Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 16 of 173
Found at i:4154506 original size:3 final size:3
Alignment explanation
Indices: 4154500--4154529 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4154490 GATGATGATG
4154500 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4154530 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4154882 original size:13 final size:13
Alignment explanation
Indices: 4154864--4154890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4154854 TAAAAATATT
4154864 TAAAATATTAATA
1 TAAAATATTAATA
4154877 TAAAATATTAATA
1 TAAAATATTAATA
4154890 T
1 T
4154891 TTTTAATATT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAAATATTAATA
Found at i:4159820 original size:6 final size:6
Alignment explanation
Indices: 4159809--4159834 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4159799 GAATGATAAA
4159809 ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT AT
4159835 TTTGACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:4165568 original size:13 final size:13
Alignment explanation
Indices: 4165550--4165577 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4165540 CACATTATCC
4165550 TTCTATTTATGGG
1 TTCTATTTATGGG
4165563 TTCTATTTATGGG
1 TTCTATTTATGGG
4165576 TT
1 TT
4165578 AAGACTAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.57
Consensus pattern (13 bp):
TTCTATTTATGGG
Found at i:4165683 original size:13 final size:13
Alignment explanation
Indices: 4165665--4165730 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
4165655 AGTTTGGCAA
4165665 TACTTTTGAAAAG
1 TACTTTTGAAAAG
4165678 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* * *
4165691 TGCTGTGGAAAAG
1 TACTTTTGAAAAG
* *
4165704 TAATTTTGAGAAG
1 TACTTTTGAAAAG
*
4165717 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
4165730 T
1 T
4165731 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:4165971 original size:24 final size:23
Alignment explanation
Indices: 4165922--4165971 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
4165912 TTAATATATG
* * *
4165922 AAATATAAATTTTAAATATTTTT
1 AAATATAAATATTAAATATCTAT
*
4165945 AAATAATAAATATTAATTATCTAT
1 AAAT-ATAAATATTAAATATCTAT
4165969 AAA
1 AAA
4165972 ATTTAACTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATAAATATTAAATATCTAT
Found at i:4166367 original size:20 final size:20
Alignment explanation
Indices: 4166342--4166380 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4166332 CAGGCCCTAA
*
4166342 CAAGAGGGTGAGGTGAATAG
1 CAAGAGGGTGAAGTGAATAG
4166362 CAAGAGGGTGAAGTGAATA
1 CAAGAGGGTGAAGTGAATA
4166381 AATTTAGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.41, T:0.15
Consensus pattern (20 bp):
CAAGAGGGTGAAGTGAATAG
Found at i:4167889 original size:155 final size:154
Alignment explanation
Indices: 4167412--4168080 Score: 957
Period size: 154 Copynumber: 4.4 Consensus size: 154
4167402 AACATGTTCG
* * * * * *
4167412 TATTTTGGCCCGTTGTTCTTA-TTTTTTCCTTGAATTTTATTACTTT-A-AAAAATATACTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCC-CGGATTTTATTACTTTAATAAAAATATA-TTTTT
* *
4167474 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
64 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
4167539 TTTAAATAAATTTTAAAAAAAAACCCT
129 TTTAAATAAA-TTTAAAAAAAAACCCT
*
4167566 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCGGATTTTATTACTTTTAATAAAAATATATTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCCGGATTTTATTAC-TTTAATAAAAATATATTTTT
4167631 TCATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
64 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
*
4167696 TTTTAAATAAATTT--AAAAAAATCCT
128 TTTTAAATAAATTTAAAAAAAAACCCT
*
4167721 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTGTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AATAAAAATATATT-TTT
*
4167786 TCGT-ATTTTATTATTTTACATTCTTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
64 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
* *
4167850 TTTTAAATAAAATT-AAAAAAAACTCT
128 TTTTAAATAAATTTAAAAAAAAACCCT
* **
4167876 TATTTCGGCCCTTTGTTTGTATTTTTCCCCCGGATTTTATTAC-TT-A-AAAAATACTA--TTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAATAAAAATA-TATTTTTT
* * * * *
4167936 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTCGAAATGTATTCATTTAGTTTATTTT
65 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
4168001 TTAAATAAATTTAAAAAAAAACCCT
130 TTAAATAAATTTAAAAAAAAACCCT
4168026 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AATAAAAA
4168081 ACACACTAAA
Statistics
Matches: 467, Mismatches: 32, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
148 1 0.00
149 72 0.15
150 51 0.11
151 9 0.02
152 3 0.01
153 4 0.01
154 125 0.27
155 108 0.23
156 5 0.01
157 9 0.02
158 80 0.17
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.51
Consensus pattern (154 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAATAAAAATATATTTTTTC
TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTT
TAAATAAATTTAAAAAAAAACCCT
Found at i:4173096 original size:30 final size:31
Alignment explanation
Indices: 4173037--4173104 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
4173027 GGAAAAAAAA
* *
4173037 AGTTCAAGCCCTAATGTAGGAATAATTGTCT
1 AGTTCAAGCCCTAATGTAGGAACAATTGTCG
*
4173068 AGTTCATGCCCTAATGT-GGAACAATTGTCG
1 AGTTCAAGCCCTAATGTAGGAACAATTGTCG
4173098 AGTTCAA
1 AGTTCAA
4173105 AGACTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (31 bp):
AGTTCAAGCCCTAATGTAGGAACAATTGTCG
Found at i:4173110 original size:88 final size:90
Alignment explanation
Indices: 4172989--4173184 Score: 254
Period size: 89 Copynumber: 2.2 Consensus size: 90
4172979 TGTTTAAACT
* * * * * *
4172989 CTAATATGATAACAAATGTCAAGTTCAAGGACTAACTTGGA-AAAAAAAAGTTCAAGCCCTAATG
1 CTAATGTGAGAACAATTGTCAAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
* * * *
4173053 TAGGAA-TAATTGTCTAGTTCATGCC
66 T-GAAAGCAATTGTCTAATTCAGGCC
*
4173078 CTAATGTG-GAACAATTGTCGAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
1 CTAATGTGAGAACAATTGTCAAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
*
4173142 TGAAAGCAATTGTCTAATTCGGGCC
66 TGAAAGCAATTGTCTAATTCAGGCC
4173167 CTAATGTGAGAACAATTG
1 CTAATGTGAGAACAATTG
4173185 CCTAATTTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 31 0.34
89 52 0.57
90 9 0.10
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (90 bp):
CTAATGTGAGAACAATTGTCAAGTTCAAAGACTAACTTGGACAAAAAAAAGTTCAAACCCCAATG
TGAAAGCAATTGTCTAATTCAGGCC
Found at i:4174143 original size:3 final size:3
Alignment explanation
Indices: 4174135--4174207 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
4174125 GTGCGATTTG
4174135 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4174183 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
4174208 GTCTTCTTGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4180377 original size:16 final size:16
Alignment explanation
Indices: 4180358--4180392 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4180348 CATATAATAA
*
4180358 ATTATATTAATAATTT
1 ATTATATTAATAAATT
*
4180374 ATTATTTTAATAAATT
1 ATTATATTAATAAATT
4180390 ATT
1 ATT
4180393 TAATATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATATTAATAAATT
Found at i:4180411 original size:29 final size:29
Alignment explanation
Indices: 4180352--4180415 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
4180342 TCTAATCATA
*
4180352 TAATAAATTATATTAATAATTTATTATTT
1 TAATAAATTATATTAATAATTAATTATTT
*
4180381 TAATAAATTAT-TTAAT-ATTCAATTTTATT
1 TAATAAATTATATTAATAATT-AATTAT-TT
4180410 TAATAA
1 TAATAA
4180416 TAAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.10
28 9 0.29
29 19 0.61
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATAAATTATATTAATAATTAATTATTT
Found at i:4180417 original size:32 final size:31
Alignment explanation
Indices: 4180351--4180494 Score: 91
Period size: 32 Copynumber: 4.5 Consensus size: 31
4180341 ATCTAATCAT
*
4180351 ATAATAAATTATATTAATAATT--TATTATTT-
1 ATAATAAATTAT-TTAAT-ATTAATTTTATTTA
4180381 -TAATAAATTATTTAATATTCAATTTTATTTA
1 ATAATAAATTATTTAATATT-AATTTTATTTA
* * **
4180412 ATAATAAATTTTTTAAATAATAATTTTAAATA
1 ATAATAAATTATTT-AATATTAATTTTATTTA
* * *
4180444 ATATTATATTATTAAAATATTTAATATTAATATTTTA
1 ATAATAAATTATT-TAATA-TTAAT-TT--TA-TTTA
4180481 ATAATAAA-TATTTA
1 ATAATAAATTATTTA
4180495 TTACAATTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
27 3 0.03
28 5 0.06
29 11 0.13
30 7 0.08
32 35 0.40
33 9 0.10
34 2 0.02
35 1 0.01
36 6 0.07
37 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
ATAATAAATTATTTAATATTAATTTTATTTA
Found at i:4180421 original size:17 final size:16
Alignment explanation
Indices: 4180388--4180439 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
4180378 TTTTAATAAA
*
4180388 TTATTTAATATTCAATT
1 TTATTTAATAAT-AATT
4180405 TTATTTAATAATAAATT
1 TTATTTAATAAT-AATT
*
4180422 TT-TTAAATAATAATT
1 TTATTTAATAATAATT
4180437 TTA
1 TTA
4180440 AATAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 6 0.19
16 8 0.26
17 17 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTAATAATAATT
Found at i:4180438 original size:13 final size:13
Alignment explanation
Indices: 4180422--4180446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4180412 ATAATAAATT
4180422 TTTTAAATAATAA
1 TTTTAAATAATAA
4180435 TTTTAAATAATA
1 TTTTAAATAATA
4180447 TTATATTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAATAATAA
Found at i:4180469 original size:23 final size:24
Alignment explanation
Indices: 4180442--4180486 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
4180432 TAATTTTAAA
4180442 TAATATT-ATATTATTAA-AATATT
1 TAATATTAATATT-TTAATAATATT
4180465 TAATATTAATATTTTAATAATA
1 TAATATTAATATTTTAATAATA
4180487 AATATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATATTAATATTTTAATAATATT
Found at i:4180473 original size:15 final size:15
Alignment explanation
Indices: 4180443--4180494 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
4180433 AATTTTAAAT
*
4180443 AATATTATATTATTAA
1 AATATT-TAATATTAA
4180459 AATATTTAATATTAA
1 AATATTTAATATTAA
* *
4180474 TAT-TTTAATAAT-A
1 AATATTTAATATTAA
4180487 AATATTTA
1 AATATTTA
4180495 TTACAATTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 3 0.10
14 12 0.39
15 10 0.32
16 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTAATATTAA
Found at i:4180483 original size:21 final size:22
Alignment explanation
Indices: 4180442--4180497 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
4180432 TAATTTTAAA
*
4180442 TAATATTATATTATTAAAATATT
1 TAATATTATATTATT-AAATAAT
4180465 TAATATTAATATT-TT-AATAAT
1 TAATATT-ATATTATTAAATAAT
*
4180486 AAATATT-TATTA
1 TAATATTATATTA
4180498 CAATTACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 4 0.14
21 11 0.38
23 9 0.31
24 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATTATATTATTAAATAAT
Found at i:4183444 original size:29 final size:29
Alignment explanation
Indices: 4183398--4183454 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4183388 TGGGGTGGAG
4183398 ATGTGTCAAGCAGGACCCAAGTAGAGGAC
1 ATGTGTCAAGCAGGACCCAAGTAGAGGAC
* *
4183427 ATGTGTCAAGC-GGCACCCTAGTGGAGGA
1 ATGTGTCAAGCAGG-ACCCAAGTAGAGGA
4183455 GCGCTGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (29 bp):
ATGTGTCAAGCAGGACCCAAGTAGAGGAC
Found at i:4185790 original size:30 final size:31
Alignment explanation
Indices: 4185736--4185803 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
4185726 TGGAAAAAAA
*
4185736 AGTTCAAGCCCCAATGTAGGAATAATTGTCT
1 AGTTCAAGCCCCAATGTAGGAATAATTGTCG
* *
4185767 AGTTCATGCCCTAATGT-GGAATAATTGTCG
1 AGTTCAAGCCCCAATGTAGGAATAATTGTCG
4185797 AGTTCAA
1 AGTTCAA
4185804 AGACTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (31 bp):
AGTTCAAGCCCCAATGTAGGAATAATTGTCG
Found at i:4185850 original size:90 final size:88
Alignment explanation
Indices: 4185710--4185884 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 88
4185700 ACAAATGTTA
* * * * *
4185710 AGTTCAAGGACTAACTTGGAAAAAAAAGTTCAAGCCCCAATGTAGGAATAATTGTCTAGTTCATG
1 AGTTCAAAGACTAACTTGGAAAAAAAAGTTCAAACCCCAATGTAGAAATAATTGTCTAATTCAGG
*
4185775 CCCTAATGT-GGAATAATTGTCG
66 CCCTAATGTGGGAACAATTGTCG
4185797 AGTTCAAAGACTAACTTGGACAAAAAAAAAGTTCAAACCCCAATGT-GAAAATAATTGTCTAATT
1 AGTTCAAAGACTAACTTGG---AAAAAAAAGTTCAAACCCCAATGTAG-AAATAATTGTCTAATT
*
4185861 CGGGCCCTAATGTGGGAACAATTG
62 CAGGCCCTAATGTGGGAACAATTG
4185885 CCTAATTTCG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
87 18 0.24
89 1 0.01
90 48 0.63
91 9 0.12
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (88 bp):
AGTTCAAAGACTAACTTGGAAAAAAAAGTTCAAACCCCAATGTAGAAATAATTGTCTAATTCAGG
CCCTAATGTGGGAACAATTGTCG
Found at i:4185884 original size:31 final size:31
Alignment explanation
Indices: 4185849--4185915 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
4185839 ATGTGAAAAT
* * *
4185849 AATTGTCTAA-TTCGGGCCCTAATGTGGGAAC
1 AATTGCCTAATTTC-GGCCCTAATGTAGGAAA
*
4185880 AATTGCCTAATTTCGGCCTTAATGTAGGAAA
1 AATTGCCTAATTTCGGCCCTAATGTAGGAAA
4185911 AATTG
1 AATTG
4185916 ACAAGTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (31 bp):
AATTGCCTAATTTCGGCCCTAATGTAGGAAA
Found at i:4191396 original size:55 final size:55
Alignment explanation
Indices: 4191291--4191396 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
4191281 CTGTGTAAGT
* *
4191291 AAATGTATAATGTAGTCAAGAACTGAGATTTTGAGTTTTTCCTTTCTATGTCAGC
1 AAATGTATAATGTAATCAAGAACTGAGATTTTGAGTTTTTCCTTACTATGTCAGC
* * * *
4191346 AAATGTTTGATGTAATCAAGAACTGAGGTTTTTGAG-TTTTCCTTAGTATGT
1 AAATGTATAATGTAATCAAGAACTGA-GATTTTGAGTTTTTCCTTACTATGT
4191397 ATCTGCATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 36 0.82
56 8 0.18
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (55 bp):
AAATGTATAATGTAATCAAGAACTGAGATTTTGAGTTTTTCCTTACTATGTCAGC
Found at i:4198816 original size:7 final size:7
Alignment explanation
Indices: 4198804--4198850 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
4198794 TGTTAGAGTT
4198804 AAGGGTA
1 AAGGGTA
4198811 AAGGGTA
1 AAGGGTA
4198818 AAGGGTA
1 AAGGGTA
4198825 AAGGGTA
1 AAGGGTA
4198832 AAGGGTA
1 AAGGGTA
4198839 AAGGGTA
1 AAGGGTA
4198846 AAGGG
1 AAGGG
4198851 GTTTCTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.43, C:0.00, G:0.45, T:0.13
Consensus pattern (7 bp):
AAGGGTA
Found at i:4207161 original size:23 final size:23
Alignment explanation
Indices: 4207135--4207210 Score: 111
Period size: 23 Copynumber: 3.3 Consensus size: 23
4207125 ATAAGTGCCA
4207135 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4207158 CACTGATATGTAGCC-ATAGCTTC
1 CACTGATATGTAGCCGA-AGCTAC
4207181 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
4207204 CACTGAT
1 CACTGAT
4207211 CAATAACACT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.04
23 44 0.94
24 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4207310 original size:8 final size:8
Alignment explanation
Indices: 4207297--4207324 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4207287 ACCCGGGACT
4207297 CACTGTAA
1 CACTGTAA
4207305 CACTGTAA
1 CACTGTAA
4207313 CACTGTAA
1 CACTGTAA
4207321 CACT
1 CACT
4207325 AGTCTCTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (8 bp):
CACTGTAA
Found at i:4207478 original size:17 final size:17
Alignment explanation
Indices: 4207444--4207481 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4207434 ATTTTCCTTC
*
4207444 CACATTCAATATTGATT
1 CACATTCAATATTAATT
4207461 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
4207478 CACA
1 CACA
4207482 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:4210531 original size:17 final size:19
Alignment explanation
Indices: 4210509--4210544 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
4210499 TGTTTTCGAG
4210509 ATTTGAATT-TTT-ATTAT
1 ATTTGAATTATTTAATTAT
4210526 ATTTGAATTATTTAATTAT
1 ATTTGAATTATTTAATTAT
4210545 CCTGCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTGAATTATTTAATTAT
Found at i:4217525 original size:11 final size:11
Alignment explanation
Indices: 4217493--4217564 Score: 57
Period size: 11 Copynumber: 6.9 Consensus size: 11
4217483 ACTAAAAATT
4217493 TATTTTAAAAA
1 TATTTTAAAAA
*
4217504 T-TTTAAAAAAA
1 TATTT-TAAAAA
4217515 GTATTTTAAAAA
1 -TATTTTAAAAA
4217527 TATTTT--AAA
1 TATTTTAAAAA
4217536 -A-TTTAAAAA
1 TATTTTAAAAA
**
4217545 -ATTAAAAAAA
1 TATTTTAAAAA
4217555 TATTTTAAAA
1 TATTTTAAAA
4217565 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 7 0.15
10 9 0.19
11 19 0.40
12 6 0.12
13 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4217547 original size:9 final size:9
Alignment explanation
Indices: 4217533--4217592 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
4217523 AAAATATTTT
*
4217533 AAAATTTAA
1 AAAATTAAA
4217542 AAAATTAAA
1 AAAATTAAA
***
4217551 AAAATATTTT
1 AAAAT-TAAA
4217561 AAAATTAAA
1 AAAATTAAA
4217570 AAAATTAAA
1 AAAATTAAA
4217579 AAAATTAAA
1 AAAATTAAA
4217588 AAAAT
1 AAAAT
4217593 AAATTATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 37 0.86
10 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATTAAA
Found at i:4217561 original size:28 final size:28
Alignment explanation
Indices: 4217522--4217583 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
4217512 AAAGTATTTT
*
4217522 AAAAATATTTTAAAATTTAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAATTAA
4217550 AAAAATATTTTAAAATTAAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAATTAA
4217578 AAAAAT
1 AAAAAT
4217584 TAAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAAATATTTTAAAATTAAAAAAATTAA
Found at i:4217619 original size:5 final size:5
Alignment explanation
Indices: 4217609--4217634 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4217599 TTTATTATAT
4217609 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
4217635 AAAAAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:4223053 original size:19 final size:21
Alignment explanation
Indices: 4223029--4223069 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4223019 TATTGTGAGT
4223029 ATATG-TTATA-TAAATTTTA
1 ATATGTTTATATTAAATTTTA
*
4223048 ATATGTTTATATTATATTTTA
1 ATATGTTTATATTAAATTTTA
4223069 A
1 A
4223070 AATATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATGTTTATATTAAATTTTA
Found at i:4227049 original size:20 final size:20
Alignment explanation
Indices: 4227026--4227076 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4227016 AATCTTGATT
4227026 CTATCGATACTCAACAAAAA
1 CTATCGATACTCAACAAAAA
**
4227046 CTATCGATACTTGACAAAAA
1 CTATCGATACTCAACAAAAA
* *
4227066 GTATCAATACT
1 CTATCGATACT
4227077 TTTTAGCCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (20 bp):
CTATCGATACTCAACAAAAA
Found at i:4227420 original size:20 final size:19
Alignment explanation
Indices: 4227395--4227450 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
4227385 AGCCTTAGAC
4227395 AAATTTGTCATTCATTACAA
1 AAATTTGTCATTCATT-CAA
* * *
4227415 AAATTTGGCATTCATTTAT
1 AAATTTGTCATTCATTCAA
*
4227434 AAATTGGTCATTCATTC
1 AAATTTGTCATTCATTC
4227451 TCAGTTAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (19 bp):
AAATTTGTCATTCATTCAA
Found at i:4234701 original size:14 final size:14
Alignment explanation
Indices: 4234682--4234712 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4234672 TGCTTCCATT
4234682 TTACTATTATGTTG
1 TTACTATTATGTTG
*
4234696 TTACTATTTTGTTG
1 TTACTATTATGTTG
4234710 TTA
1 TTA
4234713 TTGTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:4234950 original size:12 final size:12
Alignment explanation
Indices: 4234929--4234962 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4234919 TATATATATT
*
4234929 AAAATTATATAA
1 AAAATAATATAA
4234941 AAAATAATATAA
1 AAAATAATATAA
*
4234953 AAATTAATAT
1 AAAATAATAT
4234963 GGGCCGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:4235272 original size:33 final size:32
Alignment explanation
Indices: 4235211--4235289 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 32
4235201 AATTTAGAAC
* *
4235211 TTAGTATCTATTC--TTGTTTTTTTGAGAAAT
1 TTAGTATCTATTCTTTTGTTTTTTTAAGAAAA
*
4235241 TTAGTATCTATTCTTTTCTTTTTTTTAAGAAAA
1 TTAGTATCTATTCTTTT-GTTTTTTTAAGAAAA
4235274 TTAGTATCTATTCTTT
1 TTAGTATCTATTCTTT
4235290 AATGGGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 13 0.30
32 2 0.05
33 28 0.65
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (32 bp):
TTAGTATCTATTCTTTTGTTTTTTTAAGAAAA
Found at i:4237379 original size:14 final size:12
Alignment explanation
Indices: 4237356--4237397 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
4237346 GTTTTTAAGA
4237356 TTTTTGTTTAGGG
1 TTTTTGTTTA-GG
4237369 TTTTTGTTTTAGG
1 TTTTTG-TTTAGG
*
4237382 TTTTT-TTTAGA
1 TTTTTGTTTAGG
4237393 TTTTT
1 TTTTT
4237398 TAATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
13 13 0.48
14 4 0.15
ACGTcount: A:0.10, C:0.00, G:0.19, T:0.71
Consensus pattern (12 bp):
TTTTTGTTTAGG
Found at i:4240247 original size:23 final size:23
Alignment explanation
Indices: 4240205--4240250 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4240195 ATTTGCAACT
*
4240205 TTTATCATAAAGCAAAGCTCAAA
1 TTTATCATAAAACAAAGCTCAAA
* *
4240228 TTTATCATAAAACGATGCTCAAA
1 TTTATCATAAAACAAAGCTCAAA
4240251 ACCAGCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (23 bp):
TTTATCATAAAACAAAGCTCAAA
Found at i:4241263 original size:6 final size:6
Alignment explanation
Indices: 4241252--4241281 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4241242 AAATATATAT
4241252 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
4241282 AAATACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:4242022 original size:69 final size:70
Alignment explanation
Indices: 4241941--4242118 Score: 191
Period size: 69 Copynumber: 2.5 Consensus size: 70
4241931 AGTGATAATT
* *
4241941 TCTTCACTATTTTTGTTAAAAAGTTAATTTTAATCT-CACGTTAACTA-AAAATTACTCTTATAG
1 TCTTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACGTTAACTAGAAAA-TACTCATATAG
* **
4242004 CTCACC
65 CTAAAA
* * * * *
4242010 TCTTCACTATTTTCATTAAAAAATTAATTTTAAT-TCCATGTTGACTAGAGAATACTCATATAGC
1 TCTTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACGTTAACTAGAAAATACTCATATAGC
4242074 TAAAA
66 TAAAA
4242079 TCTTCACTATTTTCATTAAATTAAAAAGTTAATTTTAATC
1 TCTTCACTA-TTT--TT--ATTAAAAAGTTAATTTTAATC
4242119 CTACATTGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
68 1 0.01
69 62 0.70
70 6 0.07
72 1 0.01
74 19 0.21
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.42
Consensus pattern (70 bp):
TCTTCACTATTTTTATTAAAAAGTTAATTTTAATCTCCACGTTAACTAGAAAATACTCATATAGC
TAAAA
Found at i:4242618 original size:141 final size:142
Alignment explanation
Indices: 4242386--4242648 Score: 345
Period size: 141 Copynumber: 1.9 Consensus size: 142
4242376 TATTAGCCAA
* * *
4242386 AGAACACTCGCATACTCGCTATTTTCATAAGCTCTTTAGAGTTTCTTCCTCTAAAGAAACTTATG
1 AGAACACTCCCATACTCGCTATTTTCATAAACTCTTTAGAGTTTCTTCCTCTAAAGAAACTTACG
* * * *
4242451 AGAGAGAACTTCTAGTTTAAAGTTATTTATATATTATTGATATGAACGATGATGATTTTTAATCC
66 AGAAAGAACTTCTAGCTTAAAGTTATTTATATATTATCGATACGAACGATGATGATTTTTAATCC
4242516 CATTTTAACTAG
131 CATTTTAACTAG
* * *
4242528 AGAACACTCCCATGCTCAG-TATTTTCATAAACT-TTTCGAGTTTCTTCCTTTAAAGAAA-TTCA
1 AGAACACTCCCATACTC-GCTATTTTCATAAACTCTTTAGAGTTTCTTCCTCTAAAGAAACTT-A
* * * *
4242590 CGAGAAAGAGC-TCATAGCTTGAAGTTATTTATATATTATCGATACGAATGATGGTGATT
64 CGAGAAAGAACTTC-TAGCTTAAAGTTATTTATATATTATCGATACGAACGATGATGATT
4242649 CTAATACAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
140 4 0.04
141 71 0.68
142 28 0.27
143 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (142 bp):
AGAACACTCCCATACTCGCTATTTTCATAAACTCTTTAGAGTTTCTTCCTCTAAAGAAACTTACG
AGAAAGAACTTCTAGCTTAAAGTTATTTATATATTATCGATACGAACGATGATGATTTTTAATCC
CATTTTAACTAG
Found at i:4242897 original size:27 final size:28
Alignment explanation
Indices: 4242848--4242913 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
4242838 TATTTTATAC
*
4242848 TATTATTAATTAAAATATACATTTA-TCA
1 TATTA-TAATTAAAATATACATTTACACA
* *
4242876 TTTTATAATTAATAT-TATCATTTACACA
1 TATTATAATTAAAATATA-CATTTACACA
4242904 TATTATAATT
1 TATTATAATT
4242914 TTAAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 15 0.47
28 15 0.47
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTATAATTAAAATATACATTTACACA
Found at i:4243412 original size:20 final size:18
Alignment explanation
Indices: 4243383--4243433 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
4243373 TATGTTTTAA
4243383 AAAAATTATAAAAAAATCT
1 AAAAATTATAAAAAAAT-T
*
4243402 AAAAATATATATAAAAATT
1 AAAAAT-TATAAAAAAATT
*
4243421 AAAAATTTTAAAA
1 AAAAATTATAAAA
4243434 TTTTCTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.18
19 13 0.46
20 10 0.36
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAAAAATT
Found at i:4250701 original size:28 final size:29
Alignment explanation
Indices: 4250669--4250739 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
4250659 TTTTAATTGA
4250669 TAATCTTTTATTTTGAAGTAATAGTCA-T
1 TAATCTTTTATTTTGAAGTAATAGTCATT
4250697 TAATCTTTTATTTTGAAGTAATAGTCATT
1 TAATCTTTTATTTTGAAGTAATAGTCATT
* *
4250726 TACTCTTTTTTTTT
1 TAATCTTTTATTTT
4250740 TTTCATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 27 0.68
29 13 0.32
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (29 bp):
TAATCTTTTATTTTGAAGTAATAGTCATT
Found at i:4260894 original size:4 final size:4
Alignment explanation
Indices: 4260885--4260909 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4260875 TTGTGTTGAT
4260885 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
4260910 GTCCCTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:4262431 original size:33 final size:33
Alignment explanation
Indices: 4262394--4262456 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
4262384 ATTTTCAAAT
*
4262394 AATAAC-ACAAAAATAGT-AGCAAAATAATAATGA
1 AATAACAAC-AAAATAGTGAG-AAAACAATAATGA
*
4262427 AATAATAACAAAATAGTGAGAAAACAATAA
1 AATAACAACAAAATAGTGAGAAAACAATAA
4262457 AATAGCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.65, C:0.08, G:0.10, T:0.17
Consensus pattern (33 bp):
AATAACAACAAAATAGTGAGAAAACAATAATGA
Found at i:4262970 original size:61 final size:61
Alignment explanation
Indices: 4262852--4262981 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 61
4262842 ATTAGAATAA
* * * *
4262852 TAACAAATTTAGCCCTCATATGTTTATAGATTATAACAATTTGATCCTAATTCTAAAAAAT
1 TAACAAATTTAACCCTCATATCTCTATAGATTATAACAATTTAATCCTAATTCTAAAAAAT
* * * * *
4262913 TAACAAATTTAACCCTCA-A-CTCTATATATTATGACAATTTTAATCTTGATTCTTAAAAAT
1 TAACAAATTTAACCCTCATATCTCTATAGATTATAACAA-TTTAATCCTAATTCTAAAAAAT
*
4262973 TCA-AAATTT
1 TAACAAATTT
4262982 TAAAAACTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
59 20 0.34
60 21 0.36
61 17 0.29
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (61 bp):
TAACAAATTTAACCCTCATATCTCTATAGATTATAACAATTTAATCCTAATTCTAAAAAAT
Found at i:4265276 original size:15 final size:15
Alignment explanation
Indices: 4265233--4265278 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
4265223 ACGATAACGC
4265233 AAATGACTAAAATAT
1 AAATGACTAAAATAT
* *
4265248 AACAT--TTCAAATAT
1 AA-ATGACTAAAATAT
4265262 AAATGACTAAAATAT
1 AAATGACTAAAATAT
4265277 AA
1 AA
4265279 TTTGAGACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 11 0.46
16 2 0.08
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (15 bp):
AAATGACTAAAATAT
Found at i:4274158 original size:24 final size:25
Alignment explanation
Indices: 4274122--4274169 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
4274112 ACTATATTTC
* *
4274122 AATTATAATAAATAATTCAAATAAA
1 AATTATAAAAAATAATTAAAATAAA
4274147 AATT-TAAAAAATAATTAAAATAA
1 AATTATAAAAAATAATTAAAATAA
4274170 TTAAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AATTATAAAAAATAATTAAAATAAA
Found at i:4274185 original size:12 final size:11
Alignment explanation
Indices: 4274122--4274197 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 11
4274112 ACTATATTTC
4274122 AATTATAATAAA
1 AATTA-AATAAA
4274134 TAATTCAAATAAA
1 -AATT-AAATAAA
4274147 AATTTAAA-AAA
1 AA-TTAAATAAA
*
4274158 TAATT-AA-AAT
1 -AATTAAATAAA
4274168 AATTAAATACAA
1 AATTAAATA-AA
*
4274180 AATTAATTAAA
1 AATTAAATAAA
4274191 AATTAAA
1 AATTAAA
4274198 CGTGTAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
9 4 0.08
10 6 0.11
11 14 0.26
12 16 0.30
13 12 0.23
14 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
AATTAAATAAA
Found at i:4274838 original size:26 final size:23
Alignment explanation
Indices: 4274779--4274839 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
4274769 CTCATCGCTG
*
4274779 CCCTCTGCTGGTTCTTTGTTCTG
1 CCCTCTGCTGGTTCTTTGTTCTA
* *
4274802 CCCTTTGCTGGTTCTTTATTCCTCTA
1 CCCTCTGCTGGTTCTTT-GT--TCTA
4274828 CCCTCTGCTGGT
1 CCCTCTGCTGGT
4274840 GAGTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 16 0.52
24 1 0.03
26 14 0.45
ACGTcount: A:0.03, C:0.33, G:0.18, T:0.46
Consensus pattern (23 bp):
CCCTCTGCTGGTTCTTTGTTCTA
Found at i:4276877 original size:8 final size:8
Alignment explanation
Indices: 4276866--4276893 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4276856 TTTAATTTTT
4276866 ATATTTAA
1 ATATTTAA
4276874 ATATTTAA
1 ATATTTAA
4276882 ATATTTAA
1 ATATTTAA
4276890 ATAT
1 ATAT
4276894 AGTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:4277171 original size:13 final size:13
Alignment explanation
Indices: 4277148--4277224 Score: 109
Period size: 13 Copynumber: 5.9 Consensus size: 13
4277138 ACACTCAAAT
4277148 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
4277161 TCCTGAAAAGCAC
1 TTCTCAAAAGCAC
4277174 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* * *
4277187 TCCTGAAAAACAC
1 TTCTCAAAAGCAC
4277200 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
4277213 TTCTCAAAAGCA
1 TTCTCAAAAGCA
4277225 ATGAAGAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:4277184 original size:26 final size:26
Alignment explanation
Indices: 4277148--4277224 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
4277138 ACACTCAAAT
4277148 TTCTCAAAAGCACTCCTGAAAAGCAC
1 TTCTCAAAAGCACTCCTGAAAAGCAC
*
4277174 TTCTCAAAAGCACTCCTGAAAAACAC
1 TTCTCAAAAGCACTCCTGAAAAGCAC
* *
4277200 TTCTCAAAAGCACTTCTCAAAAGCA
1 TTCTCAAAAGCACTCCTGAAAAGCA
4277225 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (26 bp):
TTCTCAAAAGCACTCCTGAAAAGCAC
Found at i:4277454 original size:27 final size:28
Alignment explanation
Indices: 4277424--4277483 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
4277414 ATAGTATGAT
4277424 ATAATTTAAA-CCCTAAAAACCCAACCC-
1 ATAATTTAAATCCC-AAAAACCCAACCCA
* *
4277451 ATAACTTAAATTCCAAAAACCCAACCCA
1 ATAATTTAAATCCCAAAAACCCAACCCA
4277479 ATAAT
1 ATAAT
4277484 ACATTAATCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (28 bp):
ATAATTTAAATCCCAAAAACCCAACCCA
Found at i:4285928 original size:19 final size:20
Alignment explanation
Indices: 4285904--4285946 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4285894 TAAATGTTGA
*
4285904 AATTTTT-ATAAATATTTTG
1 AATTTTTAAAAAATATTTTG
4285923 AATTTTTAAAAAATATTTTG
1 AATTTTTAAAAAATATTTTG
4285943 AATT
1 AATT
4285947 CTTTTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
AATTTTTAAAAAATATTTTG
Found at i:4285929 original size:20 final size:20
Alignment explanation
Indices: 4285900--4285951 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4285890 ATTATAAATG
* *
4285900 TTGAAATTTTTATAAATATT
1 TTGAATTTTTTAAAAATATT
*
4285920 TTGAATTTTTAAAAAATATT
1 TTGAATTTTTTAAAAATATT
4285940 TTGAATTCTTTT
1 TTGAATT-TTTT
4285952 TTGTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (20 bp):
TTGAATTTTTTAAAAATATT
Found at i:4287640 original size:22 final size:21
Alignment explanation
Indices: 4287604--4287644 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4287594 AGATTGTTGT
4287604 TTTTCTTATTGTTTTCTTACTA
1 TTTTCTTATTGTTTT-TTACTA
* *
4287626 TTTTCTTGTTTTTTTTTAC
1 TTTTCTTATTGTTTTTTAC
4287645 ACTATTTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTCTTATTGTTTTTTACTA
Found at i:4290000 original size:2 final size:2
Alignment explanation
Indices: 4289995--4290045 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
4289985 ATATATATAT
4289995 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4290037 AG AG AG AG A
1 AG AG AG AG A
4290046 ATGGAAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4291129 original size:19 final size:19
Alignment explanation
Indices: 4291107--4291176 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
4291097 AAAAATTAGA
4291107 AAAAAAATATAAAAATCGT
1 AAAAAAATATAAAAATCGT
* *
4291126 AAAAACAT-TAAAAATTGT
1 AAAAAAATATAAAAATCGT
* ***
4291144 AATATTTTATAAAAATCGT
1 AAAAAAATATAAAAATCGT
* *
4291163 AAAATATTATAAAA
1 AAAAAAATATAAAA
4291177 TATATAGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 13 0.32
19 28 0.68
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAAATATAAAAATCGT
Found at i:4291151 original size:58 final size:56
Alignment explanation
Indices: 4291034--4291159 Score: 141
Period size: 56 Copynumber: 2.2 Consensus size: 56
4291024 ACGCACTTGC
* * * * *
4291034 TTTTATTAAAAATTAGAAAAAATATAAAAAAATTTAAAACTATAAATATTATTAAA
1 TTTTAATAAAAATTAGAAAAAAAATAAAAAAATTAAAAACTATAAAAATTAGTAAA
*
4291090 TTTTAATAAAAATTAGAAAAAAAATATAAAAATCGTAAAAAC-ATTAAAAATT-GTAATA
1 TTTTAATAAAAATTAGAAAAAAAATAAAAAAAT--TAAAAACTA-TAAAAATTAGTAA-A
4291148 TTTT-ATAAAAAT
1 TTTTAATAAAAAT
4291160 CGTAAAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
56 30 0.50
57 12 0.20
58 18 0.30
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (56 bp):
TTTTAATAAAAATTAGAAAAAAAATAAAAAAATTAAAAACTATAAAAATTAGTAAA
Found at i:4291490 original size:9 final size:10
Alignment explanation
Indices: 4291466--4291512 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
4291456 TAAAAAATTC
4291466 TAATTTTTAA
1 TAATTTTTAA
*
4291476 TAATTTTTTA
1 TAATTTTTAA
*
4291486 T-ATTTTTAT
1 TAATTTTTAA
*
4291495 TAATATTTAA
1 TAATTTTTAA
4291505 TAATTTTT
1 TAATTTTT
4291513 CTAAAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:4291490 original size:19 final size:20
Alignment explanation
Indices: 4291466--4291512 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
4291456 TAAAAAATTC
* *
4291466 TAATTTTTAATAATTTTTTA
1 TAATTTTTAATAATATTTAA
*
4291486 T-ATTTTTATTAATATTTAA
1 TAATTTTTAATAATATTTAA
4291505 TAATTTTT
1 TAATTTTT
4291513 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TAATTTTTAATAATATTTAA
Found at i:4291522 original size:29 final size:29
Alignment explanation
Indices: 4291466--4291531 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
4291456 TAAAAAATTC
* **
4291466 TAATTTTTAATAATTTTTTATATTTTTAT
1 TAATATTTAATAATTTTTTATAAATTTAT
4291495 TAATATTTAATAATTTTTCTA-AAATTTAT
1 TAATATTTAATAATTTTT-TATAAATTTAT
*
4291524 TATTATTT
1 TAATATTT
4291532 TATTTTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (29 bp):
TAATATTTAATAATTTTTTATAAATTTAT
Found at i:4291545 original size:14 final size:14
Alignment explanation
Indices: 4291518--4291559 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
4291508 TTTTTCTAAA
*
4291518 ATTTATTATTATTTT
1 ATTT-TTATAATTTT
4291533 ATTTTTATAATTTT
1 ATTTTTATAATTTT
*
4291547 -TTTTTCTAATTTT
1 ATTTTTATAATTTT
4291560 TAATAAGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 9 0.36
15 4 0.16
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTATAATTTT
Found at i:4291676 original size:88 final size:88
Alignment explanation
Indices: 4291576--4291743 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
4291566 GAGCAGGGGA
** *
4291576 TTAATTAC-TTTTTTTAAAAAAAATTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
1 TTAATTACTTTTTTTTAAAAAAAATTAAGGCCCGTTTT-ATGCATTTTGAAAGTTCAAGTACCCA
*
4291640 ATTCAGTGAAAAAAAAACAATGGC
65 ATTAAGTGAAAAAAAAACAATGGC
* * * ** * * *
4291664 TTAATTGCTTTTTTTTGAAGAAGTTTGAGGCCCGTTTTATGCATTTTGAAAGTTCAATTACTCAA
1 TTAATTACTTTTTTTTAAAAAAAATTAAGGCCCGTTTTATGCATTTTGAAAGTTCAAGTACCCAA
*
4291729 TTAAGTGCAAAAAAA
66 TTAAGTGAAAAAAAA
4291744 GAGAGGCTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
88 45 0.68
89 21 0.32
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (88 bp):
TTAATTACTTTTTTTTAAAAAAAATTAAGGCCCGTTTTATGCATTTTGAAAGTTCAAGTACCCAA
TTAAGTGAAAAAAAAACAATGGC
Found at i:4297567 original size:25 final size:28
Alignment explanation
Indices: 4297521--4297574 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
4297511 TTACTTGAAT
4297521 TATATATAAAATAACTTAAAA-TTATGG
1 TATATATAAAATAACTTAAAATTTATGG
*
4297548 TATATATAAAAT-A-TTGAAATTTATGG
1 TATATATAAAATAACTTAAAATTTATGG
4297574 T
1 T
4297575 TAATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 8 0.32
27 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (28 bp):
TATATATAAAATAACTTAAAATTTATGG
Found at i:4301252 original size:3 final size:3
Alignment explanation
Indices: 4301244--4301270 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4301234 TCTCTCCATT
4301244 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
4301271 AAACAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4305338 original size:32 final size:32
Alignment explanation
Indices: 4305297--4305361 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4305287 ATAGCAACAC
4305297 TTAATCTGGATAATTTAGACATTTCTAAACCA
1 TTAATCTGGATAATTTAGACATTTCTAAACCA
4305329 TTAATCTGGATAATTTAGACATTTCTAAACCA
1 TTAATCTGGATAATTTAGACATTTCTAAACCA
4305361 T
1 T
4305362 ATCTTGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (32 bp):
TTAATCTGGATAATTTAGACATTTCTAAACCA
Found at i:4306728 original size:12 final size:12
Alignment explanation
Indices: 4306700--4306748 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
4306690 GTCTTTAAGA
4306700 TTTTTAGATTA-T
1 TTTTTA-ATTATT
*
4306712 ATTTTAATTATT
1 TTTTTAATTATT
4306724 TTTTTAA--ATT
1 TTTTTAATTATT
*
4306734 TTTTTAACTATT
1 TTTTTAATTATT
4306746 TTT
1 TTT
4306749 AATACAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 10 0.31
11 4 0.12
12 18 0.56
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTTAATTATT
Found at i:4313795 original size:15 final size:17
Alignment explanation
Indices: 4313769--4313800 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4313759 AAAGTTCGAG
4313769 GGGAGAGAAAAA-TAAA
1 GGGAGAGAAAAAGTAAA
4313785 GGGAG-GAAAAAGTAAA
1 GGGAGAGAAAAAGTAAA
4313801 AAGGATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.06
Consensus pattern (17 bp):
GGGAGAGAAAAAGTAAA
Found at i:4318684 original size:23 final size:23
Alignment explanation
Indices: 4318658--4318730 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
4318648 AGTGCCACAT
4318658 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4318681 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
*
4318704 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
4318727 TGAT
1 TGAT
4318731 CAATAACACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:4318830 original size:8 final size:8
Alignment explanation
Indices: 4318817--4318845 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4318807 ACCCGGGACT
4318817 CACTGTAA
1 CACTGTAA
4318825 CACTGTAA
1 CACTGTAA
4318833 CACTGTAA
1 CACTGTAA
4318841 CACTG
1 CACTG
4318846 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:4321524 original size:3 final size:3
Alignment explanation
Indices: 4321518--4321555 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4321508 TCTTAATACT
4321518 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
4321556 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:4321907 original size:27 final size:27
Alignment explanation
Indices: 4321823--4321899 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
4321813 CCAATCAGTA
**
4321823 TGGCACCATTGGTGCTGCCAATGGCTT
1 TGGCACCATTGGTGCCACCAATGGCTT
4321850 TGGCACCATTGGTGCCACCAATGGCTT
1 TGGCACCATTGGTGCCACCAATGGCTT
*
4321877 TGGCACCTTTGGTGCCACCAATG
1 TGGCACCATTGGTGCCACCAATG
4321900 CCATTGGCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGCACCATTGGTGCCACCAATGGCTT
Found at i:4321992 original size:25 final size:27
Alignment explanation
Indices: 4321964--4322025 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
4321954 GTTTTTTAGT
4321964 ATATTTTGGTAAAT-AAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
4321989 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
4322016 ATATTTTGGT
1 ATATTTTGGT
4322026 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 14 0.40
26 6 0.17
27 15 0.43
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:4326541 original size:8 final size:8
Alignment explanation
Indices: 4326530--4326554 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4326520 TTATATTTTT
4326530 ATAATATA
1 ATAATATA
4326538 ATAATATA
1 ATAATATA
4326546 ATAATATA
1 ATAATATA
4326554 A
1 A
4326555 ATTTTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:4327865 original size:15 final size:15
Alignment explanation
Indices: 4327816--4327868 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
4327806 ATATATTAAT
*
4327816 TATATCAAACTATAA
1 TATATTAAACTATAA
* *
4327831 TATATTATACCA-AA
1 TATATTAAACTATAA
*
4327845 TAATATTAAAATATAA
1 T-ATATTAAACTATAA
4327861 TATATTAA
1 TATATTAA
4327869 TTTTAAAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 24 0.80
16 3 0.10
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (15 bp):
TATATTAAACTATAA
Found at i:4328009 original size:56 final size:57
Alignment explanation
Indices: 4327943--4328056 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
4327933 AGATTCAAAA
*
4327943 AGGAATTTAATTCCATCTATG-AAAAAGATTAAGATTAAGATTTGAACCTGAGGAAC
1 AGGAATTTAATTCCATCTATGAAAAAAGATTAAGATTAAGATTTGAACCCGAGGAAC
*
4327999 AGGAATTTAATTCTATCTATGAAAAAAGATTAAGATTAAGATTTGAACCCGAGGAAC
1 AGGAATTTAATTCCATCTATGAAAAAAGATTAAGATTAAGATTTGAACCCGAGGAAC
4328056 A
1 A
4328057 AATTCCATCT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 20 0.36
57 35 0.64
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.28
Consensus pattern (57 bp):
AGGAATTTAATTCCATCTATGAAAAAAGATTAAGATTAAGATTTGAACCCGAGGAAC
Found at i:4328154 original size:28 final size:28
Alignment explanation
Indices: 4328123--4328177 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
4328113 AAGACTTGGG
4328123 TGAAAAAAGATTTGAACCCAAGGGAACT
1 TGAAAAAAGATTTGAACCCAAGGGAACT
4328151 TGAAAAAAGATTTGAACCCAAGGGAAC
1 TGAAAAAAGATTTGAACCCAAGGGAAC
4328178 AAATTCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16
Consensus pattern (28 bp):
TGAAAAAAGATTTGAACCCAAGGGAACT
Found at i:4333979 original size:43 final size:42
Alignment explanation
Indices: 4333931--4334060 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 42
4333921 AGCTCGTACA
* * *
4333931 ATGCCAACGTTCCAGACGTGGTCTTATATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
**
4333974 ATGCCATTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
*
4334017 ATGCCAACGTCCCAGATGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
4334060 A
1 A
4334061 AAATCCTATG
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.03
43 66 0.90
44 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:4335486 original size:18 final size:18
Alignment explanation
Indices: 4335463--4335504 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4335453 GCTAGGTGCA
*
4335463 TATCCTAGCCATTATATG
1 TATCCTAACCATTATATG
*
4335481 TATCCTAACCCTTATATG
1 TATCCTAACCATTATATG
*
4335499 TTTCCT
1 TATCCT
4335505 TTTCCCGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCATTATATG
Found at i:4336034 original size:23 final size:23
Alignment explanation
Indices: 4335998--4336222 Score: 252
Period size: 23 Copynumber: 9.7 Consensus size: 23
4335988 TCTACCTTGT
* * *
4335998 TTGGACAGCTTTTATACATCAAA
1 TTGGACAGCATATATACACCAAA
* * * *
4336021 TCGGACAGCATTTATAGACCCAA
1 TTGGACAGCATATATACACCAAA
* *
4336044 TTGGACATCATATATATATACCAAA
1 TTGGACAGC--ATATATACACCAAA
* * *
4336069 TTGGGCAACATATAAACACCAAA
1 TTGGACAGCATATATACACCAAA
* *
4336092 TTGGATAGCATATATACACTAAA
1 TTGGACAGCATATATACACCAAA
* * *
4336115 TTAGACAACATTTATACACCAAA
1 TTGGACAGCATATATACACCAAA
*
4336138 TTGGACAGCATATATACACTAAA
1 TTGGACAGCATATATACACCAAA
* *
4336161 TTGGACAACATTTATACACCAAA
1 TTGGACAGCATATATACACCAAA
4336184 TTGGACAGCATATATACACCAAA
1 TTGGACAGCATATATACACCAAA
4336207 TTGGACAGCATATATA
1 TTGGACAGCATATATA
4336223 TATACCCAAT
Statistics
Matches: 167, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
23 149 0.89
25 18 0.11
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATATATACACCAAA
Found at i:4338858 original size:24 final size:24
Alignment explanation
Indices: 4338831--4338878 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4338821 CATTTAATAA
*
4338831 AATAA-AATTTGTTTTGAATATTTT
1 AATAATAATTTATTTT-AATATTTT
*
4338855 AATAATAATTTATTTTTATATTTT
1 AATAATAATTTATTTTAATATTTT
4338879 GTCCTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
AATAATAATTTATTTTAATATTTT
Found at i:4339092 original size:34 final size:33
Alignment explanation
Indices: 4339034--4339165 Score: 189
Period size: 34 Copynumber: 4.0 Consensus size: 33
4339024 CTAAACACAA
4339034 AATT-ATTTTTTAAAAA--CTAAACCCTAATTT
1 AATTAATTTTTTAAAAACTCTAAACCCTAATTT
4339064 AATTAATTTTCTTAAAAACTCTAAACCCTAATTT
1 AATTAATTTT-TTAAAAACTCTAAACCCTAATTT
* * * *
4339098 AATTAATTAATTTAAAACCCCTAAAACCTAATTT
1 AATTAATT-TTTTAAAAACTCTAAACCCTAATTT
4339132 AATTAATTTTTTAAAAACTCTAAACCCTAATTT
1 AATTAATTTTTTAAAAACTCTAAACCCTAATTT
4339165 A
1 A
4339166 TTTTTTAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
30 4 0.04
31 5 0.06
32 7 0.08
33 22 0.25
34 50 0.56
35 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (33 bp):
AATTAATTTTTTAAAAACTCTAAACCCTAATTT
Found at i:4339177 original size:27 final size:29
Alignment explanation
Indices: 4339131--4339189 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
4339121 AAACCTAATT
4339131 TAATTAATTTTTTAAAAACTC-TAAACCC
1 TAATTAATTTTTTAAAAACTCTTAAACCC
*
4339159 TAATTTATTTTTT-AAAACTCTTAAACCC
1 TAATTAATTTTTTAAAAACTCTTAAACCC
4339187 TAA
1 TAA
4339190 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.42
Consensus pattern (29 bp):
TAATTAATTTTTTAAAAACTCTTAAACCC
Found at i:4348782 original size:25 final size:25
Alignment explanation
Indices: 4348740--4348787 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4348730 AAGCTAAGAG
* * *
4348740 ATAGTTTTTCGATCTATATGAAGTC
1 ATAGCTTTTCAATCTATACGAAGTC
*
4348765 ATAGCTTTTCAATTTATACGAAG
1 ATAGCTTTTCAATCTATACGAAG
4348788 ACATCTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (25 bp):
ATAGCTTTTCAATCTATACGAAGTC
Found at i:4371001 original size:16 final size:16
Alignment explanation
Indices: 4370980--4371012 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4370970 GTAAGACTAC
4370980 ATACATAAGCAAAATT
1 ATACATAAGCAAAATT
4370996 ATACATAAGCAAAATT
1 ATACATAAGCAAAATT
4371012 A
1 A
4371013 AAAAGTGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (16 bp):
ATACATAAGCAAAATT
Found at i:4373448 original size:97 final size:100
Alignment explanation
Indices: 4373328--4373518 Score: 316
Period size: 97 Copynumber: 1.9 Consensus size: 100
4373318 AGTTTATAGA
* * *
4373328 TTTATTTTTTAGGGGTTTTAAGTGAAAGGATCACAAAGAAAAGAAAAATTGCAAAAAA-ATCCAA
1 TTTATTTTTTAGGGATTTTAAGTGAAAAGATCACAAAGAAAAGAAAAATTGCAAAAAAGATCAAA
4373392 TTACACAAATTTTGAATGTTGAAGGTTAGAATAAT
66 TTACACAAATTTTGAATGTTGAAGGTTAGAATAAT
* *
4373427 TTTA-TTTTT-GGGATTTTAAGTGAAAAGATCACAAAGAAAAGAAGAATTGCAAAAAAGATTAAA
1 TTTATTTTTTAGGGATTTTAAGTGAAAAGATCACAAAGAAAAGAAAAATTGCAAAAAAGATCAAA
4373490 TTACACAAATTTTGAATGTTGAAGGTTAG
66 TTACACAAATTTTGAATGTTGAAGGTTAG
4373519 GTTTTTATAA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
97 44 0.51
98 38 0.44
99 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (100 bp):
TTTATTTTTTAGGGATTTTAAGTGAAAAGATCACAAAGAAAAGAAAAATTGCAAAAAAGATCAAA
TTACACAAATTTTGAATGTTGAAGGTTAGAATAAT
Found at i:4384160 original size:21 final size:18
Alignment explanation
Indices: 4384129--4384187 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
4384119 AAATTTAAAA
4384129 AAAAATCAAAATAATA-TAT
1 AAAAAT-AAAA-AATATTAT
*
4384148 GAAAAATAAAAAATGTTAT
1 -AAAAATAAAAAATATTAT
4384167 AAAAATAAAAAAGTATT-T
1 AAAAATAAAAAA-TATTAT
4384185 AAA
1 AAA
4384188 TTTCAAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 19 0.54
19 10 0.29
20 6 0.17
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAAATAAAAAATATTAT
Found at i:4393560 original size:90 final size:90
Alignment explanation
Indices: 4393447--4393633 Score: 338
Period size: 90 Copynumber: 2.1 Consensus size: 90
4393437 TACCGGAATA
*
4393447 TACATTTATTAATGGTTAAATTCTATCGTCAATATTATGAGCAAGTTGTTGATTTAGTCAATGTG
1 TACATTTATTAATGGTTAAATTCTATCGTCAATATTATGAGCAAGTTGTTGATTTAGTCAATGTA
* *
4393512 CTAATTTAATTATTTTTGATATTTG
66 CTAATTTAATTATTTTTAATATTTC
*
4393537 TACATTTATTAATGGTTAAATTCTATCTTCAATATTATGAGCAAGTTGTTGATTTAGTCAATGTA
1 TACATTTATTAATGGTTAAATTCTATCGTCAATATTATGAGCAAGTTGTTGATTTAGTCAATGTA
4393602 CTAATTTAATTATTTTTAATATTTC
66 CTAATTTAATTATTTTTAATATTTC
4393627 TACATTT
1 TACATTT
4393634 TTTATTTTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (90 bp):
TACATTTATTAATGGTTAAATTCTATCGTCAATATTATGAGCAAGTTGTTGATTTAGTCAATGTA
CTAATTTAATTATTTTTAATATTTC
Found at i:4394045 original size:15 final size:18
Alignment explanation
Indices: 4394022--4394065 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 18
4394012 GGACTTAGTT
4394022 GCGTT-GCGTTGGG-TTG
1 GCGTTGGCGTTGGGTTTG
4394038 G-G-TGGCGTTGGGTTTG
1 GCGTTGGCGTTGGGTTTG
4394054 GCGTTGGCGTTG
1 GCGTTGGCGTTG
4394066 ACCTCAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 9 0.38
16 5 0.21
17 1 0.04
18 8 0.33
ACGTcount: A:0.00, C:0.11, G:0.52, T:0.36
Consensus pattern (18 bp):
GCGTTGGCGTTGGGTTTG
Found at i:4398138 original size:42 final size:42
Alignment explanation
Indices: 4398091--4398174 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4398081 TTAAATCTAT
4398091 AATAACTTATAATACTATAATGTAAACATTAAAAAAAACTAA
1 AATAACTTATAATACTATAATGTAAACATTAAAAAAAACTAA
4398133 AATAACTTATAATACTATAATGTAAACATTAAAAAAAACTAA
1 AATAACTTATAATACTATAATGTAAACATTAAAAAAAACTAA
4398175 GATGTTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (42 bp):
AATAACTTATAATACTATAATGTAAACATTAAAAAAAACTAA
Found at i:4415138 original size:97 final size:97
Alignment explanation
Indices: 4414972--4415166 Score: 286
Period size: 97 Copynumber: 2.0 Consensus size: 97
4414962 TATTTTATTT
* *
4414972 TAATAAAAATTAGGGTCACACAATTTCTAACATCACCGAAGAGAAACTGCTCCATCAACTATATT
1 TAATAAAAATTAGAGTCACACAACTTCTAACATCACCGAAGAGAAACTGCTCCATCAACTATATT
*
4415037 GCATGAATTAGATAATAGAGTTGTTGTTAACA
66 GCATGAATTAGATAATAGAGTTGCTGTTAACA
* * *
4415069 TAATAAAAATTTA-AGTCACAGAACTTCTAACGTCACCGAAGAGAAACTG-TCTCATCAATTATA
1 TAATAAAAA-TTAGAGTCACACAACTTCTAACATCACCGAAGAGAAACTGCTC-CATCAACTATA
* *
4415132 TTGCATGAATTAGATGATGGAGTTGCTGTTAACA
64 TTGCATGAATTAGATAATAGAGTTGCTGTTAACA
4415166 T
1 T
4415167 TTGTATATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 2 0.02
97 83 0.94
98 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (97 bp):
TAATAAAAATTAGAGTCACACAACTTCTAACATCACCGAAGAGAAACTGCTCCATCAACTATATT
GCATGAATTAGATAATAGAGTTGCTGTTAACA
Found at i:4417284 original size:50 final size:50
Alignment explanation
Indices: 4417169--4417417 Score: 273
Period size: 50 Copynumber: 4.8 Consensus size: 50
4417159 GATAATAACA
* * ** * *
4417169 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* * * *
4417220 TGCCCATGCCATGTCGCAGACATGGTCTTATAGGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
4417270 TGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
4417320 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
4417375 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4417418 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
50 90 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:4417355 original size:100 final size:104
Alignment explanation
Indices: 4417168--4417417 Score: 328
Period size: 100 Copynumber: 2.4 Consensus size: 104
4417158 TGATAATAAC
** * *
4417168 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* * *
4417233 TCGCAGACATGGTCTTATAGGGGACATCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACATCTCAATCTTAAGG
* * *
4417270 -TGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
4417334 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACATCTCA--ATCTTAAGG
* *
4417375 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4417418 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
100 48 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACATCTCAATCTTAAGG
Found at i:4417533 original size:13 final size:13
Alignment explanation
Indices: 4417512--4417542 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4417502 GCTTGGATCA
*
4417512 TCATCAAATAAAT
1 TCATAAAATAAAT
4417525 TCATAAAATAAAT
1 TCATAAAATAAAT
4417538 TCATA
1 TCATA
4417543 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4417790 original size:30 final size:30
Alignment explanation
Indices: 4417755--4417812 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4417745 CCTCGACTCT
*
4417755 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4417785 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4417813 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4424834 original size:50 final size:50
Alignment explanation
Indices: 4424756--4425003 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
4424746 GATAATAACA
* ** *
4424756 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTAGG
* * * *
4424806 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
4424856 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
4424906 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-AGG
*
4424961 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4425004 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
49 7 0.04
50 120 0.70
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:4424929 original size:100 final size:103
Alignment explanation
Indices: 4424755--4425003 Score: 353
Period size: 100 Copynumber: 2.4 Consensus size: 103
4424745 TGATAATAAC
** *
4424755 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTGGTGCCCATGCCATGT
* *
4424820 CCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4424856 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-GGTGCCCATGCCATGT
4424920 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4424961 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4425004 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
99 6 0.05
100 80 0.61
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4425119 original size:13 final size:13
Alignment explanation
Indices: 4425098--4425129 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4425088 GCTTGGATCA
*
4425098 TCATCAAATAAAT
1 TCATAAAATAAAT
4425111 TCATAAAATAAAT
1 TCATAAAATAAAT
4425124 TCATAA
1 TCATAA
4425130 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4425376 original size:30 final size:30
Alignment explanation
Indices: 4425341--4425398 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4425331 CCTCGACTCT
*
4425341 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4425371 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4425399 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4427289 original size:26 final size:26
Alignment explanation
Indices: 4427234--4427290 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
4427224 TTAAATTCTT
*
4427234 TTAAATAATTTTATATTTAAAAAATA
1 TTAAATAATTTTATATTAAAAAAATA
* *
4427260 TTAAATAATTTTCTA-TAAAAAGAATC
1 TTAAATAATTTTATATTAAAAA-AATA
4427286 TTAAA
1 TTAAA
4427291 CAATCAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
TTAAATAATTTTATATTAAAAAAATA
Found at i:4438327 original size:67 final size:65
Alignment explanation
Indices: 4438190--4438363 Score: 149
Period size: 65 Copynumber: 2.6 Consensus size: 65
4438180 ATTACCTTTC
** *
4438190 GCTC-TCATGTTATTTTTGGATGCAACTACCATGTTGATTGTGGGTCTCATATATATGGAGCTTC
1 GCTCTTCATGTTATTTTTCAATGCAACTACCATGTTGATTGTGGGTCTCA-ATATATGAAGCTTC
4438254 G
65 G
* * * * *
4438255 GCTCTTTTCATGTTATTTTTCAAT-TAACTACTATGTTGATTTTGGGTCTC-ATATGTGAATCTT
1 GCTC--TTCATGTTATTTTTCAATGCAACTACCATGTTGATTGTGGGTCTCAATATATGAAGCTT
4438318 CG
64 CG
* * * * *
4438320 ACTCTCTTCATGTTGTTTTTGGAA-GCAACTATCATGTTAATTGT
1 --GCTCTTCATGTTATTTTT-CAATGCAACTACCATGTTGATTGT
4438364 AAGTATTGTT
Statistics
Matches: 86, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
65 29 0.34
66 16 0.19
67 26 0.30
68 15 0.17
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (65 bp):
GCTCTTCATGTTATTTTTCAATGCAACTACCATGTTGATTGTGGGTCTCAATATATGAAGCTTCG
Found at i:4442477 original size:23 final size:22
Alignment explanation
Indices: 4442428--4442478 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
4442418 GTGAAAAGAG
*
4442428 TAAAAAAAATCGAAAACTATTC
1 TAAAAAAAATCGAAAACTATGC
4442450 TAAAAAAAATCGAAAACTATGC
1 TAAAAAAAATCGAAAACTATGC
*
4442472 TCAAAAA
1 TAAAAAA
4442479 TAGAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.20
Consensus pattern (22 bp):
TAAAAAAAATCGAAAACTATGC
Found at i:4446663 original size:16 final size:16
Alignment explanation
Indices: 4446642--4446675 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4446632 AAGCTCAAAT
4446642 TTGAAAGTTATGGCAA
1 TTGAAAGTTATGGCAA
4446658 TTGAAAGTTATGGCAA
1 TTGAAAGTTATGGCAA
4446674 TT
1 TT
4446676 TCGATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (16 bp):
TTGAAAGTTATGGCAA
Found at i:4450130 original size:21 final size:21
Alignment explanation
Indices: 4450106--4450150 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4450096 TTCACATTCG
*
4450106 TTTT-TACTAATTCAATATGGT
1 TTTTCTACTAATTAAATAT-GT
*
4450127 TTTTCTACTAGTTAAATATGT
1 TTTTCTACTAATTAAATATGT
4450148 TTT
1 TTT
4450151 AGACCAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTTCTACTAATTAAATATGT
Found at i:4452354 original size:16 final size:18
Alignment explanation
Indices: 4452312--4452354 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
4452302 ACTCGATGGA
4452312 AAATATTAACTTATTTTT
1 AAATATTAACTTATTTTT
* *
4452330 ATATTTTAA-TTA-TTTT
1 AAATATTAACTTATTTTT
4452346 AAATATTAA
1 AAATATTAA
4452355 ATGGACTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATATTAACTTATTTTT
Found at i:4452798 original size:32 final size:32
Alignment explanation
Indices: 4452757--4452821 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
4452747 TTTTAATTGG
4452757 ATTATTATTAAATATAATTTAATAATAAAATA
1 ATTATTATTAAATATAATTTAATAATAAAATA
* *
4452789 ATTATTATTAAATATAATTTTATAATAATATA
1 ATTATTATTAAATATAATTTAATAATAAAATA
4452821 A
1 A
4452822 AATTTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
ATTATTATTAAATATAATTTAATAATAAAATA
Found at i:4452882 original size:21 final size:23
Alignment explanation
Indices: 4452833--4452882 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
4452823 ATTTAATAAC
* * *
4452833 ATTTTTAATATAATTATGTTTTT
1 ATTTTTAATATAATCATGTTGTA
4452856 ATTTTTAATAT-ATCAT-TTGTA
1 ATTTTTAATATAATCATGTTGTA
4452877 ATTTTT
1 ATTTTT
4452883 TTTTAAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 11 0.46
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTTTTAATATAATCATGTTGTA
Found at i:4460073 original size:7 final size:7
Alignment explanation
Indices: 4460061--4460087 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4460051 AAAATTTTGA
4460061 AAGAATC
1 AAGAATC
4460068 AAGAATC
1 AAGAATC
4460075 AAGAATC
1 AAGAATC
4460082 AAGAAT
1 AAGAAT
4460088 TAAAATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (7 bp):
AAGAATC
Found at i:4460626 original size:70 final size:69
Alignment explanation
Indices: 4460546--4460679 Score: 196
Period size: 70 Copynumber: 1.9 Consensus size: 69
4460536 TCCGAATAAG
* * *
4460546 AAAAGTCAAAACTATGCCGTTTTGATAAATATTTAACTTTTCTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTACGCCGTTTTGATAAATATTTAAATTTTCTAAAGTTAAAAG-CAAAACCATT
4460611 CAGTT
65 CAGTT
* * * *
4460616 AAAAGGCAAAACTACGTCGTTTTTATAAATGTTTAAATTTTCTAAAGTTAAAAGGAAAACCATT
1 AAAAGGCAAAACTACGCCGTTTTGATAAATATTTAAATTTTCTAAAGTTAAAAGCAAAACCATT
4460680 ATATTGTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
69 9 0.16
70 48 0.84
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (69 bp):
AAAAGGCAAAACTACGCCGTTTTGATAAATATTTAAATTTTCTAAAGTTAAAAGCAAAACCATTC
AGTT
Found at i:4462902 original size:24 final size:24
Alignment explanation
Indices: 4462874--4462925 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4462864 TTAGTAAGTC
*
4462874 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
* *
4462898 AAATATATTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
4462922 AAAT
1 AAAT
4462926 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATGCT
Found at i:4468025 original size:12 final size:12
Alignment explanation
Indices: 4467975--4468026 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
4467965 GCATTCCAAA
4467975 GATGAAAG-CTT
1 GATGAAAGACTT
4467986 GATTGAAA-ACTT
1 GA-TGAAAGACTT
* *
4467998 GATTAAAAACTT
1 GATGAAAGACTT
4468010 GATGAAAGACTT
1 GATGAAAGACTT
4468022 GATGA
1 GATGA
4468027 TTAAATGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 6 0.17
12 29 0.83
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (12 bp):
GATGAAAGACTT
Found at i:4469441 original size:9 final size:9
Alignment explanation
Indices: 4469356--4469440 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
4469346 GTAGTGATTC
*
4469356 AATTTGGTT
1 AATTCGGTT
*
4469365 AATTCGGAT
1 AATTCGGTT
*
4469374 AATTCGGGT
1 AATTCGGTT
*
4469383 AATTCAGTT
1 AATTCGGTT
4469392 AATTCGGTT
1 AATTCGGTT
*
4469401 AATTCGGGT
1 AATTCGGTT
4469410 AATTCGGTT
1 AATTCGGTT
*
4469419 AATTCAGTT
1 AATTCGGTT
*
4469428 AATTTGGTT
1 AATTCGGTT
4469437 AATT
1 AATT
4469441 TTTAACCAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 65 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4470009 original size:5 final size:5
Alignment explanation
Indices: 4469999--4470059 Score: 77
Period size: 5 Copynumber: 11.2 Consensus size: 5
4469989 GTCTACCTGC
4469999 AAAAT AAAAT AAAAT GGAAGGAAT AAAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT --AA--AAT -AAAAT AAAAT AAAAT AAAAT AAAAT
4470049 AAAAT AAAAT A
1 AAAAT AAAAT A
4470060 TGTAATTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
5 41 0.80
6 3 0.06
7 2 0.04
8 2 0.04
9 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4477817 original size:20 final size:20
Alignment explanation
Indices: 4477792--4477836 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
4477782 CCTTAAATTG
*
4477792 TTTTATGTATAAGATTATTA
1 TTTTATGTATAAAATTATTA
*
4477812 TTTTATTTATAAAATTATTA
1 TTTTATGTATAAAATTATTA
4477832 TTTTA
1 TTTTA
4477837 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATGTATAAAATTATTA
Done.