Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 313 of 344
Found at i:103071889 original size:25 final size:24
Alignment explanation
Indices: 103071825--103071890 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 24
103071815 TACAGTTTTC
103071825 TTAAATAT-TATAT-TATATATAT
1 TTAAATATATATATGTATATATAT
*
103071847 TTAAATACTAATACTATGTATATATGT
1 TTAAATA-T-ATA-TATGTATATATAT
*
103071874 TTCCAATATATATATGT
1 TT-AAATATATATATGT
103071891 TTACGTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 7 0.19
23 1 0.03
25 7 0.19
26 6 0.17
27 11 0.31
28 4 0.11
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (24 bp):
TTAAATATATATATGTATATATAT
Found at i:103084228 original size:75 final size:72
Alignment explanation
Indices: 103084097--103084263 Score: 196
Period size: 75 Copynumber: 2.3 Consensus size: 72
103084087 TACTCGAATG
* * * * *
103084097 TTTT-AATTTCTGTCTTTCAAAAATCAACTCATATTGTGTAAAGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGTAAAGTGAGTTGAACCTCA-G--ACA
*
103084161 CGCTGAGGTA
63 CGCCGAGGTA
* *
103084171 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCG-AGAGGTGAGTTGAACCTCAGACATG
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGTA-AAGTGAGTTGAACCTCAGACACG
103084235 CCGAGGTA
65 CCGAGGTA
103084243 TTTTCAGA-TTATGTTTTTCAA
1 TTTTCA-ATTTATGTTTTTCAA
103084264 TTTATGTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
72 30 0.37
73 1 0.01
74 6 0.07
75 45 0.55
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (72 bp):
TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGTAAAGTGAGTTGAACCTCAGACACGC
CGAGGTA
Found at i:103084308 original size:163 final size:161
Alignment explanation
Indices: 103084115--103084752 Score: 526
Period size: 163 Copynumber: 3.8 Consensus size: 161
103084105 TCTGTCTTTC
* *
103084115 AAAAATCAACTCATATTGTGTA-AAGTGAGTTGAGCCTCAGG-TCACACGCTGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCG-AGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAA
* *
103084178 TTTATGTTTTTC-AAAAATCAACTCATATGGCGAGAGGTGAGTTGAACCTCAGACATGCCGAGGT
64 TTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACATGCCGAGGT
*
103084242 ATTTTCAGATTATGTTTTTCAATTTATGTTTTCCCA
129 ATTTTCA-ATTATGTTTTT-AATTTATG-TTTCACA
* *
103084278 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* * *
103084343 TCTGTTTTTTATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGAC
66 TATGTTTTTCA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGAC
* * * *
103084408 A---C---G----TTGAAGTA--ATTTTAATTTCTG-TTCATCA
119 ATGCCGAGGTATTTTCAATTATGTTTTTAATTTATGTTTCA-CA
*
103084439 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* *
103084504 TCTGTTTTTCAATTTCTGTTCGTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AG
66 TATGTTTTTCAA------------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAC
* *
103084568 ATGCGCTGAGGTAATTTT-AATTTCTGTTCTTTAATTTATGTTTCAAA
119 ATGC-C-GAGGT-ATTTTCAA-TTATGTT-TTTAATTTATGTTTCACA
* * *
103084615 AAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAGG---ACACGCTGAGGTATTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* ** *
103084677 TTCTGTTTTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGCCCA
65 TTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG--ACATGCCGA
*
103084742 GTTATTTTCAA
126 GGTATTTTCAA
103084753 ATTCTGGTTT
Statistics
Matches: 390, Mismatches: 32, Indels: 104
0.74 0.06 0.20
Matches are distributed among these distances:
150 1 0.00
160 5 0.01
161 78 0.20
162 45 0.12
163 105 0.27
164 7 0.02
165 8 0.02
166 4 0.01
167 5 0.01
168 1 0.00
170 1 0.00
172 2 0.01
173 4 0.01
174 30 0.08
175 35 0.09
176 53 0.14
177 6 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (161 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
TATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACATGCCGAGGTAT
TTTCAATTATGTTTTTAATTTATGTTTCACA
Found at i:103084368 original size:88 final size:85
Alignment explanation
Indices: 103084171--103084817 Score: 460
Period size: 88 Copynumber: 7.6 Consensus size: 85
103084161 CGCTGAGGTA
* * * * *
103084171 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGAGAGGTGAGTTGAACCTCAG-ACATG
1 TTTTTAATTTTTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACATG
* *
103084235 CCGAGGTATTTTCAGA-TTATG
65 CTGAGGTATTTTCA-ATTTCTG
* *
103084256 TTTTTCAATTTATGTTTTCCCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
1 TTTTT-AATTTTTGTTTT--C-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-T-
103084321 ACATGCTGAGGTATTTTCAATTTCTG
60 ACATGCTGAGGTATTTTCAATTTCTG
* ** *
103084347 TTTTTTATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG-ACACG
1 TTTTTAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGTACATG
* *
103084411 TTGAAGTAATTTT-AATTTCTG
65 CTGAGGT-ATTTTCAATTTCTG
*
103084432 ---TTCA---------TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTTAATTTTTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-T-ACA
103084485 TGCTGAGGTATTTTCAATTTCTG
63 TGCTGAGGTATTTTCAATTTCTG
* * *
103084508 TTTTTCAATTTCTGTTCGTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AAGA
1 TTTTT-AATTTTTGTT--TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACA
103084569 TGCGCTGAGGTAATTTT-AATTTCTG
63 T--GCTGAGGT-ATTTTCAATTTCTG
* * *
103084594 TTCTTTAATTTATG-TTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-A
1 TT-TTTAATTTTTGTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTA
* *
103084657 CACGCTGAGGTATTTTTAATTTCTG
61 CATGCTGAGGTATTTTCAATTTCTG
*
103084682 ----T--TTTTCG---TC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACAT
1 TTTTTAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GT-ACAT
** * *
103084737 GCCCAGTTATTTTCAAATTCTGG
64 GCTGAGGTATTTTCAATTTCT-G
* * * *
103084760 TTTTTTTTTTAATGTCTGTTTTTCGAAAAATCAACTCATATCGCAAGAGGTGAGTTGA
1 -----TTTTTAATTTTTG-TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
103084818 ACCCAGGGTC
Statistics
Matches: 454, Mismatches: 44, Indels: 118
0.74 0.07 0.19
Matches are distributed among these distances:
73 4 0.01
74 37 0.08
75 41 0.09
76 17 0.04
77 19 0.04
78 1 0.00
79 4 0.01
80 1 0.00
81 4 0.01
82 3 0.01
83 3 0.01
84 3 0.01
85 26 0.06
86 38 0.08
87 50 0.11
88 127 0.28
89 3 0.01
90 13 0.03
91 28 0.06
93 2 0.00
95 30 0.07
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (85 bp):
TTTTTAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACATGC
TGAGGTATTTTCAATTTCTG
Found at i:103084477 original size:161 final size:161
Alignment explanation
Indices: 103084276--103084727 Score: 529
Period size: 161 Copynumber: 2.8 Consensus size: 161
103084266 TATGTTTTCC
*
103084276 CAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
1 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
* * *
103084341 TTTCTGTTTTT-TATTTTTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTA
66 TTTCTGTTTTTCAATTTCTGTTCTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
103084404 AGACACGTTGAAGTAATTTTAATTTCTGTTCAT
129 AGACACGCTGAAGTAATTTTAATTTCTGTTCAT
103084437 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
1 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
103084502 TTTCTGTTTTTCAATTTCTGTTCGTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 TTTCTGTTTTTCAATTTCTGTTC-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
** *
103084567 GATGCGCTGAGGTAATTTTAATTTCTGTTCTTTAATTTATGTTT
130 GACACGCTGAAGTAATTTTAATTTCTGTTC--------A----T
* * *
103084611 CAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAGG---ACACGCTGAGGTATTTT
1 C--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTT
*
103084673 TAATTTCTG---TT---TTTC-G-TC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 CAATTTCTGTTTTTCAATTTCTGTTCTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
103084728 GAGTCACATG
Statistics
Matches: 261, Mismatches: 12, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
161 75 0.29
162 72 0.28
163 37 0.14
164 2 0.01
166 2 0.01
167 1 0.00
168 4 0.02
170 1 0.00
171 2 0.01
174 26 0.10
176 37 0.14
177 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (161 bp):
CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
TTTCTGTTTTTCAATTTCTGTTCTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGCTGAAGTAATTTTAATTTCTGTTCAT
Found at i:103084514 original size:14 final size:14
Alignment explanation
Indices: 103084495--103084523 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103084485 TGCTGAGGTA
103084495 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
103084509 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
103084523 T
1 T
103084524 CGTTAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:103084955 original size:45 final size:45
Alignment explanation
Indices: 103084863--103084956 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
103084853 GGAGCTGATT
*
103084863 GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACTGATC
1 GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACAGATC
* * * * * * *
103084908 GAAGACACTAGATTTTGCCTCCTTGAAGTTGTAGTGGAGCAGGTC
1 GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACAGATC
103084953 GAAG
1 GAAG
103084957 TTGCAAGTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (45 bp):
GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACAGATC
Found at i:103085990 original size:28 final size:27
Alignment explanation
Indices: 103085890--103085990 Score: 71
Period size: 28 Copynumber: 3.4 Consensus size: 27
103085880 CAGAGTTAAC
* *
103085890 TGGGCCTTAGCCCATATCAATATTAATCA
1 TGGGCC-TAGCCCATATCAGTATCAAT-A
*
103085919 -GGGCCATAGCCCCT-TACAGTATCAGGGTATA
1 TGGGCC-TAGCCCATAT-CAGTATCA----ATA
103085950 CTGGGCCTAGCCCATATCAGTATCAATA
1 -TGGGCCTAGCCCATATCAGTATCAATA
103085978 TGGGCCGTAGCCC
1 TGGGCC-TAGCCC
103085991 TATTACAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
27 7 0.12
28 27 0.47
31 1 0.02
32 17 0.29
33 6 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (27 bp):
TGGGCCTAGCCCATATCAGTATCAATA
Found at i:103089036 original size:22 final size:21
Alignment explanation
Indices: 103089006--103089052 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
103088996 TATAAATTAA
103089006 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
103089028 ATCTTCAAGATTTCATATCAT
1 ATCTCCAAGATTACAGATCAT
103089049 ATCT
1 ATCT
103089053 AAGAGTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:103089063 original size:19 final size:19
Alignment explanation
Indices: 103089023--103089118 Score: 128
Period size: 17 Copynumber: 5.2 Consensus size: 19
103089013 AGATTACAAG
*
103089023 ATCATATCTTCAAGATTTCAT
1 ATCATATC-T-AAGATTGCAT
*
103089044 ATCATATCTAAGAGTGCAT
1 ATCATATCTAAGATTGCAT
103089063 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
103089080 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103089099 ATC--ATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103089116 ATC
1 ATC
103089119 CTTAAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
17 34 0.49
19 27 0.39
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:103089087 original size:36 final size:34
Alignment explanation
Indices: 103089043--103089112 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 34
103089033 CAAGATTTCA
103089043 TATCATATCTAAGAGTGCATATCATATCTAAGATTG
1 TATCATATCTAAGAGTGCATATC--ATCTAAGATTG
*
103089079 TATCATATCTAAGATTGCATATCATCTAAGATTG
1 TATCATATCTAAGAGTGCATATCATCTAAGATTG
103089113 CATATCCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 11 0.33
36 22 0.67
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (34 bp):
TATCATATCTAAGAGTGCATATCATCTAAGATTG
Found at i:103089879 original size:3 final size:3
Alignment explanation
Indices: 103089871--103089902 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
103089861 AAACATATGA
*
103089871 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
103089903 CATCCAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:103090424 original size:17 final size:17
Alignment explanation
Indices: 103090402--103090438 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
103090392 GCCTCTGACG
103090402 ACCCTGCAGCACCGACC
1 ACCCTGCAGCACCGACC
103090419 ACCCTGCAGCACCGACC
1 ACCCTGCAGCACCGACC
103090436 ACC
1 ACC
103090439 AACTCGGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.54, G:0.16, T:0.05
Consensus pattern (17 bp):
ACCCTGCAGCACCGACC
Found at i:103091410 original size:16 final size:17
Alignment explanation
Indices: 103091389--103091422 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
103091379 ATATTATGTA
103091389 TACTATTA-TATTTTAT
1 TACTATTATTATTTTAT
103091405 TACTATTATTATTTTAT
1 TACTATTATTATTTTAT
103091422 T
1 T
103091423 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TACTATTATTATTTTAT
Found at i:103091417 original size:22 final size:19
Alignment explanation
Indices: 103091392--103091434 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
103091382 TTATGTATAC
103091392 TATTATATTTTATTACTATTAT
1 TATTATA-TTTATTA-T-TTAT
*
103091414 TATTTTATTTATTATTTAT
1 TATTATATTTATTATTTAT
103091433 TA
1 TA
103091435 GCATTAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 7 0.35
22 6 0.30
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATATTTATTATTTAT
Found at i:103091997 original size:27 final size:26
Alignment explanation
Indices: 103091966--103092031 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
103091956 TTTTTAATAC
*
103091966 TATATTTTTAATACCATATATATTG-TG
1 TATATTTTTAATA-C-TAAATATTGATG
*
103091993 TATATTCTTAATACTAAATATTGTATG
1 TATATTTTTAATACTAAATATTG-ATG
103092020 TAT-TTTTTAATA
1 TATATTTTTAATA
103092032 ACTATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 8 0.24
26 9 0.26
27 17 0.50
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (26 bp):
TATATTTTTAATACTAAATATTGATG
Found at i:103092035 original size:27 final size:27
Alignment explanation
Indices: 103091966--103092049 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 27
103091956 TTTTTAATAC
*
103091966 TATATTTTTAATACCATATATATTG--TG
1 TATATTTTTAATAAC-TA-ATATTGTATG
*
103091993 TATATTCTTAAT-ACTAAATATTGTATG
1 TATATTTTTAATAACT-AATATTGTATG
*
103092020 TAT-TTTTTAATAACT-ATATTATATG
1 TATATTTTTAATAACTAATATTGTATG
103092045 TATAT
1 TATAT
103092050 ATATTATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
25 19 0.40
26 10 0.21
27 19 0.40
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (27 bp):
TATATTTTTAATAACTAATATTGTATG
Found at i:103093766 original size:16 final size:17
Alignment explanation
Indices: 103093745--103093778 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
103093735 TTATATTATA
103093745 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
103093761 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
103093778 T
1 T
103093779 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:103093776 original size:17 final size:16
Alignment explanation
Indices: 103093745--103093833 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 16
103093735 TTATATTATA
*
103093745 TATTATAAAATTATTT
1 TATTATAATATTATTT
103093761 TATTATAAGTATTATTTT
1 TATTATAA-TATTA-TTT
103093779 TAATTAT-ATATTATTAT
1 T-ATTATAATATTATT-T
103093796 TACTTATTATATATTATTTT
1 TA-TTA-TA-ATATTA-TTT
*
103093816 TCTTA-AATTATTATTT
1 TATTATAA-TATTATTT
103093832 TA
1 TA
103093834 CATCTCTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
16 16 0.27
17 20 0.33
18 6 0.10
19 8 0.13
20 8 0.13
21 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (16 bp):
TATTATAATATTATTT
Found at i:103093795 original size:20 final size:20
Alignment explanation
Indices: 103093733--103093830 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 20
103093723 CTAATTTTAC
*
103093733 TTTTATATTATATATTATAAAAT
1 TTTTA-ATTATATATTAT--TAT
* *
103093756 TATTTTATTATA-AGTATTAT
1 T-TTTAATTATATATTATTAT
103093776 TTTTAATTATATATTATTAT
1 TTTTAATTATATATTATTAT
*
103093796 TACTT-ATTATATATTATT-T
1 T-TTTAATTATATATTATTAT
103093815 TTCTTAAATTAT-TATT
1 TT-TT-AATTATATATT
103093831 TTACATCTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 13 0.21
20 28 0.45
21 7 0.11
22 4 0.06
23 7 0.11
24 3 0.05
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTTAATTATATATTATTAT
Found at i:103093814 original size:54 final size:55
Alignment explanation
Indices: 103093684--103093832 Score: 134
Period size: 54 Copynumber: 2.8 Consensus size: 55
103093674 ATATTTATTA
** * * *
103093684 TATTATT-C-TATATATATATT-TTTTATTATTTGT-TTATTTCTAATTTTACTTT
1 TATTATTACTTAT-TATATATTATTTTATTATAAGTATTATTTTTAATTATACTAT
*
103093736 TA-TATTA-TATATTATAAAATTATTTTATTATAAGTATTATTTTTAATTATA-TAT
1 TATTATTACT-TATTAT-ATATTATTTTATTATAAGTATTATTTTTAATTATACTAT
* *
103093790 TATTATTACTTATTATATATTATTTTTCTTA-AATTATTATTTT
1 TATTATTACTTATTATATATTA-TTTTATTATAAGTATTATTTT
103093833 ACATCTCTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
51 4 0.05
52 5 0.06
53 7 0.09
54 31 0.39
55 31 0.39
56 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (55 bp):
TATTATTACTTATTATATATTATTTTATTATAAGTATTATTTTTAATTATACTAT
Found at i:103093830 original size:3 final size:3
Alignment explanation
Indices: 103093754--103093813 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
103093744 ATATTATAAA
* * *
103093754 ATT ATT -TT ATT ATA AGT ATT ATT TTT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
103093801 ATT ATAT ATT ATT
1 ATT AT-T ATT ATT
103093814 TTTCTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 33 0.72
4 11 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:103093891 original size:44 final size:44
Alignment explanation
Indices: 103093780--103093893 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
103093770 TATTATTTTT
* *
103093780 AATTATATATTATT-ATTACTTAT-TATA-TATTATTTTTCTTA
1 AATTATATATTATTAATTACTTATATATATTATTAATTTTCATA
*
103093821 AATTAT-TATT-TTACATCT-CTTTTATATATTATTAAATTTTCATA
1 AATTATATATTATTA-AT-TACTTATATATATTATT-AATTTTCATA
*
103093865 TATTATAT-TTATTAATTACTTATATATAT
1 AATTATATATTATTAATTACTTATATATAT
103093894 ATTGTTTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
39 2 0.03
40 4 0.07
41 12 0.20
42 5 0.08
43 5 0.08
44 27 0.46
45 4 0.07
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (44 bp):
AATTATATATTATTAATTACTTATATATATTATTAATTTTCATA
Found at i:103094579 original size:16 final size:17
Alignment explanation
Indices: 103094558--103094593 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
103094548 TGCATTTTTT
*
103094558 TTCTTTATAT-GTATTA
1 TTCTTTATATCGTAGTA
103094574 TTCTTTATATCGTAGTA
1 TTCTTTATATCGTAGTA
103094591 TTC
1 TTC
103094594 ATTTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (17 bp):
TTCTTTATATCGTAGTA
Found at i:103095273 original size:20 final size:21
Alignment explanation
Indices: 103095248--103095288 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
103095238 TTTCGACAAC
103095248 GTATATA-TTTTTAATACTAT
1 GTATATACTTTTTAATACTAT
103095268 GTATATACTTTTTAATACTAT
1 GTATATACTTTTTAATACTAT
103095289 TATTATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (21 bp):
GTATATACTTTTTAATACTAT
Found at i:103096520 original size:15 final size:14
Alignment explanation
Indices: 103096488--103096546 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
103096478 GGATGTGGAG
*
103096488 GTGGAGGTGGATGTT
1 GTGG-GGTGGAGGTT
*
103096503 GTGCGGGTTGAGGTT
1 GTG-GGGTGGAGGTT
103096518 GTGGAGGTGGAGGTT
1 GTGG-GGTGGAGGTT
103096533 GTGGGGGTGGAGGT
1 GT-GGGGTGGAGGT
103096547 GGATGAGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.03
15 34 0.89
16 3 0.08
ACGTcount: A:0.10, C:0.02, G:0.59, T:0.29
Consensus pattern (14 bp):
GTGGGGTGGAGGTT
Found at i:103096522 original size:30 final size:30
Alignment explanation
Indices: 103096488--103096546 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
103096478 GGATGTGGAG
* *
103096488 GTGGAGGTGGATGTTGTGCGGGTTGAGGTT
1 GTGGAGGTGGAGGTTGTGCGGGTGGAGGTT
*
103096518 GTGGAGGTGGAGGTTGTGGGGGTGGAGGT
1 GTGGAGGTGGAGGTTGTGCGGGTGGAGGT
103096547 GGATGAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.02, G:0.59, T:0.29
Consensus pattern (30 bp):
GTGGAGGTGGAGGTTGTGCGGGTGGAGGTT
Found at i:103096532 original size:21 final size:21
Alignment explanation
Indices: 103096508--103096549 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
103096498 ATGTTGTGCG
**
103096508 GGTTGAGGTTGTGGAGGTGGA
1 GGTTGAGGGGGTGGAGGTGGA
*
103096529 GGTTGTGGGGGTGGAGGTGGA
1 GGTTGAGGGGGTGGAGGTGGA
103096550 TGAGGGTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.62, T:0.26
Consensus pattern (21 bp):
GGTTGAGGGGGTGGAGGTGGA
Found at i:103097339 original size:24 final size:22
Alignment explanation
Indices: 103097304--103097348 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
103097294 TATAAGTAAA
103097304 TATTATTTTATTATTAAAATAT
1 TATTATTTTATTATTAAAATAT
103097326 TATTATATTATATTATTAAAATA
1 TATTAT-TT-TATTATTAAAATA
103097349 AAATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTTTATTATTAAAATAT
Found at i:103097359 original size:12 final size:12
Alignment explanation
Indices: 103097342--103097375 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
103097332 ATTATATTAT
103097342 TAAAATAAAATA
1 TAAAATAAAATA
103097354 TAAAATAAAATA
1 TAAAATAAAATA
103097366 -AAACATAAAA
1 TAAA-ATAAAA
103097376 AAAAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:103097364 original size:17 final size:17
Alignment explanation
Indices: 103097342--103097379 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
103097332 ATTATATTAT
*
103097342 TAAAATAAAATATAAAA
1 TAAAATAAAACATAAAA
103097359 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
103097376 -AAAA
1 TAAAA
103097380 AGAAACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAAAACATAAAA
Found at i:103098200 original size:13 final size:13
Alignment explanation
Indices: 103098184--103098210 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103098174 TGTATATTGA
103098184 TTGGAAATTGAAT
1 TTGGAAATTGAAT
103098197 TTGGAAATTGAAT
1 TTGGAAATTGAAT
103098210 T
1 T
103098211 ATGTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGGAAATTGAAT
Found at i:103099470 original size:6 final size:6
Alignment explanation
Indices: 103099459--103099483 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
103099449 GCAGACGTTA
103099459 TGGAGG TGGAGG TGGAGG TGGAGG T
1 TGGAGG TGGAGG TGGAGG TGGAGG T
103099484 TGTGCGGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
TGGAGG
Found at i:103099498 original size:15 final size:14
Alignment explanation
Indices: 103099463--103099528 Score: 73
Period size: 15 Copynumber: 4.6 Consensus size: 14
103099453 ACGTTATGGA
*
103099463 GGTGGAGG-TG-GA
1 GGTGGAGGTTGTGG
103099475 GGTGGAGGTTGTGCG
1 GGTGGAGGTTGTG-G
*
103099490 GGTGCAGGTTGTGG
1 GGTGGAGGTTGTGG
103099504 AGGTGGAGGTTGTGGG
1 -GGTGGAGGTTGT-GG
103099520 GGTGGAGGT
1 GGTGGAGGT
103099529 GGAGGTGGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
12 8 0.17
13 2 0.04
14 2 0.04
15 32 0.70
16 2 0.04
ACGTcount: A:0.11, C:0.03, G:0.62, T:0.24
Consensus pattern (14 bp):
GGTGGAGGTTGTGG
Found at i:103099506 original size:30 final size:30
Alignment explanation
Indices: 103099470--103099528 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
103099460 GGAGGTGGAG
103099470 GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
1 GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
* *
103099500 GTGGAGGTGGAGGTTGTGGGGGTGGAGGT
1 GTGGAGGTGGAGGTTGTGCGGGTGCAGGT
103099529 GGAGGTGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.03, G:0.61, T:0.25
Consensus pattern (30 bp):
GTGGAGGTGGAGGTTGTGCGGGTGCAGGTT
Found at i:103100605 original size:17 final size:16
Alignment explanation
Indices: 103100585--103100616 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
103100575 TTTGATCTTT
103100585 TTGTTTCTTTTATTTTC
1 TTGTTTCTTTT-TTTTC
103100602 TTGTTTCTTTTTTTT
1 TTGTTTCTTTTTTTT
103100617 ATTTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.81
Consensus pattern (16 bp):
TTGTTTCTTTTTTTTC
Found at i:103101464 original size:24 final size:24
Alignment explanation
Indices: 103101422--103101576 Score: 116
Period size: 24 Copynumber: 6.2 Consensus size: 24
103101412 GTTATATATT
*
103101422 TTTTAACTATTTTACATATTATTTA
1 TTTTAACT-TTTTATATATTATTTA
*
103101447 TTTTAAGTTTTTATATATATTATTTA
1 TTTTAA-CTTTT-TATATATTATTTA
* *
103101473 TTTTAAAC-TTTTACATATTATATA
1 TTTT-AACTTTTTATATATTATTTA
* * * * *
103101497 TTTTAAATTTATATACATGATGTA
1 TTTTAACTTTTTATATATTATTTA
* *
103101521 GTTTAAACTATTTTATATGTTATTTA
1 -TTTTAACT-TTTTATATATTATTTA
* *
103101547 TTTTAAACTTTTT-TATGTTAATTA
1 TTTT-AACTTTTTATATATTATTTA
103101571 TTTTAA
1 TTTTAA
103101577 ACTGTTTTGC
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
23 4 0.04
24 40 0.39
25 25 0.24
26 32 0.31
27 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTAACTTTTTATATATTATTTA
Found at i:103101499 original size:50 final size:48
Alignment explanation
Indices: 103101431--103101579 Score: 140
Period size: 50 Copynumber: 3.0 Consensus size: 48
103101421 TTTTTAACTA
103101431 TTTTACATATTATTTATTTTAAGTTTTTATATATATTATTTATTTTAAAC
1 TTTTACATATTATTTATTTTAA--TTTTATATATATTATTTATTTTAAAC
* * * * * *
103101481 TTTTACATATTATATATTTTAAATTTATATACATGATGTAGTTTAAAC
1 TTTTACATATTATTTATTTTAATTTTATATATATTATTTATTTTAAAC
* * * *
103101529 TATTTTATATGTTATTTATTTTAAACTTTT-T-TATGTTAATTATTTTAAAC
1 --TTTTACATATTATTTATTTT-AA-TTTTATATATATTATTTATTTTAAAC
103101579 T
1 T
103101580 GTTTTGCATT
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
48 22 0.28
50 51 0.65
51 3 0.04
52 3 0.04
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (48 bp):
TTTTACATATTATTTATTTTAATTTTATATATATTATTTATTTTAAAC
Found at i:103101573 original size:74 final size:74
Alignment explanation
Indices: 103101455--103101636 Score: 189
Period size: 74 Copynumber: 2.5 Consensus size: 74
103101445 TATTTTAAGT
* **
103101455 TTTTATATATATTATTTATTTTAAACTTTTACATATTATATATTTTAAA-T-TTATATACATGAT
1 TTTT-TATATGTTATTTATTTTAAACTTTTTTATATTATATATTTTAAACTGTT-T-TACATGAT
103101518 GTAGTTTAAACTA
63 GTAGTTTAAA-TA
* * * *
103101531 -TTTTATATGTTATTTATTTTAAACTTTTTTATGTTA-ATTATTTTAAACTGTTTTGCATTATTT
1 TTTTTATATGTTATTTATTTTAAACTTTTTTATATTATA-TATTTTAAACTGTTTTACATGATGT
103101594 AGTTTAAATA
65 AGTTTAAATA
*
103101604 TTTTTTTATGTTA-TT-TTTT-AACTATTTTTATAT
1 TTTTTATATGTTATTTATTTTAAACT-TTTTTATAT
103101637 GTGTTATCTA
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
71 4 0.04
72 12 0.13
73 5 0.05
74 64 0.70
75 5 0.05
76 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (74 bp):
TTTTTATATGTTATTTATTTTAAACTTTTTTATATTATATATTTTAAACTGTTTTACATGATGTA
GTTTAAATA
Found at i:103101584 original size:26 final size:25
Alignment explanation
Indices: 103101421--103101701 Score: 100
Period size: 24 Copynumber: 11.2 Consensus size: 25
103101411 CGTTATATAT
* * * *
103101421 TTTTTAACTATTTTACATATTATTTA
1 TTTTAAACT-TTTTATATGTTAATTA
** * *
103101447 TTTTAAGTTTTTATATATATTATTTA
1 TTTTAAACTTTT-TATATGTTAATTA
* *
103101473 TTTTAAAC-TTTTACATATT-ATATA
1 TTTTAAACTTTTTATATGTTAAT-TA
* ** *
103101497 TTTTAAA-TTTATATA-CATGATGTA
1 TTTTAAACTTTTTATATGTTAAT-TA
* *
103101521 GTTTAAACTATTTTATATGTTATTTA
1 TTTTAAACT-TTTTATATGTTAATTA
103101547 TTTTAAACTTTTT-TATGTTAATTA
1 TTTTAAACTTTTTATATGTTAATTA
** *
103101571 TTTTAAACTGTTTTGCA--TTATTTA
1 TTTTAAACT-TTTTATATGTTAATTA
* * *
103101595 GTTTAAATATTTTTTTATGTT-ATT-
1 TTTTAAA-CTTTTTATATGTTAATTA
*
103101619 TTTT-AACTATTTTTATATGTGTTATCTA
1 TTTTAAAC--TTTTTATATGT-TAAT-TA
* * *
103101647 TTTTAAA-TTTCTACATGTTATTTA
1 TTTTAAACTTTTTATATGTTAATTA
* * * *
103101671 -GTTATACGGTTTTATATGTTAACTA
1 TTTTAAAC-TTTTTATATGTTAATTA
103101696 TTTTAA
1 TTTTAA
103101702 CTTCTCTTTT
Statistics
Matches: 189, Mismatches: 44, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
23 8 0.04
24 82 0.43
25 33 0.17
26 57 0.30
27 3 0.02
28 4 0.02
29 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (25 bp):
TTTTAAACTTTTTATATGTTAATTA
Found at i:103101599 original size:24 final size:24
Alignment explanation
Indices: 103101394--103101601 Score: 95
Period size: 24 Copynumber: 8.5 Consensus size: 24
103101384 TCATTGACCT
*
103101394 TTTATTTTAAACTG-TTT-CGTTA
1 TTTATTTTAAACTGTTTTACATTA
* * *
103101416 TATATTTTTTAACTATTTTACATATTA
1 TTTA-TTTTAAACTGTTTTAC--ATTA
** * *
103101443 TTTATTTTAAGTTTTTATATATATTA
1 TTTATTTTAAACTGTT-T-TACATTA
103101469 TTTATTTTAAAC--TTTTACATATTA
1 TTTATTTTAAACTGTTTTAC--ATTA
* *
103101493 TATATTTTAAA-T-TTATATACATGA
1 TTTATTTTAAACTGTT-T-TACATTA
* * * *
103101517 TGTAGTTTAAACTATTTTATATGTTA
1 TTTATTTTAAACTGTTTTACA--TTA
* **
103101543 TTTATTTTAAACTTTTTTATGTTA
1 TTTATTTTAAACTGTTTTACATTA
* *
103101567 ATTATTTTAAACTGTTTTGCATTA
1 TTTATTTTAAACTGTTTTACATTA
*
103101591 TTTAGTTTAAA
1 TTTATTTTAAA
103101602 TATTTTTTTA
Statistics
Matches: 140, Mismatches: 30, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
22 5 0.04
23 9 0.06
24 67 0.48
25 4 0.03
26 46 0.33
27 7 0.05
28 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
TTTATTTTAAACTGTTTTACATTA
Found at i:103101882 original size:26 final size:26
Alignment explanation
Indices: 103101853--103101913 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
103101843 CTTTTATATG
103101853 TTATTTTAAAGTGT-CTTA-TACATTAT
1 TTATTTTAAA-T-TACTTAGTACATTAT
*
103101879 TTATTTTAAATTACTTAGTATATTAT
1 TTATTTTAAATTACTTAGTACATTAT
103101905 TTATTTTAA
1 TTATTTTAA
103101914 TATTGTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 5 0.16
26 26 0.81
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (26 bp):
TTATTTTAAATTACTTAGTACATTAT
Found at i:103101949 original size:26 final size:27
Alignment explanation
Indices: 103101898--103101956 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
103101888 ATTACTTAGT
*
103101898 ATATTATTTATTTTAATATTGTTTTAC
1 ATATTATTTATTTGAATATTGTTTTAC
103101925 ATATTATTT-TTCTGAA-ATTGTTTTAC
1 ATATTATTTATT-TGAATATTGTTTTAC
103101951 ACTATT
1 A-TATT
103101957 TACTTCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (27 bp):
ATATTATTTATTTGAATATTGTTTTAC
Found at i:103101956 original size:24 final size:24
Alignment explanation
Indices: 103101915--103101973 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
103101905 TTATTTTAAT
*
103101915 ATTGTTTTACATATTATTT-TTCTGAA
1 ATTGTTTTACA-ACTATTTATTC--AA
103101941 ATTGTTTTAC-ACTATTTACTTCAA
1 ATTGTTTTACAACTATTTA-TTCAA
103101965 ATTGTTTTA
1 ATTGTTTTA
103101974 TACATTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 17 0.57
26 13 0.43
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (24 bp):
ATTGTTTTACAACTATTTATTCAA
Found at i:103103106 original size:32 final size:32
Alignment explanation
Indices: 103103040--103103106 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
103103030 TTATAAATTA
**
103103040 GGATTTTTATGCAAAATCAAGTTTTTATTGAT
1 GGATTTTTATGCAAAATCAAGTTTTTATCAAT
* *
103103072 GGATTTTTATGCAAGATTAAGTTTTTATCAAT
1 GGATTTTTATGCAAAATCAAGTTTTTATCAAT
103103104 GGA
1 GGA
103103107 ATGATTTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (32 bp):
GGATTTTTATGCAAAATCAAGTTTTTATCAAT
Found at i:103103767 original size:21 final size:21
Alignment explanation
Indices: 103103741--103103785 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
103103731 TCATAATTTA
*
103103741 TTTTTCTATTTCACTTTT-TTC
1 TTTTTCCATTTC-CTTTTATTC
*
103103762 TTTTTCCCTTTCCTTTTATTC
1 TTTTTCCATTTCCTTTTATTC
103103783 TTT
1 TTT
103103786 CCCTTTCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTCCATTTCCTTTTATTC
Found at i:103104443 original size:30 final size:32
Alignment explanation
Indices: 103104396--103104455 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
103104386 AGATTGATGA
*
103104396 ATTTTTGTTTGTTATGTTAATTTT-TTAATGG
1 ATTTTTGTTTGTGATGTTAATTTTCTTAATGG
*
103104427 ATTTTT-TTTGTGATGTTAGTTTTCTTAAT
1 ATTTTTGTTTGTGATGTTAATTTTCTTAAT
103104456 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.18, C:0.02, G:0.15, T:0.65
Consensus pattern (32 bp):
ATTTTTGTTTGTGATGTTAATTTTCTTAATGG
Found at i:103105061 original size:30 final size:31
Alignment explanation
Indices: 103104996--103105064 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
103104986 AGTTCGGTTG
* *
103104996 CCAATCTGGGACAAAAAAAAACATATTGAGTA
1 CCAATCTGGGACAAAAAAAAACA-ATTAAGCA
*
103105028 CCAATCTGGGACAAAAAAAAAC-CTTAAGCA
1 CCAATCTGGGACAAAAAAAAACAATTAAGCA
103105058 CCAATCT
1 CCAATCT
103105065 AGGAGAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 12 0.35
32 22 0.65
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (31 bp):
CCAATCTGGGACAAAAAAAAACAATTAAGCA
Found at i:103105323 original size:38 final size:38
Alignment explanation
Indices: 103105262--103105336 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
103105252 ATTTTTTGGA
* *
103105262 AGATTAAAACCTTTTGGGTAATCTCCAACAATGGATTT
1 AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATTT
103105300 AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATT
1 AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATT
103105337 CTAGTATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (38 bp):
AGATTAAAACCTTCTGGGCAATCTCCAACAATGGATTT
Found at i:103106716 original size:18 final size:18
Alignment explanation
Indices: 103106693--103106766 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
103106683 TTTATTCAAC
103106693 TATTATTATACTTGCTAA
1 TATTATTATACTTGCTAA
103106711 TATTATTATATGCATTGAAACATTCAA
1 TATTATTATA--C-TTG---C--T-AA
103106738 CTATTATTATACTTGCTAA
1 -TATTATTATACTTGCTAA
103106757 TATTATTATA
1 TATTATTATA
103106767 TGCATTGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
18 20 0.43
19 2 0.04
20 2 0.04
21 3 0.07
22 1 0.02
24 1 0.02
25 3 0.07
26 2 0.04
27 2 0.04
28 10 0.22
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (18 bp):
TATTATTATACTTGCTAA
Found at i:103106753 original size:46 final size:46
Alignment explanation
Indices: 103106686--103106783 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
103106676 TTTTTGATTT
103106686 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
1 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
103106732 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
1 ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
103106778 ATTCAA
1 ATTCAA
103106784 ATGTATTATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (46 bp):
ATTCAACTATTATTATACTTGCTAATATTATTATATGCATTGAAAC
Found at i:103108505 original size:27 final size:26
Alignment explanation
Indices: 103108457--103108534 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
103108447 GCGAGGCTGC
* *
103108457 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
103108483 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
103108510 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
103108535 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:103110159 original size:26 final size:26
Alignment explanation
Indices: 103110129--103110210 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
103110119 TGAAATGCCC
103110129 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
103110155 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
103110181 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
103110207 ATCA
1 ATCA
103110211 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:103133018 original size:71 final size:71
Alignment explanation
Indices: 103132884--103133022 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 71
103132874 AATTTTTACT
* * *
103132884 TTTCCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGATAATTTCAA
103132949 TTTATG
66 TTTATG
* ** * *
103132955 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGATATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGATAATTTCAA
103133020 TTT
66 TTT
103133023 CTACTTTCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (71 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGATAATTTCAA
TTTATG
Found at i:103133186 original size:54 final size:55
Alignment explanation
Indices: 103133032--103133248 Score: 298
Period size: 56 Copynumber: 4.0 Consensus size: 55
103133022 TCTACTTTCC
* *
103133032 AATTCCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
1 AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* *
103133088 AATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
1 AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* *
103133144 AATTTCTGTTTTTC-AAAAAGCAACGCATATTGCGAGAGGTGAGTTGTA-CCTTTT
1 AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTT
* * *
103133198 AATTTTTGTTTTTC--AAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
103133249 GGGTCATATG
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 32 0.22
54 49 0.33
55 1 0.01
56 64 0.44
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (55 bp):
AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:103135577 original size:23 final size:22
Alignment explanation
Indices: 103135550--103135668 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 22
103135540 TTTTTAATAT
103135550 TATATTTCACATATATTATTATA
1 TATATTTCA-ATATATTATTATA
*
103135573 TATATTTTAATATTATTAGTTATA
1 TATATTTCAATA-TATTA-TTATA
** *
103135597 T-T-TTTCTTTTATACTATTATA
1 TATATTTC-AATATATTATTATA
* *
103135618 TATATTTCTA-ATATTA-TATTG
1 TATATTTCAATATATTATTA-TA
103135639 TATATTTCTAATACTATTATTTATA
1 TATATTTC-AATA-TATTA-TTATA
103135664 TATAT
1 TATAT
103135669 GTGTGTGTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.03
21 20 0.27
22 13 0.17
23 21 0.28
24 11 0.15
25 6 0.08
26 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTTCAATATATTATTATA
Found at i:103135644 original size:21 final size:21
Alignment explanation
Indices: 103135549--103135664 Score: 85
Period size: 21 Copynumber: 5.3 Consensus size: 21
103135539 GTTTTTAATA
103135549 TTATATTTC-ACATA-TATTAT
1 TTATATTTCTA-ATACTATTAT
* *
103135569 TATATATATTTTAATATTATTAGT
1 T-TATAT-TTCTAATACTATTA-T
* *
103135593 TATATTTTTCTTTTATACTATTAT
1 T-TATATTTC--TAATACTATTAT
* *
103135617 ATATATTTCTAATATTA-TAT
1 TTATATTTCTAATACTATTAT
103135637 TGTATATTTCTAATACTATTAT
1 T-TATATTTCTAATACTATTAT
103135659 TTATAT
1 TTATAT
103135665 ATATGTGTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.05
21 31 0.41
22 9 0.12
23 15 0.20
24 8 0.11
25 9 0.12
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATATTTCTAATACTATTAT
Found at i:103137289 original size:32 final size:32
Alignment explanation
Indices: 103137242--103137310 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
103137232 ATTTAGGGTT
* *
103137242 AAGAAGAGAAAAAGAAGAAAAAAAAGGAGGAG
1 AAGAGGAGAAAAAGAAGAAAAAAAACGAGGAG
* *
103137274 AAGAGGAGAAGAAGAAGAAAAAGAACGAGGAG
1 AAGAGGAGAAAAAGAAGAAAAAAAACGAGGAG
103137306 AAGAG
1 AAGAG
103137311 AAAATGGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.64, C:0.01, G:0.35, T:0.00
Consensus pattern (32 bp):
AAGAGGAGAAAAAGAAGAAAAAAAACGAGGAG
Found at i:103144036 original size:15 final size:15
Alignment explanation
Indices: 103144013--103144043 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103144003 TGTTTTGGGC
103144013 TTGTAAATGGACTTT
1 TTGTAAATGGACTTT
*
103144028 TTGTTAATGGACTTT
1 TTGTAAATGGACTTT
103144043 T
1 T
103144044 ATTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (15 bp):
TTGTAAATGGACTTT
Found at i:103144425 original size:44 final size:42
Alignment explanation
Indices: 103144371--103144533 Score: 121
Period size: 44 Copynumber: 3.6 Consensus size: 42
103144361 AATTCAATCT
*
103144371 ACTGTAACTTCAGGAGTATAAGATTTGCAGCTTCAATCTACTCC
1 ACTGCAACTTCAGGAG-ATAAGATTTGCAG-TTCAATCTACTCC
* *
103144415 ACTGCAACTTCAAGGAGATAAGATTCGCTATAGTAGAATCAATTTGAC-CC
1 ACTGCAACTTC-AGGAGATAAGATTTGC---AGT----TCAATCT-ACTCC
* * * *
103144465 ATTGCAACTTCAGGGGTATAAGATTTGTAGTTTCAATCTGCTCC
1 ACTGCAACTTCAGGAG-ATAAGATTTGCAG-TTCAATCTACTCC
*
103144509 ACTGCAACTTTAGTGAGATAAGATT
1 ACTGCAACTTCAG-GAGATAAGATT
103144534 CACTATGGTA
Statistics
Matches: 94, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
43 1 0.01
44 47 0.50
45 7 0.07
46 1 0.01
47 4 0.04
48 1 0.01
49 4 0.04
50 27 0.29
51 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (42 bp):
ACTGCAACTTCAGGAGATAAGATTTGCAGTTCAATCTACTCC
Found at i:103144665 original size:50 final size:49
Alignment explanation
Indices: 103144402--103144665 Score: 157
Period size: 50 Copynumber: 5.5 Consensus size: 49
103144392 GATTTGCAGC
* *
103144402 TTCAATCT-ACTCCACTGCAACTTCA-AGGAGATAAGATTCGCTATAGTAGAA
1 TTCAATCTGAC-CCATTGCAACTTCAGA-GAGATAAGATTTGCTAT-GTA-AA
* *
103144453 -TCAATTTGACCCATTGCAACTTCAG-GGGTATAAGATTTG-TA-GT---
1 TTCAATCTGACCCATTGCAACTTCAGAGAG-ATAAGATTTGCTATGTAAA
* * * **
103144496 TTCAATCTG-CTCCACTGCAACTTTAGTGAGATAAGATTCACTATGGTAAA
1 TTCAATCTGAC-CCATTGCAACTTCAGAGAGATAAGATTTGCTAT-GTAAA
* * * *
103144546 TTTAATCCGACCCATTACAACTTCAGAG-GTATAAGATTTG-TA-G---C
1 TTCAATCTGACCCATTGCAACTTCAGAGAG-ATAAGATTTGCTATGTAAA
* * **
103144590 TTCAATTTG-CTCTACGGCAACTTCAGAGAGATAAGATTTGCTATGGTAAA
1 TTCAATCTGAC-CCATTGCAACTTCAGAGAGATAAGATTTGCTAT-GTAAA
*
103144640 TTCAATCCGACCCATTGCAACTTCAG
1 TTCAATCTGACCCATTGCAACTTCAG
103144666 GGGTATAGGA
Statistics
Matches: 158, Mismatches: 32, Indels: 47
0.67 0.14 0.20
Matches are distributed among these distances:
43 2 0.01
44 57 0.36
45 7 0.04
47 6 0.04
49 7 0.04
50 75 0.47
51 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (49 bp):
TTCAATCTGACCCATTGCAACTTCAGAGAGATAAGATTTGCTATGTAAA
Found at i:103144768 original size:50 final size:48
Alignment explanation
Indices: 103144601--103144833 Score: 114
Period size: 50 Copynumber: 4.9 Consensus size: 48
103144591 TCAATTTGCT
* * *
103144601 CTACGGCAACTTCAGAGAGATAAGATTTGCTATGGTAAATTCAATCCGAC
1 CTACTGCAACTTCAG-GAGATAAGA-TTGCTATGGTAGATTCAATCCAAC
* * * * * ***
103144651 CCATTGCAACTTCAGGGGTATAGGA-T--T-T-GTAGCTTCAATCTGTTC
1 CTACTGCAACTTCAGGAG-ATAAGATTGCTATGGTAGATTCAATC-CAAC
* *
103144696 C-ACTACAATTTCAGGAAGATAAGATTCGCTATGGTAGATTCAATCCAAC
1 CTACTGCAACTTCAGG-AGATAAGATT-GCTATGGTAGATTCAATCCAAC
* * *
103144745 CTACTGCAACTTCAGGGGTATAAGATT--TA---TAGGTTCAATCTGC-TC
1 CTACTGCAACTTCAGGAG-ATAAGATTGCTATGGTAGATTCAATC--CAAC
**
103144790 C-ACTATAACTTCAGTGAGATAAGATTCGCTATGGTAGATTCAAT
1 CTACTGCAACTTCAG-GAGATAAGATT-GCTATGGTAGATTCAAT
103144834 TCGACCAACT
Statistics
Matches: 135, Mismatches: 28, Indels: 40
0.67 0.14 0.20
Matches are distributed among these distances:
44 55 0.41
45 9 0.07
46 2 0.01
47 4 0.03
48 2 0.01
49 6 0.04
50 57 0.42
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (48 bp):
CTACTGCAACTTCAGGAGATAAGATTGCTATGGTAGATTCAATCCAAC
Found at i:103144866 original size:94 final size:93
Alignment explanation
Indices: 103144376--103144839 Score: 604
Period size: 94 Copynumber: 4.9 Consensus size: 93
103144366 AATCTACTGT
* * *
103144376 AACTTCAGGAGTATAAGATTTGCAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTC
* * **
103144441 GCTATAGTAGAATCAATTTGACCCATTGC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* *
103144470 AACTTCAGGGGTATAAGATTTGTAGTTTCAATCTGCTCCACTGCAACTTTAGTGAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTC
* * * *
103144535 ACTATGGTAAATTTAATCCGACCCATTAC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* * * * *
103144564 AACTTCAGAGGTATAAGATTTGTAGCTTCAATTTGCTCTACGGCAACTTCAGAGAGATAAGATTT
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTC
*
103144629 GCTATGGTAAATTCAATCCGACCCATTGC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* * * *
103144658 AACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGTTCCACTACAATTTCAGGAAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGG-AGATAAGATTC
* * *
103144723 GCTATGGTAGATTCAATCCAACCTACTGC
65 GCTATGGTAGATTCAATCCGACCCATTGC
* * **
103144752 AACTTCAGGGGTATAAGATTTATAGGTTCAATCTGCTCCACTATAACTTCAGTGAGATAAGATTC
1 AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTC
*
103144817 GCTATGGTAGATTCAATTCGACC
65 GCTATGGTAGATTCAATCCGACC
103144840 AACTAAAACT
Statistics
Matches: 322, Mismatches: 45, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
93 3 0.01
94 318 0.99
95 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (93 bp):
AACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAGATAAGATTCG
CTATGGTAGATTCAATCCGACCCATTGC
Found at i:103148414 original size:7 final size:7
Alignment explanation
Indices: 103148400--103148466 Score: 107
Period size: 7 Copynumber: 9.6 Consensus size: 7
103148390 ATATTTGAGG
103148400 ATTGAAA
1 ATTGAAA
*
103148407 ATTTAAA
1 ATTGAAA
103148414 ATTGAAA
1 ATTGAAA
103148421 ATTGAAA
1 ATTGAAA
* *
103148428 TTTGAAG
1 ATTGAAA
103148435 ATTGAAA
1 ATTGAAA
103148442 ATTGAAA
1 ATTGAAA
103148449 ATTGAAA
1 ATTGAAA
103148456 ATTGAAA
1 ATTGAAA
103148463 ATTG
1 ATTG
103148467 GGGATTGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (7 bp):
ATTGAAA
Found at i:103148506 original size:14 final size:14
Alignment explanation
Indices: 103148394--103148506 Score: 68
Period size: 14 Copynumber: 8.0 Consensus size: 14
103148384 AAAAAAATAT
* *
103148394 TTGAGGATTGAAAA
1 TTGAGAATTGAAGA
* * *
103148408 TTTAAAATTGAAAA
1 TTGAGAATTGAAGA
103148422 TTGA-AATTTGAAGA
1 TTGAGAA-TTGAAGA
* *
103148436 TTGAAAATTGAAAA
1 TTGAGAATTGAAGA
* *
103148450 TTGAAAATTGAAAA
1 TTGAGAATTGAAGA
* *
103148464 TTGGGGATTGAAGA
1 TTGAGAATTGAAGA
*
103148478 ATGAAGAA-TGAAAGA
1 TTG-AGAATTG-AAGA
*
103148493 TTGAGAATTTAAGA
1 TTGAGAATTGAAGA
103148507 AGAAAAAATG
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
13 2 0.03
14 66 0.84
15 11 0.14
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (14 bp):
TTGAGAATTGAAGA
Found at i:103149301 original size:7 final size:7
Alignment explanation
Indices: 103149289--103149317 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
103149279 TAATGAGGGT
103149289 GTTTAGG
1 GTTTAGG
103149296 GTTTAGG
1 GTTTAGG
103149303 GTTTAGG
1 GTTTAGG
103149310 GTTTAGG
1 GTTTAGG
103149317 G
1 G
103149318 ACCGTACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:103149998 original size:24 final size:23
Alignment explanation
Indices: 103149958--103150003 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
103149948 ATTTTTACAA
103149958 AATACAAAATAATTAATAATTAAT
1 AATACAAAATAATTAAT-ATTAAT
*
103149982 AATACAAATTTAA-TAATATTAA
1 AATACAAA-ATAATTAATATTAA
103150004 ATATAAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AATACAAAATAATTAATATTAAT
Found at i:103151850 original size:4 final size:4
Alignment explanation
Indices: 103151841--103151871 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
103151831 TACGAGGAGG
103151841 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
103151872 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:103154720 original size:13 final size:13
Alignment explanation
Indices: 103154699--103154749 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
103154689 AAGTAAAGAG
*
103154699 AGAAAAAGAAAAA
1 AGAAGAAGAAAAA
103154712 AGAAGAAG-AAAA
1 AGAAGAAGAAAAA
103154724 AGAAAGAAGAAAGAA
1 AG-AAGAAGAAA-AA
103154739 AGAAGAA-AAAA
1 AGAAGAAGAAAA
103154750 TTAGTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
12 7 0.21
13 16 0.47
14 7 0.21
15 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAAAA
Found at i:103155565 original size:21 final size:22
Alignment explanation
Indices: 103155517--103155566 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
103155507 ATTAGCAGAC
*
103155517 GAAAAAGAGAGAAAGAAGAAGG
1 GAAAAAGAGAGAAAGAAGAAGA
103155539 GAAAAA-AG-GAAAAGAAGAAGAA
1 GAAAAAGAGAG-AAAGAAGAAG-A
103155561 GAAAAA
1 GAAAAA
103155567 TAATGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 12 0.48
22 12 0.48
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
GAAAAAGAGAGAAAGAAGAAGA
Found at i:103160719 original size:38 final size:37
Alignment explanation
Indices: 103160675--103160796 Score: 172
Period size: 38 Copynumber: 3.2 Consensus size: 37
103160665 ATATGCTAGA
*
103160675 ATTATATTCGGGTTAAATCCCGCAGCCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAG-CTTCGTGCTGGT
* * *
103160713 AATATATCCAGGCTAAATCCCGCAAGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGC-AGCTTCGTGCTGGT
*
103160751 ATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCA-GCTTCGTGCTGGT
103160789 ATTATATC
1 ATTATATC
103160797 TAAGCTTAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 71 0.96
39 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (37 bp):
ATTATATCCGGGTTAAATCCCGCAGCTTCGTGCTGGT
Found at i:103160825 original size:40 final size:38
Alignment explanation
Indices: 103160687--103160828 Score: 169
Period size: 38 Copynumber: 3.7 Consensus size: 38
103160677 TATATTCGGG
* *
103160687 TTAAATCCCGCAGCCTTCGTGCTGGTAATATATCCAGGC
1 TTAAATCCCGCAGGCTTCGTGCTGGTATTATAT-CAGGC
* * *
103160726 -TAAATCCCGCAAGCTTCGTGCTGGTATTATATCCGGG
1 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAGGC
* *
103160763 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCTAAGC
1 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATC-AGGC
* *
103160802 TTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TTAAA-TCCCGCAGGCTTCGTGCTGGT
103160829 GACTGGATTC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.03
38 60 0.68
39 6 0.07
40 19 0.22
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (38 bp):
TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAGGC
Found at i:103162242 original size:33 final size:33
Alignment explanation
Indices: 103162205--103162372 Score: 230
Period size: 33 Copynumber: 5.1 Consensus size: 33
103162195 AGAATGTCGA
*
103162205 TGGATACGAGCCAGAAGGAGCGAAGTACGGTGG
1 TGGATACGAGCTAGAAGGAGCGAAGTACGGTGG
* *
103162238 TGGATATGAGCTAGAAGGAGCGGAGTACGGTGG
1 TGGATACGAGCTAGAAGGAGCGAAGTACGGTGG
*
103162271 TGGATACGAGCTAGAAGGAGCGAAGTATGGTGG
1 TGGATACGAGCTAGAAGGAGCGAAGTACGGTGG
* * *
103162304 TGGATACGAGCTGGAAGGAGC-AGAGTACTGTAG
1 TGGATACGAGCTAGAAGGAGCGA-AGTACGGTGG
** *
103162337 TGGATACGAGCCGGAAGGAGCGAAGTACGATGG
1 TGGATACGAGCTAGAAGGAGCGAAGTACGGTGG
103162370 TGG
1 TGG
103162373 GCTGAAGATA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
32 1 0.01
33 117 0.98
34 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.43, T:0.16
Consensus pattern (33 bp):
TGGATACGAGCTAGAAGGAGCGAAGTACGGTGG
Found at i:103165062 original size:3 final size:3
Alignment explanation
Indices: 103165054--103165078 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
103165044 CTAACCTTTT
103165054 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
103165079 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:103165353 original size:17 final size:17
Alignment explanation
Indices: 103165331--103165381 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
103165321 ATTTTTTAAA
103165331 TATTA-TAATAATATTAT
1 TATTATTAA-AATATTAT
*
103165348 TATTATTAAAAAAATT-T
1 TATTATT-AAAATATTAT
103165365 TATTATTAAAATATTAT
1 TATTATTAAAATATTAT
103165382 GTCGCGCCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 7 0.24
17 14 0.48
18 6 0.21
19 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTATTAAAATATTAT
Found at i:103165858 original size:16 final size:15
Alignment explanation
Indices: 103165834--103165944 Score: 76
Period size: 16 Copynumber: 7.7 Consensus size: 15
103165824 TCTGTTGGGA
*
103165834 TTAGGTTTTTTAGGG
1 TTAGGGTTTTTAGGG
*
103165849 TTAGGGTTTTTATGGT
1 TTAGGGTTTTTA-GGG
103165865 TTAGGGTTTTTAGGG
1 TTAGGGTTTTTAGGG
* ***
103165880 TTAGTGTTAGGATGGG
1 TTAGGGTTTTTA-GGG
*
103165896 TTAAGGTTTTTA---
1 TTAGGGTTTTTAGGG
103165908 -T--GG--TTTAGGG
1 TTAGGGTTTTTAGGG
103165918 TTAGGGTTTTTAGGG
1 TTAGGGTTTTTAGGG
103165933 TTTAGGGTTTTT
1 -TTAGGGTTTTT
103165945 GTAAGGGTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
7 4 0.05
9 2 0.03
11 2 0.03
13 2 0.03
15 28 0.38
16 35 0.48
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.50
Consensus pattern (15 bp):
TTAGGGTTTTTAGGG
Found at i:103165868 original size:22 final size:22
Alignment explanation
Indices: 103165842--103165941 Score: 98
Period size: 22 Copynumber: 4.4 Consensus size: 22
103165832 GATTAGGTTT
103165842 TTTAGGGTTAGGGTTTTTATGG
1 TTTAGGGTTAGGGTTTTTATGG
103165864 TTTAGGGTTTTTAGGGTTAGTGTTA-GG
1 TTTAGGG---TTAGGGTT--T-TTATGG
* *
103165891 -AT-GGGTTAAGGTTTTTATGG
1 TTTAGGGTTAGGGTTTTTATGG
*
103165911 TTTAGGGTTAGGGTTTTTAGGG
1 TTTAGGGTTAGGGTTTTTATGG
103165933 TTTAGGGTT
1 TTTAGGGTT
103165942 TTTGTAAGGG
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
19 3 0.05
20 3 0.05
21 1 0.02
22 39 0.61
25 11 0.17
26 1 0.02
27 3 0.05
28 3 0.05
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (22 bp):
TTTAGGGTTAGGGTTTTTATGG
Found at i:103165875 original size:31 final size:31
Alignment explanation
Indices: 103165829--103165922 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
103165819 TTTCATCTGT
* ***
103165829 TGGGATTAGGTTTTTTAGGGTTAGGGTTTTTA
1 TGGG-TTAGGGTTTTTAGGGTTAGGGTTAGGA
* *
103165861 TGGTTTAGGGTTTTTAGGGTTAGTGTTAGGA
1 TGGGTTAGGGTTTTTAGGGTTAGGGTTAGGA
* *
103165892 TGGGTTAAGGTTTTTATGGTTTAGGGTTAGG
1 TGGGTTAGGGTTTTTA-GGGTTAGGGTTAGG
103165923 GTTTTTAGGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 36 0.71
32 15 0.29
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (31 bp):
TGGGTTAGGGTTTTTAGGGTTAGGGTTAGGA
Found at i:103165987 original size:26 final size:26
Alignment explanation
Indices: 103165957--103166020 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
103165947 AAGGGTTTAG
*
103165957 TTAATTAAATTAGGGCGTAAGATTAA
1 TTAATTAAATTAGGGCGTAAAATTAA
*
103165983 TTAATTAAATTAGGGTGTAAAATTAA
1 TTAATTAAATTAGGGCGTAAAATTAA
103166009 TTAATTAAATTA
1 TTAATTAAATTA
103166021 AATATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (26 bp):
TTAATTAAATTAGGGCGTAAAATTAA
Found at i:103166345 original size:126 final size:126
Alignment explanation
Indices: 103166150--103166538 Score: 478
Period size: 126 Copynumber: 3.1 Consensus size: 126
103166140 TTTTGGTTTT
* * * * * *
103166150 TTTTTCTTCAGTAGTATCTGGAAAAAA-AATTTTAAGAAAA-GTTTCTGAAGAAATAGTATCCAA
1 TTTTTCTACAGTGGTATCT-GAAAAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAA
* * * * ** *
103166213 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCTCATGTGGACTTTT
65 AACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
103166275 TTTTTCTACAGTGGTATCT-AAGAAAATAATTTTGAGAAAACGTTTTTGAAAAAATAGTGTAAAA
1 TTTTTCTACAGTGGTATCTGAA-AAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAA
* * *
103166339 AACGCTTTAAGCAATATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
** * ** * *
103166401 TTTTGATACAGTGGTATCTGAAAAAATAATTGTGAGATGACCTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAAA
* * * *
103166466 ACACTTCATGCAGTTTGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
103166527 TTTTTCTACAGT
1 TTTTTCTACAGT
103166539 AGTTCCTATT
Statistics
Matches: 224, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
123 2 0.01
124 4 0.02
125 29 0.13
126 187 0.83
127 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTGGTATCTGAAAAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:103169686 original size:57 final size:56
Alignment explanation
Indices: 103169617--103169750 Score: 223
Period size: 57 Copynumber: 2.4 Consensus size: 56
103169607 TTCCTTATTC
* *
103169617 AAAACAACTTTTATTCTATTACAAATATAAAAGAGTAAATTATAATTAAGATACTAA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATA-TAA
*
103169674 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATAA
*
103169730 AAAACAAATTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
103169751 AATGAAAGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
56 22 0.30
57 51 0.70
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATATAA
Found at i:103169731 original size:27 final size:27
Alignment explanation
Indices: 103169634--103169732 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
103169624 CTTTTATTCT
103169634 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* ** * *
103169661 ATTA-AGATACTAAAA-AACAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
103169691 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
103169718 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
103169733 ACAAATTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
26 12 0.22
27 19 0.35
28 3 0.06
29 3 0.06
30 10 0.19
31 7 0.13
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:103170193 original size:18 final size:18
Alignment explanation
Indices: 103170170--103170204 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
103170160 AAAGGGAAAC
*
103170170 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
103170188 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
103170205 CGCACCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:103170832 original size:7 final size:7
Alignment explanation
Indices: 103170822--103170882 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
103170812 TTGTATACAT
103170822 AATACTA
1 AATACTA
103170829 AATACTA
1 AATACTA
*
103170836 AGTACTA
1 AATACTA
*
103170843 AGTACTA
1 AATACTA
103170850 AATACTA
1 AATACTA
103170857 AATACTA
1 AATACTA
* *
103170864 TATATTA
1 AATACTA
103170871 AATACTA
1 AATACTA
103170878 AATAC
1 AATAC
103170883 GAAACGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:103171917 original size:48 final size:49
Alignment explanation
Indices: 103171826--103171924 Score: 155
Period size: 48 Copynumber: 2.0 Consensus size: 49
103171816 ATAAAATTAA
**
103171826 AATTAAAATTGCATAAATGAAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
* *
103171875 AATTAAAATTGCATAAAT-TAAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
103171923 AA
1 AA
103171925 AATTATCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 28 0.61
49 18 0.39
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (49 bp):
AATTAAAATTGCATAAATGAAAAAAAATATTAAATACTATTGAAAAATT
Found at i:103172102 original size:22 final size:21
Alignment explanation
Indices: 103172081--103172136 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
103172071 AGCTTTGAGA
103172081 AAATTTGAGAGAATATGGGAG
1 AAATTTGAGAGAATATGGGAG
* * *
103172102 -AATTTGACAGAATTTTTGGA-
1 AAATTTGAGAGAA-TATGGGAG
103172122 AGAATTTGAGAGAAT
1 A-AATTTGAGAGAAT
103172137 TTGGATAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 11 0.39
21 6 0.21
22 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (21 bp):
AAATTTGAGAGAATATGGGAG
Found at i:103172137 original size:22 final size:22
Alignment explanation
Indices: 103172074--103172138 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
103172064 TAAAGAGAGC
103172074 TTTGAGAA-AATTTGAGAGAA--
1 TTTG-GAAGAATTTGAGAGAATT
* * *
103172094 TATGGGAGAATTTGACAGAATT
1 TTTGGAAGAATTTGAGAGAATT
103172116 TTTGGAAGAATTTGAGAGAATT
1 TTTGGAAGAATTTGAGAGAATT
103172138 T
1 T
103172139 GGATAGGAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
22 20 0.56
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (22 bp):
TTTGGAAGAATTTGAGAGAATT
Found at i:103186071 original size:46 final size:46
Alignment explanation
Indices: 103185937--103186197 Score: 144
Period size: 46 Copynumber: 5.5 Consensus size: 46
103185927 TTATGAGAGT
* * * *
103185937 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACG-AGAG
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGACTA-CGAGATGTA-AG
* * * **
103185984 CTAGTATAAGA-CATATCTGGGACATGCATTGACCT-TTAGATGTAAG
1 C-AGTGTAAGACCATGTCTGGGACATGCATCGA-CTACGAGATGTAAG
***
103186030 CAAGTGTAAGA-CATGTCTGGGACATGCATCGACTACGAGATGTGTT
1 C-AGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGATGTAAG
* * * * *
103186076 CA-TGTAAGACCATGTTTGGGACATGACATCGGC-AC-ATATATAGG
1 CAGTGTAAGACCATGTCTGGGACATG-CATCGACTACGAGATGTAAG
* *
103186120 TTTCAGTGTAAGACCATGTCTGGGACATGACATCG-GTACGGATATGTGAGAG
1 ---CAGTGTAAGACCATGTCTGGGACATG-CATCGACTAC-GAGATGT-A-AG
*
103186172 CTAGTGTAAAACCATGTCTGGGACAT
1 C-AGTGTAAGACCATGTCTGGGACAT
103186198 AGCGTCAGCC
Statistics
Matches: 169, Mismatches: 28, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.07
45 19 0.11
46 53 0.31
47 17 0.10
48 38 0.22
49 1 0.01
50 28 0.17
51 1 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGATGTAAG
Found at i:103186190 original size:50 final size:48
Alignment explanation
Indices: 103186032--103186197 Score: 150
Period size: 48 Copynumber: 3.5 Consensus size: 48
103186022 GATGTAAGCA
* * *
103186032 AGTGTAAGA-CATGTCTGGGACATG-CATCGACTAC-GAGAT-GTGT-TC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGC-ACATATATAG-GTCTC
* *
103186077 A-TGTAAGACCATGTTTGGGACATGACATCGGCACATATATAGGTTTC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACATATATAGGTCTC
* *
103186124 AGTGTAAGACCATGTCTGGGACATGACATCGGTACGGATATGTGAGAG-CT-
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCAC--ATATAT-AG-GTCTC
*
103186174 AGTGTAAAACCATGTCTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
103186198 AGCGTCAGCC
Statistics
Matches: 102, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
44 7 0.07
45 17 0.17
46 11 0.11
47 4 0.04
48 31 0.30
50 28 0.27
51 3 0.03
52 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCACATATATAGGTCTC
Found at i:103195873 original size:37 final size:37
Alignment explanation
Indices: 103195770--103195895 Score: 112
Period size: 37 Copynumber: 3.4 Consensus size: 37
103195760 TATTCAATGG
* *
103195770 ATAATACTCGGTTGAGC-TTACTCGACATATCAGTAA
1 ATAACACTCGGTTGAGCTTTACTCGATATATCAGTAA
* * * * *
103195806 ATAACTCTCAGTTGAGCTTTATTC-AGTATATTAGTAG
1 ATAACACTCGGTTGAGCTTTACTCGA-TATATCAGTAA
* * **
103195843 ATATCACTCGGTTGAGCTTTAGTCGATATATCAACAA
1 ATAACACTCGGTTGAGCTTTACTCGATATATCAGTAA
* *
103195880 GTAACACTCAGTTGAG
1 ATAACACTCGGTTGAG
103195896 TAACATTCAG
Statistics
Matches: 69, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
36 15 0.22
37 53 0.77
38 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (37 bp):
ATAACACTCGGTTGAGCTTTACTCGATATATCAGTAA
Found at i:103199781 original size:34 final size:34
Alignment explanation
Indices: 103199729--103199796 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
103199719 GCATTTTTGA
* *
103199729 CACTATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
*
103199762 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTAAGGCCCAAGACTGT
103199797 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:103202536 original size:12 final size:12
Alignment explanation
Indices: 103202508--103202544 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
103202498 TTTTTTTAAT
103202508 TTTTATTATCATTA
1 TTTTATTAT--TTA
103202522 TTTTATTATTTA
1 TTTTATTATTTA
103202534 TTTTATTATTT
1 TTTTATTATTT
103202545 CCTGCACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.61
14 9 0.39
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:103206935 original size:19 final size:19
Alignment explanation
Indices: 103206900--103206996 Score: 135
Period size: 19 Copynumber: 5.1 Consensus size: 19
103206890 AGATTACAAG
103206900 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
103206921 ATCATATATAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103206940 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
* *
103206957 ACCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103206976 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103206995 AT
1 AT
103206997 TCTTAAAGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.22
19 45 0.66
20 1 0.01
21 7 0.10
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:103206969 original size:36 final size:37
Alignment explanation
Indices: 103206900--103206991 Score: 132
Period size: 36 Copynumber: 2.4 Consensus size: 37
103206890 AGATTACAAG
*
103206900 ATCATATCTTCAAGATTGCATATCATATATAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATACCATATATAAGATTGCAT
*
103206940 ATCATATCTAAGATTG-TACCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGATACCATATATAAGATTGCAT
103206976 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
103206992 CATATTCTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 34 0.68
38 7 0.14
39 1 0.02
40 8 0.16
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATACCATATATAAGATTGCAT
Found at i:103207006 original size:36 final size:35
Alignment explanation
Indices: 103206900--103207007 Score: 121
Period size: 36 Copynumber: 2.9 Consensus size: 35
103206890 AGATTACAAG
103206900 ATCATATCTTCAAGATTGCATATCATATATAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATC-T-TA-AAGATTGCAT
103206940 ATCATATCTAAGATTGTACCATAT-TT-AAGATTGCAT
1 ATCATATCTAAGATTG---CATATCTTAAAGATTGCAT
103206976 ATCATATCTAAGATTGCATATTCTTAAAGATT
1 ATCATATCTAAGATTGCATA-TCTTAAAGATT
103207008 ATATTTCCAT
Statistics
Matches: 62, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
33 4 0.06
34 1 0.02
35 2 0.03
36 32 0.52
38 8 0.13
39 2 0.03
40 8 0.13
41 5 0.08
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (35 bp):
ATCATATCTAAGATTGCATATCTTAAAGATTGCAT
Found at i:103216449 original size:43 final size:43
Alignment explanation
Indices: 103216401--103216559 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
103216391 AGGTCATACA
*
103216401 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
*** ***
103216444 ATGCCATTATCCCAGATAG-GGTCTTACACAAAATCAAATA-CG
1 ATGCCAACGTCCCAGAT-GTGGTCTTACATGTAATCAAATATCG
** * *
103216486 ATGCCAACGTCTTAGATGTGGTTTTACATGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCA-AATATCG
* *
103216530 ATGCCAATGTCCCAGATGTGGGCTTACATG
1 ATGCCAACGTCCCAGATGTGGTCTTACATG
103216560 ATCACACATA
Statistics
Matches: 89, Mismatches: 22, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.01
42 22 0.25
43 36 0.40
44 30 0.34
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
Found at i:103216556 original size:86 final size:85
Alignment explanation
Indices: 103216396--103216557 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
103216386 CGAAAAGGTC
*
103216396 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTATCCCAGAT
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAGAT
*
103216461 AGGGTCTTACACAAAATCAA
66 AGGGGCTTACACAAAATCAA
* ** * * * *
103216481 ATACGATGCCAACGTCTTAGATGTGGTTTTACATGTAAATCATAA-GTCGATGCCAATGTCCCAG
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCGATGCCAATATCCCAG
103216545 AT-GTGGGCTTACA
64 ATAG-GGGCTTACA
103216558 TGATCACACA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 32 0.49
86 31 0.48
87 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAGAT
AGGGGCTTACACAAAATCAA
Found at i:103221562 original size:19 final size:18
Alignment explanation
Indices: 103221534--103221583 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
103221524 GGATTTTTTT
103221534 AATATTAATATAATTA-A
1 AATATTAATATAATTATA
*
103221551 AATTATTTAATATTATTATA
1 AA-TA-TTAATATAATTATA
103221571 AATATTAATATAA
1 AATATTAATATAA
103221584 AATTTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 13 0.46
20 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTAATATAATTATA
Found at i:103221983 original size:26 final size:26
Alignment explanation
Indices: 103221954--103222003 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
103221944 ATATATTTAT
*
103221954 TAAAATAATTGTAATATTTTAATTAC
1 TAAAATAATTATAATATTTTAATTAC
* *
103221980 TAAAATAGTTATCATATTTTAATT
1 TAAAATAATTATAATATTTTAATT
103222004 GTATTCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
TAAAATAATTATAATATTTTAATTAC
Found at i:103230519 original size:5 final size:6
Alignment explanation
Indices: 103230504--103230551 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
103230494 TGCGTACTTC
* * *
103230504 AAAAAT AAAAAT AAAAAT AAAAAGT ATTAAAT TAAATT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAA-T A-AAAAT AAAAAT AAAAAT AAAA
103230552 CAACTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 28 0.82
7 3 0.09
8 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:103243946 original size:19 final size:19
Alignment explanation
Indices: 103243922--103243962 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
103243912 GATGCCTCCT
*
103243922 TTACATT-CATGCATTTGCA
1 TTACATTACAT-CATATGCA
103243941 TTACATTACATCATATGCA
1 TTACATTACATCATATGCA
103243960 TTA
1 TTA
103243963 AAGGTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACATTACATCATATGCA
Found at i:103249260 original size:93 final size:93
Alignment explanation
Indices: 103249152--103249322 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
103249142 GCCCCTAAGT
* * *
103249152 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
103249217 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
103249245 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
103249310 CGAGTTCGGATGC
66 CGAGTTCGGATGC
103249323 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:103249319 original size:46 final size:46
Alignment explanation
Indices: 103249147--103249319 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
103249137 AACCCGCCCC
* * * *
103249147 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
103249193 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
103249241 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
103249286 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
103249320 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:103255344 original size:45 final size:44
Alignment explanation
Indices: 103255282--103255536 Score: 183
Period size: 45 Copynumber: 5.7 Consensus size: 44
103255272 AAGTACCAAG
* *
103255282 TCTTATCTCCTTGAAGTTGTAGTGGAACAGACTGAAGATAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGATAATAGA
* * *
103255327 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAGATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAATAGA
* * * * * * *
103255372 CCTTATCTCTCTGAAGTTACGGTAGAGCAGGTTGAAG-TACCA-AG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAACA-GATGAAGATA--ATAGA
* * * *
103255416 TCTTATCTACTTAAAGTTGCAGTGGAACAGACTGAAGATAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGATAATAGA
** * ** *
103255461 TCTTATCTCCCTGAAGTTATAGTGGAATAGATCGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAATAGA
* ** * *
103255506 CCTTATCTCTTTGAAGTAGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA
103255537 CTAAAATAGC
Statistics
Matches: 160, Mismatches: 41, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.01
44 31 0.19
45 125 0.78
46 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATGAAGATAATAGA
Found at i:103255474 original size:134 final size:134
Alignment explanation
Indices: 103255234--103255535 Score: 471
Period size: 134 Copynumber: 2.3 Consensus size: 134
103255224 GTCATCATAG
** * * *
103255234 CAAACCTTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGAAGTACCAAGTCTTATCTCCTTGAAGT
1 CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTACTTAAAGT
* *
103255299 TGTAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAAG
66 TGCAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAG
103255364 ATAA
131 ATAA
*
103255368 CAAACCTTATCTCTCTGAAGTTACGGTAGAGCAGGTTGAAGTACCAAGTCTTATCTACTTAAAGT
1 CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTACTTAAAGT
* *
103255433 TGCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTATAGTGGAATAGATCGAAG
66 TGCAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAG
*
103255498 ATAG
131 ATAA
* *
103255502 CAAACCTTATCTCTTTGAAG-TAGCAGTGGAGCAG
1 CAAACCTTATCTCTCTGAAGTTA-CAGTAGAGCAG
103255536 ACTAAAATAG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 2 0.01
134 151 0.99
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (134 bp):
CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGGTTGAAGTACCAAGTCTTATCTACTTAAAGT
TGCAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAG
ATAA
Found at i:103255572 original size:134 final size:134
Alignment explanation
Indices: 103255234--103255575 Score: 384
Period size: 134 Copynumber: 2.6 Consensus size: 134
103255224 GTCATCATAG
** * ** * * *
103255234 CAAACCTTATCTCTCTGAAGTTGTAGTAGAGTAGGTTGAAGTACCAAGTCTTATCTC-CTTGAAG
1 CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGACTAAAATACCAAGTCTTATC-CACCTGAAG
* *
103255298 TTGTAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCGAA
65 TTGCAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAA
103255363 GATAA
130 GATAA
* ** * * * * *
103255368 CAAACCTTATCTCTCTGAAGTTACGGTAGAGCAGGTTGAAGTACCAAGTCTTATCTACTTAAAGT
1 CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGACTAAAATACCAAGTCTTATCCACCTGAAGT
* *
103255433 TGCAGTGGAACAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTATAGTGGAATAGATCGAAG
66 TGCAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAG
*
103255498 ATAG
131 ATAA
* * * * * *
103255502 CAAACCTTATCTCTTTGAAG-TAGCAGTGGAGCAGACTAAAATAGC-AGATTTTGTCCCCCTGAA
1 CAAACCTTATCTCTCTGAAGTTA-CAGTAGAGCAGACTAAAATACCAAG-TCTTATCCACCTGAA
*
103255565 GTCGCAGTGGA
64 GTTGCAGTGGA
103255576 GCCGATCGGA
Statistics
Matches: 179, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
133 4 0.02
134 175 0.98
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (134 bp):
CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGACTAAAATACCAAGTCTTATCCACCTGAAGT
TGCAGTGGAACAGACTGAAGATAATAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAG
ATAA
Found at i:103258863 original size:64 final size:64
Alignment explanation
Indices: 103258749--103258868 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
103258739 TTCATAACAT
*
103258749 ATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAC
1 ATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCATCAC
* * * *
103258813 ATCTAGTTAGGAGCATTT-AGTTCATTTTGATCATAGCATCCTAGTCATTTGGCATA
1 ATCTAGTTAGAAGCATTTGA-TTCATTTCGATCATAGCATCCTAATCATTTGACATA
103258869 GACATAGGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
63 1 0.02
64 49 0.98
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (64 bp):
ATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCATCAC
Found at i:103259260 original size:176 final size:173
Alignment explanation
Indices: 103258937--103259545 Score: 592
Period size: 176 Copynumber: 3.5 Consensus size: 173
103258927 ATAGATCTTA
* * *
103258937 TCCCTAAACAGTAGTGGAGCAGATAAAAGAAGGAAGCCTTAGCCCCCTAAGTAGTAGGGTAACAG
1 TCCCTAAACAGTAGTGGAGCAGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAG
* * * * **
103259002 GCTGAAGATCGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCTTA
66 GCTGAAGATTGCA-ATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGAAGGTGAGCCTTA
* **
103259067 ACCCCCTAAGTAGTAGGGTAACAGGCTAAAGATTGTAAATATTGTC
130 ACCCCCTAAGCAGTAGGGTAACAGGC-AAA-ATTACAAATATTGTC
* *
103259113 TCCCTAAATAGTAGTGGAGCAAATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 TCCCTAAACAGTAGTGGAGCAGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAG
* *
103259178 GCTGAAGATTGCGAATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGATGGTGAGCCTTG
66 GCTGAAGATTGC-AATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGAAGGTGAGCCTTA
* * * *
103259243 ACCCTCTAAGCAGTAGGGTAACAGGCCAAATTACAGATCTTGTC
130 ACCCCCTAAGCAGTAGGGTAACAGGCAAAATTACAAATATTGTC
* * * ** * * * *
103259287 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTGAGCAGTAGGATAATA
1 TCCCTAAACAGTAGTGGAGCAGATCAAAGA-AGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACA
* * * * * *
103259352 GGCTG-A-ATTACAAATCTTATCTCCCT-AAG-CAGTAGTGGAGCAGATCAAAGACGGTGAGCCT
65 GGCTGAAGATTGC-AATCTTGTCTCCCTGAAGTTA-CAGTGGAACAGATCAAAGAAGGTGAGCCT
* * * *
103259413 TAACCCCCTAAGCAGTAAGGT-A-A--C--AATTACAGATCTTATC
128 TAACCCCCTAAGCAGTAGGGTAACAGGCAAAATTACAAATATTGTC
* * * ** * * *
103259453 TCCC-AAAGTAGTAGTGGAGCAGATCGAAGGCAGTGAGCCTTAACCCCCTAAGCAATAGGGCAAC
1 TCCCTAAA-CAGTAGTGGAGCAGATC-AAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAAC
* * * *
103259517 AGGTTGAAAATTACAGATCGTGTCTCCCT
64 AGGCTGAAGATTGCA-ATCTTGTCTCCCT
103259546 AAGCAGTAGT
Statistics
Matches: 369, Mismatches: 56, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
165 2 0.01
166 67 0.18
167 4 0.01
168 17 0.05
170 1 0.00
171 2 0.01
172 47 0.13
173 17 0.05
174 38 0.10
175 34 0.09
176 139 0.38
177 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (173 bp):
TCCCTAAACAGTAGTGGAGCAGATCAAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAG
GCTGAAGATTGCAATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGAAGGTGAGCCTTAA
CCCCCTAAGCAGTAGGGTAACAGGCAAAATTACAAATATTGTC
Found at i:103259341 original size:86 final size:86
Alignment explanation
Indices: 103258921--103259562 Score: 552
Period size: 86 Copynumber: 7.5 Consensus size: 86
103258911 GACATCGGTG
* * * * * * *
103258921 AAAATTATAGATC-T-TATCCCTAAACAGTAGTGGAGCAGATAAAAGAAGG-AAGCCTTAGCCCC
1 AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCC
*
103258983 CTAAGTAGTAGGGTAACAGGC
66 CTAAGCAGTAGGGTAACAGGC
* ** ** * ** ** **
103259004 TGAAGATCGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCTTAAC
1 --AAAATTACAGATCTTGTCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAAC
*
103259069 CCCCTAAGTAGTAGGGTAACAGGC
63 CCCCTAAGCAGTAGGGTAACAGGC
** * * ** * * **
103259093 TAAAGATTGTAAATATTGTCTCCCTAAATAGTAGTGGAGCAAATCAAAGA-AGCAAGCCTTAACC
1 -AAA-ATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACC
*
103259157 CCCTAAGTAGTAGGGTAACAGGC
64 CCCTAAGCAGTAGGGTAACAGGC
* * * * * * *
103259180 TGAAGATTGC-GAATCTTGTCTCCCTGAAGTTA-CAGTGGAACAGATCAAAGATGGTGAGCCTTG
1 --AAAATTACAG-ATCTTGTCTCCCT-AAG-CAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTA
*
103259243 ACCCTCTAAGCAGTAGGGTAACAGGC
61 ACCCCCTAAGCAGTAGGGTAACAGGC
* *
103259269 CAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCC
1 AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCC
* * *
103259334 CTGAGCAGTAGGATAATAGGC
66 CTAAGCAGTAGGGTAACAGGC
** * *
103259355 TGAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCC
1 AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCC
*
103259420 CTAAGCAGTAAGGT-A-A--C
66 CTAAGCAGTAGGGTAACAGGC
* * * * * *
103259437 --AATTACAGATCTTATCTCCCAAAGTAGTAGTGGAGCAGATCGAAGGCAGTGAGCCTTAACCCC
1 AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCC
* * *
103259500 CTAAGCAATAGGGCAACAGGTTG
66 CTAAGCAGTAGGGTAACAGG--C
*
103259523 AAAATTACAGATCGTGTCTCCCTAAGCAGTAGTGGAGCAG
1 AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
103259563 GTCGAAACTA
Statistics
Matches: 461, Mismatches: 76, Indels: 37
0.80 0.13 0.06
Matches are distributed among these distances:
80 68 0.15
81 1 0.00
82 2 0.00
84 1 0.00
85 11 0.02
86 123 0.27
87 77 0.17
88 96 0.21
89 82 0.18
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (86 bp):
AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCC
CTAAGCAGTAGGGTAACAGGC
Found at i:103259425 original size:44 final size:44
Alignment explanation
Indices: 103259288--103259429 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 44
103259278 GATCTTGTCT
*
103259288 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACC
* * ** * * ** * ** * *
103259332 CCCTGAGCAGTAG-GATAATAGGCTGAATTAC---AAATCTTATCT
1 CCCTAAGCAGTAGTG-GAGCA-GATCAAAGACGGTGAGCCTTAACC
103259374 CCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACC
103259418 CCCTAAGCAGTA
1 CCCTAAGCAGTA
103259430 AGGTAACAAT
Statistics
Matches: 65, Mismatches: 27, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
41 6 0.09
42 20 0.31
43 2 0.03
44 32 0.49
45 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACC
Found at i:103259728 original size:68 final size:68
Alignment explanation
Indices: 103259619--103259752 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 68
103259609 CAAGGCTACA
*
103259619 AATCTCTTCTCCCTAAAATGGGGTTGGAGCGGTTCGAAGCCACAGCGGATCTCCTTGAAGTTTCA
1 AATCTCTTCTCCCTAAAATGGGGTTGGAGCGGTTCGAAGCCACAGCAGATCTCCTTGAAGTTTCA
103259684 GCG
66 GCG
* * * * *
103259687 AATCTCTTCTTCCTGAAATGGTGTTTGAGCGGCTT-GAAGCCACATCAGATCTCCTTGAAGTTTC
1 AATCTCTTCTCCCTAAAATGGGGTTGGAGCGG-TTCGAAGCCACAGCAGATCTCCTTGAAGTTTC
103259751 AG
65 AG
103259753 TAGAGTAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 57 0.97
69 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (68 bp):
AATCTCTTCTCCCTAAAATGGGGTTGGAGCGGTTCGAAGCCACAGCAGATCTCCTTGAAGTTTCA
GCG
Found at i:103259925 original size:44 final size:44
Alignment explanation
Indices: 103259742--103260063 Score: 258
Period size: 44 Copynumber: 7.3 Consensus size: 44
103259732 CAGATCTCCT
* * * * * *
103259742 TGAAGTTTCAGTAGAGTAGATCGAAGTTACAAGCCTTATCTCTA
1 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTCTC
* * * * *
103259786 TAAAATCGCAGTGGAGCAGATCGAAGCCATAATCCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTCTC
* * * ** * * *
103259830 TAAAGTTGCAATAGAGCAGGATAAAAATTAGCAGAT-CTTATCTCCC
1 TGAAGTTGCAGTGGAGCA-GATCGAAGTCA-CA-ATCCTTATCTCTC
*
103259876 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTTTC
1 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTCTC
* * * * * * *
103259920 TGAAGTTACAGTAGAGCGGGTTGAAGTAACAAGT-CTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAA-TCCTTATCTCTC
* * * * *
103259964 TGAAGCTGCAATGGACCAGA-CTGAAGTTAGCAGAT-CTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATC-GAAGTCA-CA-ATCCTTATCTCTC
103260009 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTA-CTCTC
1 TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTCTC
103260052 TGAAGTTGCAGT
1 TGAAGTTGCAGT
103260064 AAAGCAGGAT
Statistics
Matches: 215, Mismatches: 53, Indels: 21
0.74 0.18 0.07
Matches are distributed among these distances:
43 20 0.09
44 116 0.54
45 50 0.23
46 27 0.13
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTCTC
Found at i:103268474 original size:20 final size:21
Alignment explanation
Indices: 103268428--103268474 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
103268418 GTATTAATCT
*
103268428 AAAAAAATCATAAAATTTTAG
1 AAAAAAATCATAAAATTTGAG
** *
103268449 GCAAAAAT-GTAAAATTTGAG
1 AAAAAAATCATAAAATTTGAG
103268469 AAAAAA
1 AAAAAA
103268475 GGGTCACACG
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAAAAATCATAAAATTTGAG
Found at i:103271766 original size:25 final size:24
Alignment explanation
Indices: 103271738--103271894 Score: 72
Period size: 24 Copynumber: 6.5 Consensus size: 24
103271728 CGAGCTAAAA
*
103271738 AACGGGAAGCT-TATGTGAGCCATGT
1 AACGGGAAGCTCTA-GAGAGCCAT-T
*
103271763 AACGGAAAGCTCTAGAGAGCCATT
1 AACGGGAAGCTCTAGAGAGCCATT
* * *
103271787 AACCGGAAGCTCATA-CGAGCCAAT
1 AACGGGAAGCTC-TAGAGAGCCATT
* * * * * *
103271811 ATCGAGAAGTTCAAGCGAG-CAAT
1 AACGGGAAGCTCTAGAGAGCCATT
* * *
103271834 ATCGAGAAGCTCTGGAGAG-CATT
1 AACGGGAAGCTCTAGAGAGCCATT
* *
103271857 AATTGGGAAGCTCATA-AGAGCCTTT
1 AA-CGGGAAGCTC-TAGAGAGCCATT
*
103271882 AAACAGGAAGCTC
1 -AACGGGAAGCTC
103271895 CGAGGAGCCA
Statistics
Matches: 102, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
23 24 0.24
24 42 0.41
25 32 0.31
26 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
AACGGGAAGCTCTAGAGAGCCATT
Found at i:103271819 original size:24 final size:23
Alignment explanation
Indices: 103271792--103271845 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
103271782 CCATTAACCG
103271792 GAAGCTCATA-CGAGCCAATATCGA
1 GAAGCTCA-AGCGAG-CAATATCGA
*
103271816 GAAGTTCAAGCGAGCAATATCGA
1 GAAGCTCAAGCGAGCAATATCGA
103271839 GAAGCTC
1 GAAGCTC
103271846 TGGAGAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
GAAGCTCAAGCGAGCAATATCGA
Found at i:103271853 original size:23 final size:23
Alignment explanation
Indices: 103271807--103271854 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
103271797 TCATACGAGC
* *
103271807 CAATATCGAGAAGTTCAAGCGAG
1 CAATATCGAGAAGCTCAAGAGAG
**
103271830 CAATATCGAGAAGCTCTGGAGAG
1 CAATATCGAGAAGCTCAAGAGAG
103271853 CA
1 CA
103271855 TTAATTGGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.17
Consensus pattern (23 bp):
CAATATCGAGAAGCTCAAGAGAG
Found at i:103271999 original size:24 final size:24
Alignment explanation
Indices: 103271972--103272038 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
103271962 CTATCGGGAT
103271972 GCTCCGAAGAGCTAATAACAGGAA
1 GCTCCGAAGAGCTAATAACAGGAA
* *
103271996 GCT-CGCAAGAACCATATAACAGGAA
1 GCTCCG-AAGAGCTA-ATAACAGGAA
*
103272021 GCTCATG-AGAGCTAATAA
1 GCTC-CGAAGAGCTAATAA
103272039 TGGGATGCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
23 2 0.06
24 13 0.38
25 18 0.53
27 1 0.03
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (24 bp):
GCTCCGAAGAGCTAATAACAGGAA
Found at i:103273357 original size:64 final size:64
Alignment explanation
Indices: 103273256--103273379 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
103273246 ACTTTCGTAA
*
103273256 CACATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
* * * * *
103273320 CACATCTAGTTAGGAGCATTT-AGTTCATTTTGGTCATAGCATCCTAGTCATTTGGCATAA
1 CACATCTAGTTAGAAGCATTTGA-TTCATTTCGATCATAGCATCCTAATCATTTGACATAA
103273380 ACATAGACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 1 0.02
64 52 0.98
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
Found at i:103273831 original size:86 final size:86
Alignment explanation
Indices: 103273447--103274071 Score: 552
Period size: 86 Copynumber: 7.3 Consensus size: 86
103273437 ATAGATCTTA
** * * * * *
103273447 TCCCTAAACAGTAGTGGAGCAGATAAAAGAAGG-AAGCCTTAGCCCCCTAAGTAGTAGGGTAACA
1 TCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
* **
103273511 GGCTGAAGATCGCAGATCTTGTC
66 GGC-CAA-ATTACAGATCTTGTC
* * ** ** ** *
103273534 TCCCTGAAGTTGCAGTGGAAAAGATCAAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAAC
1 TCCCT-AAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAAC
* ** *
103273599 AGGCTAAAGATTGTAAATCTTGTC
65 AGGC-CAA-ATTACAGATCTTGTC
* * * ** *
103273623 TCCCTAAATAGTAGTGGAGCAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACA
1 TCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
* *
103273687 GGCTGAAGATTGC-GAATCTTGTC
66 GGC-CAA-ATTACAG-ATCTTGTC
* * * * *
103273710 T-CCTGAAGTTA-CAGTGGAACAGATCAAAGATGGTGAGCCTTGACCCTCTAAGCAGTAGGGTAA
1 TCCCT-AAG-TAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAA
103273773 CAGGCCAAATTACAGATCTTGTC
64 CAGGCCAAATTACAGATCTTGTC
* * * * *
103273796 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTGAGCAGTAGGATAATA
1 TCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
* * *
103273861 GGCCGAATTACAAATCTTATC
66 GGCCAAATTACAGATCTTGTC
* *
103273882 TCCCTAAGAAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGT-A-A
1 TCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
*
103273945 ---C-AATTACAGATCTTATC
66 GGCCAAATTACAGATCTTGTC
* * * * * *
103273962 TCCCAAAGTAGTAGTGGAGCAGATCGAAGGCAGTGAGCCTTAACCCCCTAAGCAATAGGGCAACA
1 TCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
** *
103274027 GGTTGAAAATTACAGATCGTGTC
66 GG--CCAAATTACAGATCTTGTC
*
103274050 TCCCTAAGCAGTAGTGGAGCAG
1 TCCCTAAGTAGTAGTGGAGCAG
103274072 GTCGAAACTA
Statistics
Matches: 455, Mismatches: 66, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
80 68 0.15
81 2 0.00
82 1 0.00
84 1 0.00
85 2 0.00
86 138 0.30
87 83 0.18
88 106 0.23
89 54 0.12
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (86 bp):
TCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
GGCCAAATTACAGATCTTGTC
Found at i:103274000 original size:166 final size:171
Alignment explanation
Indices: 103273432--103274071 Score: 462
Period size: 176 Copynumber: 3.7 Consensus size: 171
103273422 ACATCGGTAA
* * ** *
103273432 AAATTATAGATCTTATC-CCTAAA-CAGTAGTGGAGCAGATAAAAGA-AG-GAAGCCTTAGCCCC
1 AAATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGACAGTG-AGCCTTAACCCC
* * ** * ** * * * ** * **
103273493 CTAAGTAGTAGGGTAACAGGCTGAAGATCGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAAAAGA
65 CTAAGCAATAGGACAACAGGCCGAA-ATTACAAATCGTATCTCCCT-AAGAAGTAGTGGAGCAGA
** ** * *
103273558 TCAAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC
128 TCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACA-GC
** * * * * * **
103273603 TAAAGATTGTAAATCTTGTCTCCCTAAA-TAGTAGTGGAGCAAATCAAAGA-AGCAAGCCTTAAC
1 --AA-ATTACAGATCTTATCTCCC-AAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
* * ** * * * * *
103273666 CCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCGAATCTTGTCT-CCT--GAAGTTACAGTGGA
62 CCCCTAAGCAATAGGACAACAGGCCGAA-ATTACAAATCGTATCTCCCTAAGAAG-T--AGTGGA
* * * * *
103273728 ACAGATCAAAGATGGTGAGCCTTGACCCTCTAAGCAGTAGGGTAACAGGCC
123 GCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACA-G-C
* * *
103273779 AAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
1 AAATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCC
* * * * *
103273844 TGAGCAGTAGGATAATAGGCCG-AATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCA
66 TAAGCAATAGGACAACAGGCCGAAATTACAAATCGTATCTCCCTAAGAAGTAGTGGAGCAGATCA
103273908 AAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGT-A-A-C
131 AAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGC
* *
103273946 -AATTACAGATCTTATCTCCCAAAGTAGTAGTGGAGCAGATCGAAGGCAGTGAGCCTTAACCCCC
1 AAATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCC
* ** * * *
103274010 TAAGCAATAGGGCAACAGGTTGAAAATTACAGATCGTGTCTCCCTAAGCAGTAGTGGAGCAG
66 TAAGCAATAGGACAACAGGCCG-AAATTACAAATCGTATCTCCCTAAGAAGTAGTGGAGCAG
103274072 GTCGAAACTA
Statistics
Matches: 390, Mismatches: 62, Indels: 35
0.80 0.13 0.07
Matches are distributed among these distances:
166 74 0.19
167 1 0.00
168 34 0.09
170 1 0.00
171 1 0.00
172 61 0.16
173 41 0.11
174 46 0.12
175 56 0.14
176 75 0.19
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (171 bp):
AAATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCC
TAAGCAATAGGACAACAGGCCGAAATTACAAATCGTATCTCCCTAAGAAGTAGTGGAGCAGATCA
AAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGC
Done.