Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 151 of 276
Found at i:49170753 original size:6 final size:6
Alignment explanation
Indices: 49170736--49170773 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
49170726 CCTGATTATG
* *
49170736 ACTGTT AATGTT ACTGTT ACTATT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
49170774 CCTACGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:49176303 original size:23 final size:22
Alignment explanation
Indices: 49176277--49176349 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
49176267 GAGTTAATTC
49176277 AAGAAACAGAAAACACTGTTAGA
1 AAGAAAC-GAAAACACTGTTAGA
** * * ** *
49176300 AAGATTCGAGAACGATTGAAAGC
1 AAGAAACGAAAAC-ACTGTTAGA
49176323 AAGAAACGGAAAACACTGTTAGA
1 AAGAAAC-GAAAACACTGTTAGA
49176346 AAGA
1 AAGA
49176350 TTCGAGAATG
Statistics
Matches: 34, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
22 5 0.15
23 24 0.71
24 5 0.15
ACGTcount: A:0.52, C:0.12, G:0.22, T:0.14
Consensus pattern (22 bp):
AAGAAACGAAAACACTGTTAGA
Found at i:49176335 original size:46 final size:46
Alignment explanation
Indices: 49176276--49176369 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
49176266 AGAGTTAATT
49176276 CAAGAAACAGAAAACACTGTTAGAAAGATTCGAGAACGATTGAAAG
1 CAAGAAACAGAAAACACTGTTAGAAAGATTCGAGAACGATTGAAAG
* *
49176322 CAAGAAACGGAAAACACTGTTAGAAAGATTCGAGAATGATTGAAAG
1 CAAGAAACAGAAAACACTGTTAGAAAGATTCGAGAACGATTGAAAG
49176368 CA
1 CA
49176370 GCTTTCGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.49, C:0.13, G:0.22, T:0.16
Consensus pattern (46 bp):
CAAGAAACAGAAAACACTGTTAGAAAGATTCGAGAACGATTGAAAG
Found at i:49177263 original size:20 final size:19
Alignment explanation
Indices: 49177240--49177285 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
49177230 ATATAATAGT
49177240 TAATAATATAATAAAAGAAA
1 TAATAATATAAT-AAAGAAA
*
49177260 TAATAAAATAATAAAGAAA
1 TAATAATATAATAAAGAAA
49177279 TAA-AATA
1 TAATAATA
49177286 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
TAATAATATAATAAAGAAA
Found at i:49177294 original size:19 final size:18
Alignment explanation
Indices: 49177252--49177294 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
49177242 ATAATATAAT
* *
49177252 AAAAGAAATAATAAAATA
1 AAAAGAAATAAAAAAAGA
49177270 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAA-AAAGA
49177290 AAAAG
1 AAAAG
49177295 GAAAGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAGAAATAAAAAAAGA
Found at i:49177347 original size:12 final size:12
Alignment explanation
Indices: 49177323--49177363 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
49177313 ATAGAACAGG
49177323 GAAAGAAAG-AAA
1 GAAA-AAAGAAAA
49177335 GAAAAAAGAAAA
1 GAAAAAAGAAAA
*
49177347 G-AAAAAGAAAG
1 GAAAAAAGAAAA
49177358 GAAAAA
1 GAAAAA
49177364 TAAGGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAAGAAAA
Found at i:49195034 original size:6 final size:6
Alignment explanation
Indices: 49195023--49195111 Score: 133
Period size: 6 Copynumber: 14.8 Consensus size: 6
49195013 GGCTGTCACA
* *
49195023 GTTACT GTTACT GTTACT GTTACT ATTACT ATTACT GTTACT GTTACT
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT
* * *
49195071 GTTACT GTTACT GTTAAT GTTACT GTTACT ATTACT ATTAC
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GTTAC
49195112 CCTACGGTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.49
Consensus pattern (6 bp):
GTTACT
Found at i:49199066 original size:11 final size:11
Alignment explanation
Indices: 49199046--49199085 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
49199036 TGGTATGTAT
49199046 GTTTATGATTG
1 GTTTATGATTG
*
49199057 GTTTAGGATTG
1 GTTTATGATTG
*
49199068 GGTTATGATTG
1 GTTTATGATTG
49199079 GTTTATG
1 GTTTATG
49199086 TTATTGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (11 bp):
GTTTATGATTG
Found at i:49199483 original size:28 final size:28
Alignment explanation
Indices: 49199451--49199528 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 28
49199441 ACATCACCCT
*
49199451 CAAGGA-ATGTAATATCCTCTTCATCATC
1 CAAGGAGATGT-ACATCCTCTTCATCATC
49199479 CAAGGGGAGATGTACATCCTCTTCATCATC
1 CAA--GGAGATGTACATCCTCTTCATCATC
49199509 CAAGGAGAGATGTACATCCT
1 CAA-G-GAGATGTACATCCT
49199529 TTTCTTTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
28 3 0.07
29 2 0.04
30 36 0.80
31 4 0.09
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (28 bp):
CAAGGAGATGTACATCCTCTTCATCATC
Found at i:49199498 original size:30 final size:30
Alignment explanation
Indices: 49199464--49199528 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
49199454 GGAATGTAAT
*
49199464 ATCCTCTTCATCATCCAAGGGGAGATGTAC
1 ATCCTCTTCATCATCCAAGGAGAGATGTAC
49199494 ATCCTCTTCATCATCCAAGGAGAGATGTAC
1 ATCCTCTTCATCATCCAAGGAGAGATGTAC
49199524 ATCCT
1 ATCCT
49199529 TTTCTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (30 bp):
ATCCTCTTCATCATCCAAGGAGAGATGTAC
Found at i:49207257 original size:22 final size:21
Alignment explanation
Indices: 49207219--49207259 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49207209 CACTTGACAC
* *
49207219 AGGGGCATACGCTCGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
49207240 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
49207260 ATCAATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.24, G:0.41, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGA
Found at i:49208491 original size:47 final size:47
Alignment explanation
Indices: 49208400--49208491 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
49208390 GGGATAAGGT
* * * **
49208400 GTCGATGCCGTGTCCCAGACACGGTCTTACATTGGTTCATATCTCAA
1 GTCGAAGCCATGTCCCAGACACGGTCTTACACTGACTCATATCTCAA
*
49208447 GTCGAAGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTC
1 GTCGAAGCCATGTCCCAGACACGGTCTTACACTGACTCAT-ATCTC
49208492 GTAGCTGACG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 2 0.05
47 36 0.95
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GTCGAAGCCATGTCCCAGACACGGTCTTACACTGACTCATATCTCAA
Found at i:49208551 original size:46 final size:46
Alignment explanation
Indices: 49208455--49208665 Score: 164
Period size: 46 Copynumber: 4.5 Consensus size: 46
49208445 AAGTCGAAGC
* * * * *
49208455 CATGTCCCAGACATGGTCTTACACTGACTATCATCT-CGTA-GCTGACG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTAAG-AGGCCGATG
* *
49208502 CATGTCCTAGACATGTTTTACACTGGCTTACGTCT-AGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CGTCTAAGAGGCCGATG
* * * *
49208548 CATGTACCAGACATGTCTTACACTAGCATTCGTCTCA-ATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCGTCTAAGAGGCCGATG
* * * *
49208594 CCATATCCCAGAAATGGTCTTACACTGGC-TC-TCATAATGTGGCCGTTG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTCGTC-TAA-GAGGCCGATG
49208642 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
49208666 AGCTCACAAT
Statistics
Matches: 133, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
45 4 0.03
46 72 0.54
47 39 0.29
48 18 0.14
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCGTCTAAGAGGCCGATG
Found at i:49209933 original size:17 final size:17
Alignment explanation
Indices: 49209911--49209943 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
49209901 GATCTTCGAC
49209911 GAGCTTCCAAACTGATT
1 GAGCTTCCAAACTGATT
49209928 GAGCTTCCAAACTGAT
1 GAGCTTCCAAACTGAT
49209944 CAAAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (17 bp):
GAGCTTCCAAACTGATT
Found at i:49211771 original size:40 final size:40
Alignment explanation
Indices: 49211709--49211927 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
49211699 AAGCCAAGTA
* * * *
49211709 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
49211748 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49211788 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
49211828 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49211868 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
49211909 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49211928 TTATCATCCA
Statistics
Matches: 159, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 12 0.08
40 120 0.75
41 24 0.15
42 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49215035 original size:23 final size:23
Alignment explanation
Indices: 49214991--49215036 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49214981 AAACGGGCCA
* **
49214991 TTACAAATACAATTACTGTTATG
1 TTACAAATACAAATACAATTATG
49215014 TTACAAATACAAATACAATTATG
1 TTACAAATACAAATACAATTATG
49215037 ATTTATGGTG
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:0.13, G:0.07, T:0.35
Consensus pattern (23 bp):
TTACAAATACAAATACAATTATG
Found at i:49215162 original size:55 final size:55
Alignment explanation
Indices: 49215102--49215207 Score: 212
Period size: 55 Copynumber: 1.9 Consensus size: 55
49215092 TAATTAGTAC
49215102 TTAAACTTGAAAATGATTATGAGTTTTTTTAGGTAGCTGATTTATGTGATTTAAT
1 TTAAACTTGAAAATGATTATGAGTTTTTTTAGGTAGCTGATTTATGTGATTTAAT
49215157 TTAAACTTGAAAATGATTATGAGTTTTTTTAGGTAGCTGATTTATGTGATT
1 TTAAACTTGAAAATGATTATGAGTTTTTTTAGGTAGCTGATTTATGTGATT
49215208 AACTTTTGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (55 bp):
TTAAACTTGAAAATGATTATGAGTTTTTTTAGGTAGCTGATTTATGTGATTTAAT
Found at i:49216387 original size:89 final size:88
Alignment explanation
Indices: 49216227--49216405 Score: 304
Period size: 89 Copynumber: 2.0 Consensus size: 88
49216217 TTCTGTTTTG
*
49216227 GCAAAGCAAACACACAGGTTGCATTTTTTTCTTTATTTTGTTACTGTTCTTCTTCTACTATTGCA
1 GCAAAGAAAACACACAGGTTGCATTTTTTTCTTTATTTTGTTACTGTTCTTCTTCTACTATTGCA
*
49216292 AATTAATGGGGGATGGTGTAAAA
66 AATTAATGAGGGATGGTGTAAAA
* * *
49216315 GCAAAGAAAACACACGGGTTGCATTTTTTTCTTTATTTTTTTTACTGTTCTTCTTCTACTATTGT
1 GCAAAGAAAACACACAGGTTGCATTTTTTTCTTTA-TTTTGTTACTGTTCTTCTTCTACTATTGC
49216380 AAATTAATGAGGGATGGTGTAAAA
65 AAATTAATGAGGGATGGTGTAAAA
49216404 GC
1 GC
49216406 CGTCGTTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
88 33 0.39
89 52 0.61
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (88 bp):
GCAAAGAAAACACACAGGTTGCATTTTTTTCTTTATTTTGTTACTGTTCTTCTTCTACTATTGCA
AATTAATGAGGGATGGTGTAAAA
Found at i:49217660 original size:125 final size:126
Alignment explanation
Indices: 49217523--49218040 Score: 636
Period size: 126 Copynumber: 4.1 Consensus size: 126
49217513 AAGAAGAATT
* *
49217523 TTTTTCTACAGTAGTTCCTGAAAAATTAA-TTTGAGAAGACGGTTCT-AAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAA-ATAATGTCAAA
*
49217586 AACACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * *
49217648 TTTTTCTACAGTAGTTCTTGAAAAAATAAATTTGAGAAGACGATTTTGTAAAAATAGTGT-ACAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAATGTCA-AA
* * * * *
49217712 AACACTTTAAGCAAGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCACACGTGGACGCTC
65 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
49217774 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAAAGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAATGTCAAAA
* * * * * *
49217839 ACGCTTCAAGCAGGATTCACTGTCTA-CAAAATTGCTGAAAAAAG-TTCCACATGGACGTTC
66 ACACTTCAAGCAGGATGCACTGTC-AGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * *
49217899 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTAAAAAGACAGCTCTAAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAATGTCAAAA
* * * *
49217964 ACGCTTCAAGCAGGATAG-GCTGTCAGCAAAATTACTGAAAAAAGTTCCCACG-GAGACACTC
66 ACACTTCAAGCAGGAT-GCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTG-GACGCTC
*
49218025 TTTTTCTATAGTAGTT
1 TTTTTCTACAGTAGTT
49218041 TTTGCTTAGC
Statistics
Matches: 339, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
124 1 0.00
125 136 0.40
126 196 0.58
127 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAATGTCAAAA
ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:49218002 original size:251 final size:251
Alignment explanation
Indices: 49217523--49218040 Score: 638
Period size: 251 Copynumber: 2.1 Consensus size: 251
49217513 AAGAAGAATT
* * *
49217523 TTTTTCTACAGTAGTTCCTGAAAAATTAATTTGAGAAGACGGTTCTAAAAAGATAATGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTAAGAAGACGGTTCTAAAAAGATAAAGTCAAAAA
* *
49217588 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTT
66 CACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTTTTT
* * * * * ** *
49217653 CTACAGTAGTTCTTGAAAAAATAAATTTGAGAAGACGATTTTGTAAAAATAGTGTACAAAACACT
131 CTACAGTAGTTCTTAAAAAAATAAATTTAAAAAGACGACTCTAAAAAAATAATGTACAAAACACT
* *
49217718 TTAAGCAAGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCACACGTG-GACGCTC
196 TCAAGCAAGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCACACG-GAGACACTC
*
49217774 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAA-ATAAAGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAA-TTTAAGAAGACGGTTCT-AAAAAGATAAAGTCAAA
* * * * *
49217838 AACGCTTCAAGCAGGATTCACTGTCTA-CAAAATTGCTGAAAAAAG-TTCCACATGGACGTTCTT
64 AACACTTCAAGCAGGATGCACTGTC-AGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTT
*
49217901 TTTCTACAGTAGTT-TCTAAAAAAATAATTTTAAAAAGAC-AGCTCTAAAAAAATAATGT-CAAA
128 TTTCTACAGTAGTTCT-TAAAAAAATAAATTTAAAAAGACGA-CTCTAAAAAAATAATGTAC-AA
* * * * * * *
49217963 AACGCTTCAAGCAGGATAG-GCTGTCAGCAAAATTACTGAAAAAAGTTCCCACGGAGACACTC
190 AACACTTCAAGCAAGAT-GCACTGTCAACAAAAGTACTGAAAAAAGCTCACACGGAGACACTC
*
49218025 TTTTTCTATAGTAGTT
1 TTTTTCTACAGTAGTT
49218041 TTTGCTTAGC
Statistics
Matches: 229, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
250 4 0.02
251 153 0.67
252 66 0.29
253 6 0.03
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (251 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTAAGAAGACGGTTCTAAAAAGATAAAGTCAAAAA
CACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTTTTT
CTACAGTAGTTCTTAAAAAAATAAATTTAAAAAGACGACTCTAAAAAAATAATGTACAAAACACT
TCAAGCAAGATGCACTGTCAACAAAAGTACTGAAAAAAGCTCACACGGAGACACTC
Found at i:49222753 original size:24 final size:24
Alignment explanation
Indices: 49222703--49222756 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
49222693 GATCGAATTT
*
49222703 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
49222727 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
49222751 GCACAC
1 GCACAC
49222757 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:49227324 original size:40 final size:40
Alignment explanation
Indices: 49227240--49227423 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
49227230 TTGAATGCTG
* * * *
49227240 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
49227279 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
49227320 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
49227360 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
49227400 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49227424 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:49227377 original size:80 final size:81
Alignment explanation
Indices: 49227240--49227420 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
49227230 TTGAATGCTG
* *
49227240 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
49227304 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
49227320 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
49227381 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
49227400 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
49227421 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:49230826 original size:40 final size:40
Alignment explanation
Indices: 49230782--49230982 Score: 339
Period size: 40 Copynumber: 5.0 Consensus size: 40
49230772 AGAATTGAGA
*
49230782 GTTATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
49230822 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
49230862 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
49230902 GTTATATCCGGGCTAAGTGCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * * *
49230942 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
49230982 G
1 G
49230983 ATGTGTAATC
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 152 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:49231041 original size:43 final size:43
Alignment explanation
Indices: 49230971--49231113 Score: 187
Period size: 43 Copynumber: 3.3 Consensus size: 43
49230961 CTGAAGGGCA
* * *
49230971 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * * *
49231014 TTTGTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAACAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* *
49231057 TTCGTGCCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
**
49231100 TTAATGCCGGTGAT
1 TTCGTGCCGGTGAT
49231114 TCGAGCAAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.13, C:0.22, G:0.31, T:0.34
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
Found at i:49231271 original size:25 final size:25
Alignment explanation
Indices: 49231232--49231286 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
49231222 TGTGTAATAA
49231232 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
49231257 CGAATGAAT-TGAGGCACTATGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
49231282 CGAAT
1 CGAAT
49231287 TCTTTAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:49234870 original size:47 final size:47
Alignment explanation
Indices: 49234816--49235331 Score: 800
Period size: 47 Copynumber: 11.0 Consensus size: 47
49234806 GATTCTATGA
* * *
49234816 GATGAATGTCAACATGCATATGTGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
49234863 GATGAATGTGAACATGCAAATATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
49234910 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
49234957 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
49235004 GATGAATGTGATCATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
49235051 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
49235098 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
49235145 GATGAATGTGAACATGCAAATATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
49235192 TATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
49235239 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** * *
49235286 GATGAACGTGGAA-GTGTATATATGTGGCAAAGCCGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
49235332 CGAAATGTGT
Statistics
Matches: 438, Mismatches: 30, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
47 435 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:49242413 original size:17 final size:19
Alignment explanation
Indices: 49242383--49242421 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
49242373 GTGCGGACTA
49242383 CCCGTGTGGGCCCACA-CG
1 CCCGTGTGGGCCCACACCG
49242401 CCCGTGT-GGCCCACACCG
1 CCCGTGTGGGCCCACACCG
49242419 CCC
1 CCC
49242422 AATTAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.10, C:0.51, G:0.28, T:0.10
Consensus pattern (19 bp):
CCCGTGTGGGCCCACACCG
Found at i:49247018 original size:18 final size:18
Alignment explanation
Indices: 49246995--49247030 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49246985 AAAAAGAAAA
*
49246995 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
49247013 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
49247031 GCACTTAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:49248267 original size:21 final size:21
Alignment explanation
Indices: 49248243--49248285 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49248233 TACGAATATT
*
49248243 ATATTGTAACACCTGATCTAC
1 ATATTGTAACACCCGATCTAC
*
49248264 ATATTGTAACACCCGATTTAC
1 ATATTGTAACACCCGATCTAC
49248285 A
1 A
49248286 AACTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (21 bp):
ATATTGTAACACCCGATCTAC
Found at i:49250401 original size:29 final size:29
Alignment explanation
Indices: 49250309--49250399 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 29
49250299 TATAACAATT
* * *
49250309 TTTTACTAT-TTTTAAAATTTTTAAATAAAA
1 TTTTACAATATTTTACAATTTCT-AAT-AAA
*
49250339 TTTTACAATCTTTTACAATTTCTAATAAA
1 TTTTACAATATTTTACAATTTCTAATAAA
*
49250368 TTTTACAATATTTT-CAATTTCTAATATA
1 TTTTACAATATTTTACAATTTCTAATAAA
49250396 TTTT
1 TTTT
49250400 TAAATTTGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 17 0.31
29 16 0.29
30 11 0.20
31 11 0.20
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTACAATATTTTACAATTTCTAATAAA
Found at i:49250433 original size:14 final size:13
Alignment explanation
Indices: 49250414--49250443 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
49250404 TTTGTAAACA
49250414 ATTATATATTATTT
1 ATTATATATT-TTT
49250428 ATTATATATTTTT
1 ATTATATATTTTT
49250441 ATT
1 ATT
49250444 TTTAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATATATTTTT
Found at i:49251474 original size:74 final size:74
Alignment explanation
Indices: 49251384--49251531 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
49251374 CGTTCCTATT
*
49251384 GTACTTTTTTTTATCATGTTTAAATCTTCTTTGAACCAAAGGAAAAAAATGTAGAAATTTTTTTA
1 GTACGTTTTTTTATCATGTTTAAATCTTCTTTGAACCAAAGGAAAAAAATGTAGAAATTTTTTTA
49251449 ATTTAATTA
66 ATTTAATTA
*
49251458 GTACGTTTTTTTATCATGTTTAAATCTTCTTTGCACCAAAGGAAAAAAATGTAGAAATTTTTTTA
1 GTACGTTTTTTTATCATGTTTAAATCTTCTTTGAACCAAAGGAAAAAAATGTAGAAATTTTTTTA
49251523 ATTTAATTA
66 ATTTAATTA
49251532 ATTAATCAGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (74 bp):
GTACGTTTTTTTATCATGTTTAAATCTTCTTTGAACCAAAGGAAAAAAATGTAGAAATTTTTTTA
ATTTAATTA
Found at i:49255654 original size:42 final size:42
Alignment explanation
Indices: 49255602--49255718 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
49255592 GATATGCAAT
*
49255602 TTCGTGTAAGACCAGGTCTGGGACGTTGGCGTCGTATATGAG-
1 TTCGTGTAAGACCACGTCTGGGACGTTGGCGTCG-ATATGAGA
* * *
49255644 TTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATGTGA
1 TTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCGTCGATATGAGA
* *
49255686 TTACATGTAAGACCACGTCTGGGACATTGGCGT
1 TT-CGTGTAAGACCACGTCTGGGACGTTGGCGT
49255719 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
41 6 0.10
42 30 0.48
43 25 0.40
44 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (42 bp):
TTCGTGTAAGACCACGTCTGGGACGTTGGCGTCGATATGAGA
Found at i:49264073 original size:27 final size:28
Alignment explanation
Indices: 49263989--49264086 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
49263979 CATGAGATTG
* * * *
49263989 GCACTAAGTGTGCGGGTTTAAATTTTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
49264018 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
49264046 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49264073 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
49264087 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49264097 original size:27 final size:27
Alignment explanation
Indices: 49264017--49264099 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
49264007 TAAATTTTAC
* *
49264017 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49264045 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
49264072 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
49264099 A
1 A
49264100 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:49264100 original size:29 final size:27
Alignment explanation
Indices: 49263989--49264100 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
49263979 CATGAGATTG
** * *
49263989 GCACTAAGTGTGCGGGTTTAAATTTTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
49264018 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
49264046 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
49264073 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
49264101 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:49272052 original size:40 final size:40
Alignment explanation
Indices: 49272000--49272272 Score: 377
Period size: 40 Copynumber: 6.8 Consensus size: 40
49271990 ATTACCACAA
* * ** *
49272000 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
49272040 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
49272080 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
49272122 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
49272162 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
49272202 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
49272242 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
49272273 AAATTCAAAT
Statistics
Matches: 212, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 170 0.80
41 4 0.02
42 37 0.17
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:49272217 original size:122 final size:120
Alignment explanation
Indices: 49271999--49272272 Score: 413
Period size: 122 Copynumber: 2.3 Consensus size: 120
49271989 TATTACCACA
* ** * *
49271999 AGCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
* * *
49272064 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACT
* * * *
49272121 GGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
49272186 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
*
49272241 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATA
49272273 AAATTCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
120 31 0.23
121 4 0.03
122 101 0.74
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGC
CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:49277527 original size:42 final size:43
Alignment explanation
Indices: 49277477--49277598 Score: 133
Period size: 42 Copynumber: 2.8 Consensus size: 43
49277467 AGATTGTGAT
49277477 TTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATATGAG-
1 TTACGTGTAAGACCATGTCTGGGACAT-GGCATTGTATATGAGA
* * * *
49277520 TT-CGTGTAAGACCCTATCTGGGACAGTGGCATCG-ATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACA-TGGCATTGTATATGAGA
* * *
49277562 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TTACGTGTAAGACCATGTCTGGGAC-ATGGCATTGTA
49277599 CGAGCTTTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
41 6 0.09
42 29 0.45
43 28 0.44
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATGGCATTGTATATGAGA
Found at i:49277583 original size:43 final size:44
Alignment explanation
Indices: 49277460--49277594 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 44
49277450 TTTGGAACGT
* *
49277460 TGGCATCAGAT-TGTGATTTACGTGTAAGACCATGTCTGGGACA-
1 TGGCATC-GATATGTGAGTTACGTGTAAGACCACGTCTGGGACAG
* * *
49277503 TCGGCATTG-TATATGAGTT-CGTGTAAGACC-CTATCTGGGACAG
1 T-GGCATCGATATGTGAGTTACGTGTAAGACCAC-GTCTGGGACAG
*
49277546 TGGCATCGATATGTGA-TTACATGTAAGACCACGTCTGGGAC-G
1 TGGCATCGATATGTGAGTTACGTGTAAGACCACGTCTGGGACAG
49277588 TTGGCAT
1 -TGGCAT
49277595 TGTACGAGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
42 30 0.40
43 39 0.52
44 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (44 bp):
TGGCATCGATATGTGAGTTACGTGTAAGACCACGTCTGGGACAG
Found at i:49289001 original size:40 final size:40
Alignment explanation
Indices: 49288957--49289218 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
49288947 GCTCCTCGTT
* *
49288957 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
49288997 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49289037 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49289076 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49289115 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
49289154 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
49289195 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49289219 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:49297058 original size:23 final size:21
Alignment explanation
Indices: 49297032--49297091 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
49297022 GACATAATTT
49297032 TTAAAATATAAAAAAAATTATTA
1 TTAAAATATAAAAAAAA-TA-TA
**
49297055 TTAAAAT-TTTAAAAAATATA
1 TTAAAATATAAAAAAAATATA
*
49297075 TAAAAATAATAAAAAAA
1 TTAAAAT-ATAAAAAAA
49297092 TAAAAAATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 8 0.27
21 2 0.07
22 13 0.43
23 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TTAAAATATAAAAAAAATATA
Found at i:49297080 original size:20 final size:20
Alignment explanation
Indices: 49297033--49297099 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
49297023 ACATAATTTT
49297033 TAAAATATAA-AAAAAATTATTA
1 TAAAA-ATAATAAAAAA-TA-TA
* **
49297055 TTAAAATTTTAAAAAATATA
1 TAAAAATAATAAAAAATATA
49297075 TAAAAATAATAAAAAA-ATA
1 TAAAAATAATAAAAAATATA
49297094 -AAAAAT
1 TAAAAAT
49297100 GGTGGTTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.16
19 3 0.08
20 15 0.39
21 4 0.11
22 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATAATAAAAAATATA
Found at i:49300546 original size:13 final size:13
Alignment explanation
Indices: 49300528--49300571 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
49300518 ATCGAAAAAA
49300528 GAAAAAATAAAGT
1 GAAAAAATAAAGT
**
49300541 G-AAAAA-AATTT
1 GAAAAAATAAAGT
49300552 GAAAAAATAAAGT
1 GAAAAAATAAAGT
49300565 GAAAAAA
1 GAAAAAA
49300572 AATTCGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 4 0.16
12 10 0.40
13 11 0.44
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (13 bp):
GAAAAAATAAAGT
Found at i:49300560 original size:24 final size:25
Alignment explanation
Indices: 49300528--49300583 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
49300518 ATCGAAAAAA
*
49300528 GAAAAAATAAAGTG-AAAAAAATTT
1 GAAAAAATAAAGTGAAAAAAAATTC
49300552 GAAAAAATAAAGTGAAAAAAAATTC
1 GAAAAAATAAAGTGAAAAAAAATTC
49300577 GAAAAAA
1 GAAAAAA
49300584 AAACGACAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 14 0.47
25 16 0.53
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (25 bp):
GAAAAAATAAAGTGAAAAAAAATTC
Found at i:49300582 original size:13 final size:12
Alignment explanation
Indices: 49300528--49300586 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
49300518 ATCGAAAAAA
*
49300528 GAAAAAATAAAGT
1 GAAAAAA-AAATT
*
49300541 G-AAAAAAATTT
1 GAAAAAAAAATT
*
49300552 GAAAAAATAAAGT
1 GAAAAAA-AAATT
49300565 G-AAAAAAAATT
1 GAAAAAAAAATT
49300576 CGAAAAAAAAA
1 -GAAAAAAAAA
49300587 CGACAACAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
11 8 0.22
12 16 0.43
13 13 0.35
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:49302400 original size:40 final size:40
Alignment explanation
Indices: 49302335--49302586 Score: 303
Period size: 40 Copynumber: 6.3 Consensus size: 40
49302325 TCTTCGGAAT
* * * *
49302335 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTC
* * *
49302374 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTC
* *
49302414 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTC
* * *
49302454 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATAGCAACTAGCACAAATGCCTTCGGGTC
* *
49302494 TTAACCCGGGTATAGCAACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTC
* * * *
49302534 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATAGCAACTAGCACAAATGCCTTCGGGTC
49302574 TTAGCCCGGATAT
1 TTAGCCCGGATAT
49302587 CATTCAAATG
Statistics
Matches: 184, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
39 7 0.04
40 170 0.92
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTC
Found at i:49302439 original size:80 final size:80
Alignment explanation
Indices: 49302335--49302586 Score: 337
Period size: 80 Copynumber: 3.2 Consensus size: 80
49302325 TCTTCGGAAT
* * * * * * * * *
49302335 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCA
49302398 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* *
49302414 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
*
49302479 AATTGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * *
49302494 TTAACCCGGGTATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
*
49302559 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGTC
49302574 TTAGCCCGGATAT
1 TTAGCCCGGATAT
49302587 CATTCAAATG
Statistics
Matches: 151, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 4 0.03
80 144 0.95
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
AAATGCCTTCGGGTC
Found at i:49302563 original size:120 final size:120
Alignment explanation
Indices: 49302326--49302585 Score: 407
Period size: 120 Copynumber: 2.2 Consensus size: 120
49302316 ACCCAAGTTT
* * *
49302326 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
* * *
49302390 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
* * *
49302445 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
*
49302510 AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGC
66 AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAATGC
49302565 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
49302586 TCATTCAAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
119 10 0.08
120 114 0.89
121 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
AACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
Found at i:49311301 original size:43 final size:43
Alignment explanation
Indices: 49311254--49311366 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 43
49311244 CCACGATTGA
* ** *
49311254 GATTTACATATAAGACCATGTCTGGGACATTGGCATC-GTATCT
1 GATTTACATGTAAGACCATGTCTGGGACAGAGGCATCAATAT-T
* * *
49311297 GATTT-CGTGTAAGACCCTGTCTGGGATAGAGGCATCAATATT
1 GATTTACATGTAAGACCATGTCTGGGACAGAGGCATCAATATT
* * *
49311339 GAATTACATGTAAGACCACGTCCGGGAC
1 GATTTACATGTAAGACCATGTCTGGGAC
49311367 GTCAGCATTG
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 30 0.55
43 25 0.45
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTCTGGGACAGAGGCATCAATATT
Found at i:49314275 original size:103 final size:103
Alignment explanation
Indices: 49314096--49314300 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 103
49314086 CATGCTTGAG
49314096 ATGGTGAAAAAGGGTTAAATCCTGATTGAATATTGGATTCAGATGATTATATATGCTTTCCCGAA
1 ATGGTGAAAAAGGGTTAAATCCTGATTGAATATTGGATTCAGATGATTATATATGCTTTCCCGAA
49314161 ACGAATAAGGTCCTGCATTTATTGCGGACGGGATTTAA
66 ACGAATAAGGTCCTGCATTTATTGCGGACGGGATTTAA
*
49314199 ATGGTGAAAAAGGGTTAAATCCTGATTGAATATTGGATTTAGATGATTATATATGCTTTCCCGAA
1 ATGGTGAAAAAGGGTTAAATCCTGATTGAATATTGGATTCAGATGATTATATATGCTTTCCCGAA
49314264 ACGAATAAGGTCCTGCATTTATTGCGGACGGGATTTA
66 ACGAATAAGGTCCTGCATTTATTGCGGACGGGATTTA
49314301 GCTCGGACAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (103 bp):
ATGGTGAAAAAGGGTTAAATCCTGATTGAATATTGGATTCAGATGATTATATATGCTTTCCCGAA
ACGAATAAGGTCCTGCATTTATTGCGGACGGGATTTAA
Found at i:49314563 original size:122 final size:122
Alignment explanation
Indices: 49314425--49314668 Score: 479
Period size: 122 Copynumber: 2.0 Consensus size: 122
49314415 AATCCTAATT
*
49314425 GAGCTCTTCTGAGCATACATTATATAAAGGATTTAGCTTGGACTGGTAATCCTGTTATATGATAT
1 GAGCTCTTCTGAGCATACATTATATAAAGGATTTAGCTTGGACTGGTAATCCTGTTATACGATAT
49314490 GTGGCTCGAGAGTGTGTTCCTTGATTAAGTGCCCTAAAGGATACCCTTGAATAAGAA
66 GTGGCTCGAGAGTGTGTTCCTTGATTAAGTGCCCTAAAGGATACCCTTGAATAAGAA
49314547 GAGCTCTTCTGAGCATACATTATATAAAGGATTTAGCTTGGACTGGTAATCCTGTTATACGATAT
1 GAGCTCTTCTGAGCATACATTATATAAAGGATTTAGCTTGGACTGGTAATCCTGTTATACGATAT
49314612 GTGGCTCGAGAGTGTGTTCCTTGATTAAGTGCCCTAAAGGATACCCTTGAATAAGAA
66 GTGGCTCGAGAGTGTGTTCCTTGATTAAGTGCCCTAAAGGATACCCTTGAATAAGAA
49314669 TTGACGGATT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (122 bp):
GAGCTCTTCTGAGCATACATTATATAAAGGATTTAGCTTGGACTGGTAATCCTGTTATACGATAT
GTGGCTCGAGAGTGTGTTCCTTGATTAAGTGCCCTAAAGGATACCCTTGAATAAGAA
Found at i:49325302 original size:40 final size:40
Alignment explanation
Indices: 49325257--49325408 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
49325247 ATAACCACAA
* *
49325257 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
49325297 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
49325337 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* *
49325377 GCACAATTGCCTTCGGGACTTAACCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
49325409 CATTCAAATG
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.96
41 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:49337614 original size:48 final size:48
Alignment explanation
Indices: 49337559--49337689 Score: 208
Period size: 48 Copynumber: 2.7 Consensus size: 48
49337549 CTCAATCGAT
*
49337559 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGAAACTTATCCCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGAAACTCATCCCCG
* * *
49337607 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGAAACTCATCCCCG
* *
49337655 AAATACCTATACCTTGGCCCGAAGCCAAATCAAGG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGG
49337690 TATAATTCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.18
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGAAACTCATCCCCG
Found at i:49344557 original size:29 final size:29
Alignment explanation
Indices: 49344524--49344587 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
49344514 ACACGGCCTT
*
49344524 GGCACACTGGCATATGTGGCCAATCCTAG
1 GGCACACGGGCATATGTGGCCAATCCTAG
** *
49344553 GGCACACGGGGGTGTGTGGCCAATCCTAG
1 GGCACACGGGCATATGTGGCCAATCCTAG
49344582 GGCACA
1 GGCACA
49344588 TGGGTTAGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.34, T:0.17
Consensus pattern (29 bp):
GGCACACGGGCATATGTGGCCAATCCTAG
Found at i:49346846 original size:13 final size:13
Alignment explanation
Indices: 49346830--49346887 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
49346820 TTTAAATTTT
49346830 CATTTCATATATC
1 CATTTCATATATC
49346843 CATTTCATATATC
1 CATTTCATATATC
** * *
49346856 CATTTTGTAGAAC
1 CATTTCATATATC
49346869 CATTTCATATATC
1 CATTTCATATATC
49346882 CATTTC
1 CATTTC
49346888 CACCCAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.45
Consensus pattern (13 bp):
CATTTCATATATC
Found at i:49346986 original size:24 final size:25
Alignment explanation
Indices: 49346931--49346998 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
49346921 ACGCGGGAAC
*
49346931 AATGTTCACACAAGCTGTGACGATA
1 AATGCTCACACAAGCTGTGACGATA
*
49346956 AATGCTCACACAAGCTGTGATG-TA
1 AATGCTCACACAAGCTGTGACGATA
**
49346980 AATGCTCACATGAGCTGTG
1 AATGCTCACACAAGCTGTG
49346999 GGTCAAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTGACGATA
Found at i:49359530 original size:37 final size:37
Alignment explanation
Indices: 49359471--49359577 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
49359461 AGCTCAGACG
* *
49359471 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
49359508 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
49359545 TAATCTCCACACGTAGTCATCGGGTCATACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
49359578 TAATATATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49359854 original size:50 final size:48
Alignment explanation
Indices: 49359728--49359910 Score: 296
Period size: 48 Copynumber: 3.8 Consensus size: 48
49359718 ACATCGCCTC
49359728 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
49359776 CATATTTCACACTAGCCATTCGGTTTTACCACATATACATATCTCATATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATA
* *
49359826 TATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATA
*
49359874 CATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATA
49359911 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
48 79 0.63
49 4 0.03
50 42 0.34
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
Found at i:49359879 original size:98 final size:98
Alignment explanation
Indices: 49359729--49359910 Score: 321
Period size: 98 Copynumber: 1.9 Consensus size: 98
49359719 CATCGCCTCC
49359729 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
*
49359794 TTCGGTTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
49359827 ATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCC
49359891 ATTCGGCTTTACCACATATA
65 ATTCGGCTTTACCACATATA
49359911 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
97 2 0.03
98 78 0.98
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (98 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:49359959 original size:47 final size:47
Alignment explanation
Indices: 49359880--49360120 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
49359870 CATACATATT
* * * *
49359880 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
49359927 TCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
49359974 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49360021 TCACATTGGCCATTCGGCCTTATTACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
49360068 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
49360115 TCACAT
1 TCACAT
49360121 AAAATCCTAA
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 178 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:49364099 original size:29 final size:29
Alignment explanation
Indices: 49364052--49364324 Score: 462
Period size: 29 Copynumber: 9.5 Consensus size: 29
49364042 CATGAGATTG
* * * *
49364052 GCACTAAGTGTGCGGGTTTAAAT-TGCATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA-A
*
49364081 GCACTAAGTGTGCAAGTTTGATTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364109 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364138 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364167 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364196 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364225 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364254 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
*
49364283 GCACTAAGTGTGCGAGTTTGATTATATAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAA
49364312 -CACTAAGTGTGCG
1 GCACTAAGTGTGCG
49364325 GACTTACTAT
Statistics
Matches: 235, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
28 38 0.16
29 196 0.83
30 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAA
Found at i:49378839 original size:47 final size:48
Alignment explanation
Indices: 49378749--49378875 Score: 184
Period size: 47 Copynumber: 2.6 Consensus size: 48
49378739 ACTTTTAAAA
49378749 CTATTTCCTTTTTTTTCTTTCTTTTTCCTAATGGGTGACGTTTCTTCTTCC
1 CTATTTCCTTTTTTTTCTTTCTTTTTCCTAA---GTGACGTTTCTTCTTCC
* *
49378800 CTATTTCTTTTTTTTTCTTTCTTTTTCCTAA-TGATGTTTCTTCTTCC
1 CTATTTCCTTTTTTTTCTTTCTTTTTCCTAAGTGACGTTTCTTCTTCC
* *
49378847 CTATTTCCCTTTTTTTATTTCTTTTTCCT
1 CTATTTCCTTTTTTTTCTTTCTTTTTCCT
49378876 GCTGNTTTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
47 41 0.58
51 30 0.42
ACGTcount: A:0.08, C:0.23, G:0.06, T:0.64
Consensus pattern (48 bp):
CTATTTCCTTTTTTTTCTTTCTTTTTCCTAAGTGACGTTTCTTCTTCC
Found at i:49378992 original size:44 final size:45
Alignment explanation
Indices: 49378881--49379013 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 45
49378871 TTCCTGCTGN
** *
49378881 TTTTCCCTGATGACACTTAATTCTTCACAATTTCCTTTTTCTTCTTTC
1 TTTTCCCTGATGAC-CTTTCTTCTTCCCAATTTCC-TTTTC-TCTTTC
* **
49378929 TTTT-CCTGCTGATGTTTCTTCTTCCCAATTTCCTTTTCTCTTGT-
1 TTTTCCCTGATGACCTTTCTTCTTCCCAATTTCCTTTTCTCTT-TC
*
49378973 TTTTCCCTG-TGACCTTTCTTTTTCCCAATTTCCTTTTCTCT
1 TTTTCCCTGATGACCTTTCTTCTTCCCAATTTCCTTTTCTCT
49379014 GCTAAACATG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
44 37 0.50
45 10 0.14
46 16 0.22
47 7 0.09
48 4 0.05
ACGTcount: A:0.11, C:0.29, G:0.06, T:0.55
Consensus pattern (45 bp):
TTTTCCCTGATGACCTTTCTTCTTCCCAATTTCCTTTTCTCTTTC
Found at i:49379932 original size:12 final size:12
Alignment explanation
Indices: 49379917--49379941 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49379907 AAATAAACTA
49379917 AAAAATTAAATC
1 AAAAATTAAATC
49379929 AAAAATTAAATC
1 AAAAATTAAATC
49379941 A
1 A
49379942 TGATTCAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTAAATC
Found at i:49382038 original size:2 final size:2
Alignment explanation
Indices: 49382031--49382086 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
49382021 AAAGGGGAAA
49382031 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
*
49382073 AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG
49382087 GAAAGGAATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49384536 original size:26 final size:26
Alignment explanation
Indices: 49384500--49384552 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
49384490 ATTTAGAAAA
49384500 AAATGTAAATTTTCTAGGTTTTCGAT
1 AAATGTAAATTTTCTAGGTTTTCGAT
49384526 AAATGTAAATTTTCTAGGTTTTCGAT
1 AAATGTAAATTTTCTAGGTTTTCGAT
49384552 A
1 A
49384553 TTTCTAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (26 bp):
AAATGTAAATTTTCTAGGTTTTCGAT
Found at i:49387169 original size:20 final size:20
Alignment explanation
Indices: 49387144--49387184 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
49387134 ACTAAGTGTG
49387144 CGGGTTTAAATTGCATAGCA
1 CGGGTTTAAATTGCATAGCA
49387164 CGGGTTTAAATTGCATAGCA
1 CGGGTTTAAATTGCATAGCA
49387184 C
1 C
49387185 TAAGTGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
CGGGTTTAAATTGCATAGCA
Found at i:49387251 original size:63 final size:63
Alignment explanation
Indices: 49387152--49387528 Score: 754
Period size: 63 Copynumber: 6.0 Consensus size: 63
49387142 TGCGGGTTTA
49387152 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
1 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
49387215 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
1 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
49387278 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
1 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
49387341 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
1 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
49387404 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
1 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
49387467 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACT
1 AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACT
49387529 AAGTGTGCGA
Statistics
Matches: 314, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 314 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (63 bp):
AATTGCATAGCACGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATAGCACTT
Found at i:49387565 original size:29 final size:29
Alignment explanation
Indices: 49387495--49387594 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
49387485 TAAATTGCAT
*
49387495 AGCACTAAGTGTGCAAGTTTGATTATAT-
1 AGCACTAAGTGTGCGAGTTTGATTATATA
*
49387523 AGCACTAAGTGTGCGAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATATA
49387552 AGCACTAAGTGTGCGAGTTTGATTATATA
1 AGCACTAAGTGTGCGAGTTTGATTATATA
49387581 A-CACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49387595 GACTTACTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 39 0.57
29 29 0.43
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49388124 original size:52 final size:52
Alignment explanation
Indices: 49388046--49388150 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
49388036 TATATACTCA
*
49388046 TTCGGTGTTTGCTTGTCGCCTACTTTAGGTTTCTTGGACTCGTCTTTTTGCG
1 TTCGGTGTTTGCTTGTCACCTACTTTAGGTTTCTTGGACTCGTCTTTTTGCG
49388098 TTCGGTGTTTGCTTGTCACCTACTTTAGGTTTCTTGGACTCGTCTTTTTGCG
1 TTCGGTGTTTGCTTGTCACCTACTTTAGGTTTCTTGGACTCGTCTTTTTGCG
49388150 T
1 T
49388151 GCTTGGGACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.07, C:0.21, G:0.24, T:0.49
Consensus pattern (52 bp):
TTCGGTGTTTGCTTGTCACCTACTTTAGGTTTCTTGGACTCGTCTTTTTGCG
Found at i:49394265 original size:23 final size:22
Alignment explanation
Indices: 49394223--49394271 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
49394213 TGCTGCTGAA
*
49394223 TTTAAGGATGTATAATGCTCCC
1 TTTAAGGATGTATAAAGCTCCC
*
49394245 TTTAATGGATG-ATAACAGCTCCT
1 TTTAA-GGATGTATAA-AGCTCCC
49394268 TTTA
1 TTTA
49394272 CTGAAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (22 bp):
TTTAAGGATGTATAAAGCTCCC
Found at i:49402713 original size:27 final size:27
Alignment explanation
Indices: 49402676--49402884 Score: 310
Period size: 28 Copynumber: 7.6 Consensus size: 27
49402666 TAAATTGTGC
* *
49402676 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
49402703 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
49402731 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
49402758 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
49402786 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
49402813 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
49402841 AGCACTAAGTGTGCGAGTTGATTATATAT
1 AGCACTAAGTGTGCGAGTTGA--CTATGT
*
49402870 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49402885 GACTATATAT
Statistics
Matches: 169, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
27 73 0.43
28 78 0.46
29 18 0.11
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:49402741 original size:55 final size:55
Alignment explanation
Indices: 49402676--49402884 Score: 337
Period size: 55 Copynumber: 3.8 Consensus size: 55
49402666 TAAATTGTGC
* * *
49402676 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGATTATGT
*
49402731 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGATTATGT
*
49402786 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGATTATGT
* *
49402841 AGCACTAAGTGTGCGAGTTGATTATATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGA--ATATGTAGCACTAAGTGTGCG
49402885 GACTATATAT
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
55 127 0.88
57 18 0.12
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGATTATGT
Found at i:49410966 original size:28 final size:28
Alignment explanation
Indices: 49410909--49411088 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
49410899 TAAATTGTGC
*
49410909 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
49410936 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
49410964 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
49410992 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
49411019 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
49411047 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
49411074 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49411089 GACTTAATAT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:49410973 original size:55 final size:55
Alignment explanation
Indices: 49410909--49411088 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
49410899 TAAATTGTGC
*
49410909 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
49410964 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * *
49411019 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
49411074 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49411089 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:49411048 original size:83 final size:82
Alignment explanation
Indices: 49410909--49411088 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
49410899 TAAATTGTGC
49410909 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
49410974 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
49410992 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
49411057 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
49411074 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49411089 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 22 0.24
83 70 0.76
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:49414273 original size:25 final size:25
Alignment explanation
Indices: 49414231--49414279 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49414221 CTTTATTATT
* *
49414231 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
49414256 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
49414280 GGTTCTCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:49417631 original size:27 final size:28
Alignment explanation
Indices: 49417595--49417648 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
49417585 TCCAAATTCA
*
49417595 CACTTTAATTA-TAAAATAATTAATTTG
1 CACTTAAATTATTAAAATAATTAATTTG
* *
49417622 CACTTAAATTATTAACATATTTAATTT
1 CACTTAAATTATTAAAATAATTAATTT
49417649 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (28 bp):
CACTTAAATTATTAAAATAATTAATTTG
Found at i:49422785 original size:42 final size:43
Alignment explanation
Indices: 49422680--49422787 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 43
49422670 CAGAAAGTAT
* * * * *
49422680 ATACAATGCCGACGTCCCAAAC-GTGGTCTTACATGTAGTCAA
1 ATACGATGCCGATGTCCCAAACAGTGGTCTTACAAGAAATCAA
* *
49422722 ACATCGATGCC-ACTGTCCCAAACAG-GGTCTTACAAGAAATCAG
1 ATA-CGATGCCGA-TGTCCCAAACAGTGGTCTTACAAGAAATCAA
49422765 ATACGATGCCGATGTCCCAAACA
1 ATACGATGCCGATGTCCCAAACA
49422788 TTATCTTACA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
42 21 0.39
43 32 0.59
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (43 bp):
ATACGATGCCGATGTCCCAAACAGTGGTCTTACAAGAAATCAA
Found at i:49425293 original size:28 final size:27
Alignment explanation
Indices: 49425238--49425321 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
49425228 AGCATGGCTG
* *
49425238 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
49425264 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
49425292 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
49425319 CCA
1 CCA
49425322 AGACGCTTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.10
27 30 0.58
28 17 0.33
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:49426450 original size:177 final size:177
Alignment explanation
Indices: 49426145--49426498 Score: 611
Period size: 177 Copynumber: 2.0 Consensus size: 177
49426135 ATAGACTAAG
*
49426145 TTGGAAAGACTTACCACCGATTCTTCCAGTCAACTTTCCCCCTTAGTTCCTACTTGATTCTGATG
1 TTGGAAAGACTTACCACCGATTCTTCCAGTCAACTTTCCCCCTTAGTTCCTACTTGATTCTAATG
* * *
49426210 CAGTTCTAAGCCCTCAAATGATAACAAAATTCGAGCCCTCAGTGATCTCAGTATTCAGCTATGTC
66 CAGTTCTAAGCCCTCAAACGATAACAAAAGTCGAGCCCTCAGTGATCTCAATATTCAGCTATGTC
*
49426275 CCTAGGATAGTGTAGGAGTTTCGACTTTTTGCAAAAGTGTGGAGAAA
131 CCTAGGATAGTGTAGGAGTTTCGACTTTTTGCAAAAGTGTAGAGAAA
*
49426322 TTGGAAAGACTTACCACCGATTCTTCCAGTCAA-TGTTCTCCCTTAGTTCCTACTTGATTCTAAT
1 TTGGAAAGACTTACCACCGATTCTTCCAGTCAACT-TTCCCCCTTAGTTCCTACTTGATTCTAAT
*
49426386 GCAGTTCTAAGCCCTCAAACGATAACAAAAGTCGAGCCCTCAGTGATCTCAATATTCGGCTATGT
65 GCAGTTCTAAGCCCTCAAACGATAACAAAAGTCGAGCCCTCAGTGATCTCAATATTCAGCTATGT
* *
49426451 CCCTAGGATAGTGTGGGAGTTTCGCCTTTTTGCAAAAGTGTAGAGAAA
130 CCCTAGGATAGTGTAGGAGTTTCGACTTTTTGCAAAAGTGTAGAGAAA
49426499 GATAAAATTT
Statistics
Matches: 167, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 1 0.01
177 166 0.99
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
TTGGAAAGACTTACCACCGATTCTTCCAGTCAACTTTCCCCCTTAGTTCCTACTTGATTCTAATG
CAGTTCTAAGCCCTCAAACGATAACAAAAGTCGAGCCCTCAGTGATCTCAATATTCAGCTATGTC
CCTAGGATAGTGTAGGAGTTTCGACTTTTTGCAAAAGTGTAGAGAAA
Found at i:49426943 original size:24 final size:24
Alignment explanation
Indices: 49426916--49426986 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
49426906 CTAGATTTCC
**
49426916 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
49426940 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
49426964 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
49426987 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:49431228 original size:21 final size:21
Alignment explanation
Indices: 49431190--49431229 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49431180 AGAGCACCAA
*
49431190 GAGTCAAAAGGAGCCAAAAAC
1 GAGTCAAAAGGAGACAAAAAC
49431211 GAGTCAAAAAGG-GACAAAA
1 GAGTC-AAAAGGAGACAAAA
49431230 CAGACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.15, G:0.25, T:0.05
Consensus pattern (21 bp):
GAGTCAAAAGGAGACAAAAAC
Found at i:49432878 original size:40 final size:40
Alignment explanation
Indices: 49432841--49433024 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
49432831 GCTACTCGTT
*
49432841 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
49432881 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
49432921 CCAATGCCTTCGGG-CTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
49432960 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
49433001 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49433025 ACATCATTCG
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 73 0.62
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49433009 original size:79 final size:80
Alignment explanation
Indices: 49432841--49433022 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 80
49432831 GCTACTCGTT
* **
49432841 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACTCG
* * *
49432905 GATTTAGTAACTCGCAC
64 AATATAGTAACTAGCAC
* *
49432922 CAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
* *
49432984 AATATGGTCACTTAGCA-
64 AATATAGTAAC-TAGCAC
49433001 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
49433023 GGACATCATT
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
78 5 0.06
79 54 0.64
80 23 0.27
81 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGAA
TATAGTAACTAGCAC
Found at i:49440647 original size:38 final size:38
Alignment explanation
Indices: 49440593--49440668 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
49440583 GGTAGAAAAC
49440593 GAAAATATGTTAAATTGCATGTTAAGACTATTAATACT
1 GAAAATATGTTAAATTGCATGTTAAGACTATTAATACT
* *
49440631 GAAAATATGTTCAATTGCATGTTAAGACTGTTAATACT
1 GAAAATATGTTAAATTGCATGTTAAGACTATTAATACT
49440669 ATTATGGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.37
Consensus pattern (38 bp):
GAAAATATGTTAAATTGCATGTTAAGACTATTAATACT
Found at i:49440973 original size:20 final size:20
Alignment explanation
Indices: 49440948--49440990 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
49440938 ATTTTGATAA
49440948 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49440968 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49440988 ACA
1 ACA
49440991 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49440998 original size:20 final size:20
Alignment explanation
Indices: 49440955--49440998 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
49440945 TAAACATGAT
* *
49440955 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
49440975 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
49440995 ATGT
1 ATGT
49440999 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:49441182 original size:25 final size:24
Alignment explanation
Indices: 49441043--49441186 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
49441033 GAGGAAGTGC
*
49441043 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49441067 AAATGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49441091 AAAAGGGCTTATGACCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49441115 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49441138 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
49441163 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49441187 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
23 28 0.26
24 50 0.46
25 21 0.19
26 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49441414 original size:31 final size:31
Alignment explanation
Indices: 49441379--49441442 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49441369 CGTTTACCGT
49441379 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
49441410 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49441441 AA
1 AA
49441443 TATGAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49448994 original size:25 final size:25
Alignment explanation
Indices: 49448965--49449012 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49448955 TTATAATATG
* *
49448965 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
49448990 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49449013 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:49449119 original size:20 final size:20
Alignment explanation
Indices: 49449056--49449111 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
49449046 TAAACTTGAT
*
49449056 ATGTATGATATGCAGATGAC
1 ATGTATGATATGCACATGAC
*
49449076 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
49449096 ATGTATGATATGCACA
1 ATGTATGATATGCACA
49449112 CGAGATGTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:49449331 original size:25 final size:24
Alignment explanation
Indices: 49449164--49449317 Score: 231
Period size: 24 Copynumber: 6.4 Consensus size: 24
49449154 GAGGAAGTGC
*
49449164 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49449188 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49449212 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49449236 AAAAGGTCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49449260 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49449283 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
49449308 AAAAGAGGCT
1 AAAAG-GGCT
49449318 AGACCTCCAG
Statistics
Matches: 119, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
23 27 0.23
24 70 0.59
25 13 0.11
26 9 0.08
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49452558 original size:29 final size:28
Alignment explanation
Indices: 49452498--49452582 Score: 134
Period size: 28 Copynumber: 3.0 Consensus size: 28
49452488 ACATATCTGA
* * *
49452498 ATATGGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCACTTTT
49452526 ATATGGCCCATTAGGCCCAAATCACTTTT
1 ATATGGCCCATTAGGCCC-AATCACTTTT
49452555 ATATGGCCCATTAGGCCCAATCACTTTT
1 ATATGGCCCATTAGGCCCAATCACTTTT
49452583 GCTGTCATGC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
28 27 0.51
29 26 0.49
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACTTTT
Found at i:49456173 original size:43 final size:42
Alignment explanation
Indices: 49456015--49456178 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 42
49456005 AATTCCAACA
** * * * * *
49456015 TCCCAGATATGGTCTTACATGTAATCACATGTCGATGCCACTG
1 TCCCAGACGTGGTCTTACACG-AAACACATATCGATGCTAATG
* *
49456058 TCCCAGACAG-GGTCTTACACGAATCACA-ATTACGATG-TCGATG
1 TCCCAGAC-GTGGTCTTACACGAAACACATA-T-CGATGCT-AATG
* * *
49456101 TCCCAGACATGATCTTACTCGAAATCACATATCGATGCTAATG
1 TCCCAGACGTGGTCTTACACGAAA-CACATATCGATGCTAATG
49456144 TCCCAGACGTGGTCTTACACGAGAACACATATCGA
1 TCCCAGACGTGGTCTTACACGA-AACACATATCGA
49456179 AAATCCTATG
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
42 8 0.08
43 80 0.82
44 8 0.08
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAAACACATATCGATGCTAATG
Found at i:49457863 original size:14 final size:15
Alignment explanation
Indices: 49457836--49457864 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49457826 TGATTTGTAG
49457836 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
49457851 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
49457865 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:49461167 original size:18 final size:18
Alignment explanation
Indices: 49461116--49461169 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
49461106 CACATTGAAG
**
49461116 TGTTTT-ATTGAAAACAT
1 TGTTTTCATTGAAAACCC
49461133 TGTTTTCATTGAAAACCC
1 TGTTTTCATTGAAAACCC
49461151 TGTTTTCATTGAAAACCC
1 TGTTTTCATTGAAAACCC
49461169 T
1 T
49461170 TCTTTAAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 6 0.18
18 28 0.82
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCC
Found at i:49462423 original size:28 final size:28
Alignment explanation
Indices: 49462389--49462450 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
49462379 CCCAATCTTT
*
49462389 TTCATATGG-CCATTAGGCCCATATCACA
1 TTCATATGGCCCATTAAGCCCA-ATCACA
49462417 TTCATATGGCCCATTAAGCCCAATCACA
1 TTCATATGGCCCATTAAGCCCAATCACA
49462445 TTCATA
1 TTCATA
49462451 GTCATGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
TTCATATGGCCCATTAAGCCCAATCACA
Found at i:49463519 original size:23 final size:22
Alignment explanation
Indices: 49463489--49463541 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
49463479 TGGCCATTTA
*
49463489 TTGAGCAAAAATAAATCCTTCTT
1 TTGAGCAAAAA-AAATCCTTATT
** *
49463512 TTGAGCAAGGAGAATCCTTATT
1 TTGAGCAAAAAAAATCCTTATT
49463534 TTGAGCAA
1 TTGAGCAA
49463542 GAGGTACTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (22 bp):
TTGAGCAAAAAAAATCCTTATT
Found at i:49463964 original size:17 final size:17
Alignment explanation
Indices: 49463942--49463975 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49463932 TCCACTGTGC
49463942 ACTCTTCCCAAACTAAG
1 ACTCTTCCCAAACTAAG
*
49463959 ACTCTTTCCAAACTAAG
1 ACTCTTCCCAAACTAAG
49463976 TAAATAGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (17 bp):
ACTCTTCCCAAACTAAG
Found at i:49465682 original size:17 final size:18
Alignment explanation
Indices: 49465660--49465695 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49465650 CACATTGAAA
49465660 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
49465677 TGTTTTCATTGAAAACCT
1 TGTTTTCATCGAAAACCT
49465695 T
1 T
49465696 TCTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:49466847 original size:29 final size:28
Alignment explanation
Indices: 49466781--49466869 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 28
49466771 AAGTCTACAT
* *
49466781 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
49466809 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
49466838 ACATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
49466866 ACAT
1 ACAT
49466870 CCACAGTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 28 0.52
29 26 0.48
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:49467114 original size:16 final size:16
Alignment explanation
Indices: 49467093--49467123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49467083 AAACTTCCAG
*
49467093 CTTTTCTGCATTTTGA
1 CTTTTCGGCATTTTGA
49467109 CTTTTCGGCATTTTG
1 CTTTTCGGCATTTTG
49467124 GGATTTGCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.19, G:0.16, T:0.55
Consensus pattern (16 bp):
CTTTTCGGCATTTTGA
Found at i:49467405 original size:20 final size:21
Alignment explanation
Indices: 49467377--49467415 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
49467367 ACTAAACAAA
*
49467377 AAGTGACTCGT-AATCATCTT
1 AAGTCACTCGTAAATCATCTT
*
49467397 AAGTCACTCTTAAATCATC
1 AAGTCACTCGTAAATCATC
49467416 CATGACCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTCACTCGTAAATCATCTT
Found at i:49483819 original size:47 final size:47
Alignment explanation
Indices: 49483747--49484868 Score: 1535
Period size: 47 Copynumber: 23.6 Consensus size: 47
49483737 CCCTTCGGGA
* * *
49483747 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49483794 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49483841 CTTATCACATATATATAAACT-TTCATATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49483890 CTTATCACATATATATAAACT-TTCATATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
49483939 CTTATCACACATACACATGTTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49483986 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484033 CTTATCACATATATATAAACT-TTCATATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
49484082 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49484129 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484176 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484223 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484270 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484317 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484364 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484411 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484458 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484505 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484552 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
49484599 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49484646 CTTATCACATATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49484695 CTTATCACATATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49484744 CTTATCACATATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49484793 CTTATCACATATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
49484842 CTTATCACATATATACACT-TTCACATT
1 CTTATCACATATATACA-TGTTCACATT
49484869 TATTCAAATA
Statistics
Matches: 1027, Mismatches: 36, Indels: 24
0.94 0.03 0.02
Matches are distributed among these distances:
46 3 0.00
47 700 0.68
49 321 0.31
50 3 0.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:49486250 original size:85 final size:85
Alignment explanation
Indices: 49486121--49486299 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
49486111 TATTTTATTG
*
49486121 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
49486186 TAGTCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
49486206 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACTTGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49486271 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49486291 CCCATGCTC
1 CCCATGCTC
49486300 ATGGCCGGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:49487599 original size:40 final size:40
Alignment explanation
Indices: 49487554--49487840 Score: 253
Period size: 40 Copynumber: 7.5 Consensus size: 40
49487544 CGAATACACG
* * * *
49487554 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
49487594 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49487634 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49487674 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
49487714 TCACTAGCATGAATG--C-TC-GGA-TGAAATCTCC--ACACA
1 TCACTAGCATGAATGCTCTTCGGGACT--TAGC-CCGGATACA
* * ** *
49487750 -AAGCCAGC--GAAT--T-TT--AAACTTAGCCCGGATACT
1 TCA-CTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49487783 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49487823 TCACTAGCATGAATGCTC
1 TCACTAGCATGAATGCTC
49487841 GGATGAAATC
Statistics
Matches: 198, Mismatches: 32, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
31 2 0.01
32 2 0.01
33 8 0.04
34 7 0.04
35 6 0.03
36 11 0.06
37 5 0.03
38 5 0.03
40 152 0.77
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49487848 original size:109 final size:109
Alignment explanation
Indices: 49487657--49487875 Score: 429
Period size: 109 Copynumber: 2.0 Consensus size: 109
49487647 TGCTCTTCGG
49487657 AACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
1 AACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
49487722 ATGAATGCTCGGATGAAATCTCCACACAAAGCCAGCGAATTTTA
66 ATGAATGCTCGGATGAAATCTCCACACAAAGCCAGCGAATTTTA
*
49487766 AACTTAGCCCGGATACTTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
1 AACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
49487831 ATGAATGCTCGGATGAAATCTCCACACAAAGCCAGCGAATTTTA
66 ATGAATGCTCGGATGAAATCTCCACACAAAGCCAGCGAATTTTA
49487875 A
1 A
49487876 TCCGGAGACT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (109 bp):
AACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGC
ATGAATGCTCGGATGAAATCTCCACACAAAGCCAGCGAATTTTA
Found at i:49488022 original size:38 final size:38
Alignment explanation
Indices: 49487953--49488027 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
49487943 GAATTTTAAT
*
49487953 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
49487991 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
49488028 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:49490626 original size:96 final size:95
Alignment explanation
Indices: 49490478--49491584 Score: 1913
Period size: 96 Copynumber: 11.6 Consensus size: 95
49490468 TATACACTTC
* * * *
49490478 CACATCCATCACATTGGCCATTCGGCCTTATCAC-ACATACACA-TGTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACAATATATACACT-TTCACATTCATCACATTG
* *
49490541 GCCATTTGGCCTTATCACACATATATACACT-TT
65 GCCATTCGGCCTTATCACAC--ATACACA-TGTT
* * *
49490574 CACATTCATCACATTGGCCATTCGGCCTTATCTC-ATATATGCA-TGTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACAATATATACACT-TTCACATTCATCACATTG
49490637 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49490668 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49490733 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49490764 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49490829 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49490860 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49490925 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49490956 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49491021 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49491052 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49491117 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49491148 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49491213 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49491244 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49491309 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49491340 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
49491405 GCCATTCGGCCTTATCACACATACACATGTT
65 GCCATTCGGCCTTATCACACATACACATGTT
49491436 CACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTTGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
* *
49491501 GCCATTCGGCCTTATCACATATATACACT-TT
65 GCCATTCGGCCTTATCACACATACACA-TGTT
* *
49491532 CACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATT
1 CACATTCATCACATTGGCCATTTGGCCTTATCACAATATATACACTTTCACATT
49491585 TATTCAAATA
Statistics
Matches: 992, Mismatches: 14, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
93 1 0.00
94 59 0.06
96 930 0.94
97 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
CACATTCATCACATTGGCCATTTGGCCTTATCACAATATATACACTTTCACATTCATCACATTGG
CCATTCGGCCTTATCACACATACACATGTT
Found at i:49491766 original size:44 final size:44
Alignment explanation
Indices: 49491703--49491791 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
49491693 TCATTTCATA
*
49491703 TTCGAATACTCATAAGCTTACAATATCATGATTTAGAATTCAAG
1 TTCGAATACTCATAAGCTTACAATATCACGATTTAGAATTCAAG
49491747 TTCGAATACTCATAAGCTTACAATATCACGATTTAGAATTCAAG
1 TTCGAATACTCATAAGCTTACAATATCACGATTTAGAATTCAAG
49491791 T
1 T
49491792 ATGGGTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (44 bp):
TTCGAATACTCATAAGCTTACAATATCACGATTTAGAATTCAAG
Found at i:49493075 original size:85 final size:85
Alignment explanation
Indices: 49492946--49493294 Score: 689
Period size: 85 Copynumber: 4.1 Consensus size: 85
49492936 TATTTTATTG
*
49492946 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49493011 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49493031 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49493096 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49493116 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49493181 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49493201 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49493266 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49493286 CCCATGCTC
1 CCCATGCTC
49493295 ATGGCCGGCC
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 263 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:49494593 original size:40 final size:40
Alignment explanation
Indices: 49494548--49494748 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
49494538 CGAATACACG
* * * *
49494548 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
49494588 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49494628 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49494668 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49494708 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
49494747 TC
1 TC
49494749 GTCGAGACCT
Statistics
Matches: 145, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 4 0.03
40 141 0.97
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49494871 original size:38 final size:38
Alignment explanation
Indices: 49494802--49494876 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
49494792 GAATTTTAAT
*
49494802 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
49494840 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
49494877 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:49497442 original size:49 final size:47
Alignment explanation
Indices: 49497306--49497475 Score: 234
Period size: 47 Copynumber: 3.6 Consensus size: 47
49497296 CCCTTCGGGA
* * * *
49497306 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
49497353 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
*
49497400 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
49497449 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
49497476 TATTCAAATA
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
46 1 0.01
47 66 0.61
49 41 0.38
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:49498870 original size:85 final size:85
Alignment explanation
Indices: 49498741--49499089 Score: 673
Period size: 85 Copynumber: 4.1 Consensus size: 85
49498731 TATTTTATTG
49498741 CCCATGC-CATTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
1 CCCATGCTC-TTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTT
*
49498805 TTAGTCATAACATCTTGTCCA
65 TTAGCCATAACATCTTGTCCA
49498826 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49498891 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49498911 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49498976 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49498996 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49499061 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49499081 CCCATGCTC
1 CCCATGCTC
49499090 ATGGCCGGCC
Statistics
Matches: 262, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
85 261 1.00
86 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:49505067 original size:19 final size:19
Alignment explanation
Indices: 49505045--49505102 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
49505035 TTCTGATTTT
49505045 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
49505064 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
49505076 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
49505095 TGATTCTG
1 TGATTCTG
49505103 ATTCTAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:49505072 original size:6 final size:6
Alignment explanation
Indices: 49505034--49505153 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
49505024 TTGCATTCAA
* * *
49505034 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
49505084 -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
49505134 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
49505154 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Done.