
1 CATGTCCTAGACATGGTCTAACA-GGAAATCACATATCGATGCCAATGCCATATACCAGACATGG
19799106 TCTTACATGGGATCACA
65 TCTTACATGGGATCACA
19799123 CATAATTATG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 68 0.97
97 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (96 bp):
CATGTCCTAGACATGGTCTAACAGGAAATCACATATCGATGCCAATGCCATATACCAGACATGGT
CTTACATGGGATCACATATCAATGCCAACGC
Found at i:19807808 original size:2 final size:2
Alignment explanation
Indices: 19807801--19807833 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19807791 TCATGACATG
19807801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19807834 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19814418 original size:25 final size:25
Alignment explanation
Indices: 19814390--19814438 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
19814380 TTATAATATG
* *
19814390 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTTTACCCCTAGGT
19814415 AAAAATGACCATTTTACCCCTAGG
1 AAAAATGACCATTTTACCCCTAGG
19814439 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (25 bp):
AAAAATGACCATTTTACCCCTAGGT
Done.