Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 155 of 222
Found at i:49800016 original size:95 final size:95
Alignment explanation
Indices: 49799832--49800210 Score: 492
Period size: 95 Copynumber: 4.0 Consensus size: 95
49799822 TAGTTTGAGA
** * * * *
49799832 TATCACAAATCTCACAAAAG-CTATGCTCTCAAGGAGCACACAGAGTGAGATGCTTACAAAAGCT
1 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAG--GCTCACAAAAGCT
* * ** *
49799896 CATGCTCTCAAAGGAGAACGTAGAGTGGGACT
64 CATGCTCTGAAAGGAGCACACAGAGTGAGACT
* * * *
49799928 TAT-AAAAAAACTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCATAAAAGCTC
1 TATCACAAAAA-TCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTC
*
49799992 ATGCTCTTAAAGGAGCACACAGAGTGAGACT
65 ATGCTCTGAAAGGAGCACACAGAGTGAGACT
** **
49800023 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACGTACAGTGAGGCTCACAATTGCTCA
1 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
49800088 TGCTCTGAAAGGAGCACACAGAGTGAGACT
66 TGCTCTGAAAGGAGCACACAGAGTGAGACT
** **
49800118 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACGTACAGTGAGGCTCACAATTGCTCA
1 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
*
49800183 TGCTCTGAAAGGAGCCCACAGAGTGAGA
66 TGCTCTGAAAGGAGCACACAGAGTGAGA
49800211 ATTAAGATTG
Statistics
Matches: 258, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
95 213 0.83
96 18 0.07
97 27 0.10
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (95 bp):
TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
TGCTCTGAAAGGAGCACACAGAGTGAGACT
Found at i:49800091 original size:41 final size:42
Alignment explanation
Indices: 49800045--49800197 Score: 112
Period size: 42 Copynumber: 3.4 Consensus size: 42
49800035 CACAAAAGCC
*
49800045 CATGCTCT-TAAGGAGCACGTACAGTGAGGCTCACAATTGCT
1 CATGCTCTGAAAGGAGCACGTACAGTGAGGCTCACAATTGCT
** * * * *
49800086 CATGCTCTGAAAGGAGCACACAGAGTGAGACTTATCACAAAAATCACAAAAGCC
1 CATGCTCTGAAAGGAGCACGTACAGTGAGGC---TCAC---AAT------TGCT
*
49800140 CATGCTCT-TAAGGAGCACGTACAGTGAGGCTCACAATTGCT
1 CATGCTCTGAAAGGAGCACGTACAGTGAGGCTCACAATTGCT
49800181 CATGCTCTGAAAGGAGC
1 CATGCTCTGAAAGGAGC
49800198 CCACAGAGTG
Statistics
Matches: 83, Mismatches: 15, Indels: 27
0.66 0.12 0.22
Matches are distributed among these distances:
41 18 0.22
42 24 0.29
45 4 0.05
47 3 0.04
48 3 0.04
50 4 0.05
53 17 0.20
54 10 0.12
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (42 bp):
CATGCTCTGAAAGGAGCACGTACAGTGAGGCTCACAATTGCT
Found at i:49801186 original size:52 final size:53
Alignment explanation
Indices: 49801098--49801210 Score: 174
Period size: 52 Copynumber: 2.2 Consensus size: 53
49801088 ACAGAATGGC
* * * *
49801098 GAACCCCCAGCTTGCCAGACATATTAGCGAAGCTGCCTCACAGTGAAACTTGT
1 GAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
*
49801151 GAACCCCTAACTTGCCA-ACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
1 GAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
49801203 GAACCCCC
1 GAACCCCC
49801211 TTACCACTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
52 39 0.72
53 15 0.28
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (53 bp):
GAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
Found at i:49801339 original size:27 final size:27
Alignment explanation
Indices: 49801271--49801340 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
49801261 CTTCTTTTGC
*
49801271 GAACACCCAACTAGCCTAAATCTTGGT
1 GAACACCCAACTCGCCTAAATCTTGGT
*
49801298 GAACACCCAACTCGCCTGAATCTTGGT
1 GAACACCCAACTCGCCTAAATCTTGGT
* *
49801325 GAACCCCCAATTCGCC
1 GAACACCCAACTCGCC
49801341 CCAACTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.20
Consensus pattern (27 bp):
GAACACCCAACTCGCCTAAATCTTGGT
Found at i:49804977 original size:27 final size:27
Alignment explanation
Indices: 49804945--49805151 Score: 297
Period size: 27 Copynumber: 7.6 Consensus size: 27
49804935 TAAATTGTGC
*
49804945 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49804972 AGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGACTATGT
*
49805000 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
49805027 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
49805055 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
49805082 ACCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
49805110 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49805137 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49805152 GACTTAATAT
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
27 89 0.54
28 75 0.46
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49805010 original size:55 final size:55
Alignment explanation
Indices: 49804945--49805151 Score: 342
Period size: 55 Copynumber: 3.8 Consensus size: 55
49804935 TAAATTGTGC
*
49804945 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
49805000 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
49805055 AGCACTAAGTGTGCGAGTTGACTATGTACCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
49805110 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
49805152 GACTTAATAT
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 144 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:49818868 original size:20 final size:20
Alignment explanation
Indices: 49818843--49818886 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
49818833 AGATGAAGCT
49818843 CACTAATATTAAAACTATTA
1 CACTAATATTAAAACTATTA
* *
49818863 CACTAATATTGAAACTATTG
1 CACTAATATTAAAACTATTA
49818883 CACT
1 CACT
49818887 CTTGTTCAAT
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:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
CACTAATATTAAAACTATTA
Found at i:49827505 original size:13 final size:13
Alignment explanation
Indices: 49827487--49827512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49827477 CACTAGAAAG
49827487 AACATAGGTTTTC
1 AACATAGGTTTTC
49827500 AACATAGGTTTTC
1 AACATAGGTTTTC
49827513 CTCCTTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
AACATAGGTTTTC
Found at i:49841191 original size:29 final size:28
Alignment explanation
Indices: 49841155--49841232 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
49841145 TCATGAGATT
49841155 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
49841185 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
49841212 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
49841233 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:49841450 original size:174 final size:174
Alignment explanation
Indices: 49841185--49841512 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
49841175 AAATTGTACA
49841185 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
49841250 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49841315 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
49841359 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
49841424 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49841489 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
49841513 ACCTTGAGTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49861840 original size:25 final size:22
Alignment explanation
Indices: 49861806--49861861 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
49861796 TGATTAGGTG
*
49861806 GTTGTATGGTTGTTATATGGTTGTT
1 GTTGTATGG-TG--ATATGGTAGTT
*
49861831 GTTGTGTGGTGATATGGTAGTT
1 GTTGTATGGTGATATGGTAGTT
*
49861853 GTTGGATGG
1 GTTGTATGG
49861862 CGTTTCAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 17 0.63
24 2 0.07
25 8 0.30
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.48
Consensus pattern (22 bp):
GTTGTATGGTGATATGGTAGTT
Found at i:49863010 original size:21 final size:20
Alignment explanation
Indices: 49862986--49863034 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
49862976 TTTATTTCTA
* *
49862986 TTAATTTAGCCATTTTTTATT
1 TTAATTTA-ACATTTTTTAAT
*
49863007 TTAATATTAATATTTTTTAAT
1 TTAAT-TTAACATTTTTTAAT
49863028 TTAATTT
1 TTAATTT
49863035 TTAAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATTTAACATTTTTTAAT
Found at i:49863037 original size:12 final size:14
Alignment explanation
Indices: 49863018--49863050 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49863008 TAATATTAAT
*
49863018 ATTTTTTAATT-TA
1 ATTTTTAAATTCTA
49863031 ATTTTTAAATTCTA
1 ATTTTTAAATTCTA
49863045 ATTTTT
1 ATTTTT
49863051 CTTTCGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTAAATTCTA
Found at i:49866329 original size:14 final size:14
Alignment explanation
Indices: 49866303--49866362 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
49866293 ACTATCTTTA
49866303 TTTTTATTGTTATTT
1 TTTTTATT-TTATTT
49866318 TTTTTATTTTATTT
1 TTTTTATTTTATTT
*** *
49866332 TTCAGA-TTTATAT
1 TTTTTATTTTATTT
*
49866345 GTTTTATTTTATTT
1 TTTTTATTTTATTT
49866359 TTTT
1 TTTT
49866363 ACGCACTTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
13 8 0.24
14 18 0.53
15 8 0.24
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:49877654 original size:4 final size:4
Alignment explanation
Indices: 49877645--49877670 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49877635 TTAACCAAGC
49877645 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
49877671 AATGAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:49883742 original size:49 final size:47
Alignment explanation
Indices: 49883521--49884075 Score: 858
Period size: 47 Copynumber: 11.6 Consensus size: 47
49883511 CCCTTCGGGA
* * * * * *
49883521 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49883568 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49883615 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49883662 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49883709 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49883758 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49883805 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49883852 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49883901 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49883950 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49883999 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49884046 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
49884076 TCAAATATAC
Statistics
Matches: 479, Mismatches: 25, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 292 0.61
49 187 0.39
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49883777 original size:143 final size:141
Alignment explanation
Indices: 49883521--49884075 Score: 858
Period size: 143 Copynumber: 3.9 Consensus size: 141
49883511 CCCTTCGGGA
* * * * * * * *
49883521 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49883586 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
49883651 GGCCATTAGGC
131 GGCCATTAGGC
*
49883662 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
49883727 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
49883792 TCGGCTATTAGGC
129 TCGGCCATTAGGC
49883805 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
49883870 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
49883935 CATTGGCCATTCGGC
127 CATCGGCCATTAGGC
* *
49883950 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49884015 ACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
49884076 TCAAATATAC
Statistics
Matches: 385, Mismatches: 23, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
141 46 0.12
143 207 0.54
145 87 0.23
147 45 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:49889001 original size:23 final size:23
Alignment explanation
Indices: 49888971--49889022 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
49888961 TAGATTTTTC
*
49888971 CTAAATATTATCACTAAAGAATT
1 CTAAATATTATCACAAAAGAATT
*
49888994 CTAAATATTATCACAAAATAATT
1 CTAAATATTATCACAAAAGAATT
*
49889017 CAAAAT
1 CTAAAT
49889023 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (23 bp):
CTAAATATTATCACAAAAGAATT
Found at i:49894961 original size:43 final size:43
Alignment explanation
Indices: 49894762--49894962 Score: 244
Period size: 43 Copynumber: 4.7 Consensus size: 43
49894752 GCGTTCCTAA
* * * *
49894762 CTTTAACGGTGCTTTTCCCACAAACGCCGGCTATATACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCC-GCTAAAGACCATGAC
**
49894806 CTTTAGCGGCGCTTTTCCCACAAACGTAGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
** * * *
49894849 CTTTAGCAACGCATTTT-CCATAAACGCTGCTAAAGATCATGAC
1 CTTTAGCGGCGC-TTTTCCCACAAACGCCGCTAAAGACCATGAC
49894892 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA-GTAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATG-AC
* *
49894935 CTTTAGCGGCGCTTCTACCACAAACGCC
1 CTTTAGCGGCGCTTTTCCCACAAACGCC
49894963 ACTATAAAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
42 5 0.04
43 102 0.76
44 28 0.21
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:49898560 original size:28 final size:28
Alignment explanation
Indices: 49898528--49898585 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
49898518 CTGAATCTCT
* * *
49898528 AAACCCTAAATCACTAACCCCTAACCCC
1 AAACCCCAAATCACTAACCACTAAACCC
*
49898556 AAACCCCAAATCCCTAACCACTAAACCC
1 AAACCCCAAATCACTAACCACTAAACCC
49898584 AA
1 AA
49898586 TAAGCTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.12
Consensus pattern (28 bp):
AAACCCCAAATCACTAACCACTAAACCC
Found at i:49898774 original size:21 final size:20
Alignment explanation
Indices: 49898750--49898801 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
49898740 CGAATCCATA
* *
49898750 AACCCTAAATCCCTAACTCTT
1 AACCCTAAAT-CCTAACCCCT
*
49898771 AACCTCTAACTCCTAACCCCT
1 AACC-CTAAATCCTAACCCCT
49898792 AACCCATAAA
1 AACCC-TAAA
49898802 CCTTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 19 0.76
22 5 0.20
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (20 bp):
AACCCTAAATCCTAACCCCT
Found at i:49898781 original size:14 final size:14
Alignment explanation
Indices: 49898760--49898794 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49898750 AACCCTAAAT
*
49898760 CCCTAACTCTTAAC
1 CCCTAACTCCTAAC
*
49898774 CTCTAACTCCTAAC
1 CCCTAACTCCTAAC
49898788 CCCTAAC
1 CCCTAAC
49898795 CCATAAACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAACTCCTAAC
Found at i:49898850 original size:14 final size:15
Alignment explanation
Indices: 49898827--49898859 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49898817 CTTAAATCAG
49898827 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
*
49898841 AATCCTTAATTCCAT
1 AATCCCTAATTCCAT
49898856 AATC
1 AATC
49898860 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:49899322 original size:41 final size:41
Alignment explanation
Indices: 49899265--49899421 Score: 201
Period size: 41 Copynumber: 3.9 Consensus size: 41
49899255 AAATGTTTTT
* * *
49899265 GCGGCGCTTTTTCAAAAACGCCGTTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTA
49899306 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTA
****
49899347 GCGGCGCTTTTCCAAAAACGCCGCTAAA-AATAAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTA
* * *
49899387 GCGGCGCTTCTT-CAAAAATGCCGGTAAAGCCCCGA
1 GCGGCGCTT-TTCCAAAAACGCCGCTAAAGACCCGA
49899422 AAACTCAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 31 0.31
41 69 0.69
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCATTA
Found at i:49900529 original size:23 final size:23
Alignment explanation
Indices: 49900501--49900546 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
49900491 CTAGTGGTAA
*
49900501 CATGTGACAATCTCTCAGTATGT
1 CATGTGACAACCTCTCAGTATGT
49900524 CATGTGACAACCTCTCAGTATGT
1 CATGTGACAACCTCTCAGTATGT
49900547 TACGTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (23 bp):
CATGTGACAACCTCTCAGTATGT
Found at i:49900553 original size:23 final size:23
Alignment explanation
Indices: 49900504--49900553 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
49900494 GTGGTAACAT
* *
49900504 GTGACAATCTCTCAGTATGTCAT
1 GTGACAACCTCTCAGTATGTCAC
*
49900527 GTGACAACCTCTCAGTATGTTAC
1 GTGACAACCTCTCAGTATGTCAC
49900550 GTGA
1 GTGA
49900554 AAAATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
GTGACAACCTCTCAGTATGTCAC
Found at i:49902406 original size:15 final size:16
Alignment explanation
Indices: 49902382--49902411 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49902372 ATTATACTTC
49902382 TATTTATTAATTTATA
1 TATTTATTAATTTATA
49902398 TATTT-TTAATTTAT
1 TATTTATTAATTTAT
49902412 GATTTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTAATTTATA
Found at i:49910081 original size:56 final size:56
Alignment explanation
Indices: 49910014--49910125 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
49910004 GTAATGTTCC
49910014 CCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCATCG
1 CCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCATCG
49910070 CCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCATCG
1 CCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCATCG
49910126 AAGCACTCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (56 bp):
CCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCATCG
Found at i:49911534 original size:52 final size:53
Alignment explanation
Indices: 49911473--49911586 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
49911463 AAAATAACGG
* *
49911473 TCATTTTTAATAT-TCTAACTTTTATAATAATACAATTAATCACATTAACTTT
1 TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
* * *
49911525 TCATTTTTAATATCTTTAACTTTTATAATAACACAATTGATCACATCAAGTTT
1 TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
49911578 TCATATTTT
1 TCAT-TTTT
49911587 TTCATTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 13 0.24
53 38 0.69
54 4 0.07
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (53 bp):
TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
Found at i:49911917 original size:17 final size:18
Alignment explanation
Indices: 49911897--49911937 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
49911887 TATATACACT
49911897 TATATATTT-ATATAT-AA
1 TATATATTTCATAT-TCAA
49911914 TATAT-TTTCATATTCAA
1 TATATATTTCATATTCAA
49911931 TATATAT
1 TATATAT
49911938 AATATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATTTCATATTCAA
Found at i:49916499 original size:75 final size:75
Alignment explanation
Indices: 49916376--49916844 Score: 391
Period size: 76 Copynumber: 6.3 Consensus size: 75
49916366 GTTGATCTAT
* ** * * *
49916376 GTTCACAGTTGATTTTTTTTTATGGTTTGTTGATTTAAGATCGTGACCCTCAGTTTTCTAATAGC
1 GTTCACAGCTGA--TTTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGC
* *
49916441 TCGCTAACTTAC
64 TCGCTGACCTAC
* * * * *
49916453 GTTCACAGCTGATTTTTTTACGGTCCGCTGATTTATGATCGCGACCCTCGATTTTCTAGTAGCTT
1 GTTCACAGCTGATTTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCTC
49916518 GCTGA-C--C
66 GCTGACCTAC
** * * * * * *
49916525 --T---A-C-GATTTTTTTATGGTATGCTTATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTT
1 GTTCACAGCTGATTTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCTC
*
49916583 GTTGACCTAC
66 GCTGACCTAC
** * * * * * *
49916593 GTTCACAATTGATTTTTTTACGGTTCGTTGATTTAAGATCGCGATCCTTGGTTTTCTAATAGCTT
1 GTTCACAGCTGATTTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCTC
49916658 GCTGACCTAC
66 GCTGACCTAC
* * * * * *
49916668 GTTCACAGTTGTTATTTTTTATGGTCCACTGATTTAATATCACGACCCTCGGTTTTCTAATAACT
1 GTTCACAGCTGAT-TTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCT
*
49916733 CGTTGACCTAC
65 CGCTGACCTAC
* * * ***
49916744 GTTCACAGTTGATATTTTTTATAGTCCGCTGAATTAAGATCGCGACCCTTAATTTTCTAATAGCT
1 GTTCACAGCTGAT-TTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCT
* * *
49916809 CGTTAACCTTC
65 CGCTGACCTAC
* *
49916820 GTTCACAACTGTTTTTTCTTATGGT
1 GTTCACAGCTGATTTTT-TTATGGT
49916845 TTGCTGATCT
Statistics
Matches: 313, Mismatches: 67, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
65 48 0.15
66 2 0.01
67 1 0.00
68 1 0.00
70 2 0.01
72 1 0.00
73 1 0.00
75 115 0.37
76 131 0.42
77 11 0.04
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (75 bp):
GTTCACAGCTGATTTTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTTCTAATAGCTC
GCTGACCTAC
Found at i:49916567 original size:65 final size:65
Alignment explanation
Indices: 49916463--49916593 Score: 154
Period size: 65 Copynumber: 2.0 Consensus size: 65
49916453 GTTCACAGCT
* * ** *
49916463 GATTTTTTTACGGTCCGCTGATTTATGATCGCGACCCTCGATTTTCTAGTAGCTTGCTGACCTAC
1 GATTTTTTTACGGTACGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
* * * * * * *
49916528 GATTTTTTTATGGTATGCTTATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTTGTTGACCTAC
1 GATTTTTTTACGGTACGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
49916593 G
1 G
49916594 TTCACAATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (65 bp):
GATTTTTTTACGGTACGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
Found at i:49916648 original size:140 final size:140
Alignment explanation
Indices: 49916390--49916808 Score: 390
Period size: 140 Copynumber: 2.9 Consensus size: 140
49916380 ACAGTTGATT
* * * *
49916390 TTTTTTTATGGTTTGTTGATTTAAGATCGTGACCCTCAGTTTTCTAATAGCTCGCTAACTTACGT
1 TTTTTTTATGGTATGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACGT
* * *
49916455 TCACAGCTGATTTTTTTACGGTCCGCTGATTTATGATCGCGACCCTCGATTTTCTAGTAGCTTGC
66 TCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTGC
49916520 TGACCTACGA
131 TGACCTACGA
* * * * *
49916530 TTTTTTTATGGTATGCTT-ATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTTGTTGACCTACG
1 TTTTTTTATGGTATG-TTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACG
* * * * * *
49916594 TTCACAATTGATTTTTTTACGGTTCGTTGATTTAAGATCGCGATCCTTGGTTTTCTAATAGCTTG
65 TTCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTG
49916659 CTGACCTACGTTCACA
130 CTGACCTACG-----A
**** * ** * * * *
49916675 GTTGTTATTTTTTATGGTCCACTGATTTAATATCACGACCCTCGGTTTTCTAATAACTCGTTGAC
1 -----T-TTTTTTATGGTATGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAAC
** ** * **
49916740 CTACGTTCACAGTTGATATTTTTTATAGTCCGCTGAATTAAGATCGCGACCCTTAATTTTCTAAT
60 CTACGTTCACAACTGAT-TTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAAT
49916805 AGCT
124 AGCT
49916809 CGTTAACCTT
Statistics
Matches: 228, Mismatches: 37, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
140 118 0.52
141 2 0.01
145 1 0.00
150 2 0.01
151 62 0.27
152 43 0.19
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (140 bp):
TTTTTTTATGGTATGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACGT
TCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTGC
TGACCTACGA
Found at i:49918747 original size:12 final size:12
Alignment explanation
Indices: 49918730--49918754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49918720 ATTTTATAAC
49918730 ATAAATATTGTT
1 ATAAATATTGTT
49918742 ATAAATATTGTT
1 ATAAATATTGTT
49918754 A
1 A
49918755 ATAGCCTTTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:49918931 original size:39 final size:36
Alignment explanation
Indices: 49918888--49918968 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 36
49918878 TATGGTCTGT
49918888 TGATTTAAGATCACGACCCTCGATTTTCTAACAGCTCGC
1 TGATTTAAGATCACGACCCTCG-TTTT-TAA-AGCTCGC
* * **
49918927 TGATTCATGATCACGACTGTCGTTTTTAAAGCTCGC
1 TGATTTAAGATCACGACCCTCGTTTTTAAAGCTCGC
*
49918963 TAATTT
1 TGATTT
49918969 CTTCAACAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 11 0.31
37 3 0.08
38 4 0.11
39 18 0.50
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (36 bp):
TGATTTAAGATCACGACCCTCGTTTTTAAAGCTCGC
Found at i:49920565 original size:140 final size:138
Alignment explanation
Indices: 49920415--49920685 Score: 398
Period size: 140 Copynumber: 1.9 Consensus size: 138
49920405 TTTTGGACAT
49920415 ATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAA
1 ATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAA
* * *
49920480 GATCTGAATATAACTTTTTGAAGTCAAGATTCGTCATCAGATATTTATTTTATATGAATATTTTA
66 AATCTGAATATAAC-TTTTGAAGTCAAGATTCGTCAT-AGATATTTATTTTACATGAATAGTTTA
49920545 ATTCGAACAC
129 ATTCGAACAC
* * *
49920555 ATATATATATTATTAGATATTTAAACTATTTTTAATGATTATTTAAATCCAATAATTAAAATTAA
1 ATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAA
* * * ** * * *
49920620 AATTTGAGTATAGCTTTTGAAGTCTTGATTGGTTATAGATATTTATTTTACATGAGTAGTTTAAT
66 AATCTGAATATAACTTTTGAAGTCAAGATTCGTCATAGATATTTATTTTACATGAATAGTTTAAT
49920685 T
131 T
49920686 TGAATTAATA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
138 27 0.23
139 18 0.15
140 72 0.62
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (138 bp):
ATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAA
AATCTGAATATAACTTTTGAAGTCAAGATTCGTCATAGATATTTATTTTACATGAATAGTTTAAT
TCGAACAC
Found at i:49925357 original size:22 final size:22
Alignment explanation
Indices: 49925332--49925374 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49925322 ACTTTAGGAA
*
49925332 TTACATATGCTGTAATTAGAAG
1 TTACATATGATGTAATTAGAAG
49925354 TTACATATGATGTAATTAGAA
1 TTACATATGATGTAATTAGAA
49925375 AGTGTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (22 bp):
TTACATATGATGTAATTAGAAG
Found at i:49936999 original size:34 final size:34
Alignment explanation
Indices: 49936961--49937032 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
49936951 AGCAAGCCTA
49936961 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
1 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
49936995 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
1 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
49937029 TTTA
1 TTTA
49937033 AAATTATCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
TTTATACAAGAGTAATTGAACCCTAATAAAACTC
Found at i:49942692 original size:29 final size:30
Alignment explanation
Indices: 49942654--49942755 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
49942644 TGGTTGACCC
* *
49942654 ATCCTTTTTCATAATTTGATAACCAAAGTT
1 ATCCCTTTTCATAATTTGATAACCAAAGCT
* * ** *
49942684 ATCCC-TTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAACCAAAGCT
* **
49942713 ATCCCTTTTCATAATTTGATAGCTGAAGCT
1 ATCCCTTTTCATAATTTGATAACCAAAGCT
49942743 ATCCCTTTTCATA
1 ATCCCTTTTCATA
49942756 TATCGATAGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 23 0.38
30 37 0.62
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCAAAGCT
Found at i:49942725 original size:30 final size:29
Alignment explanation
Indices: 49942683--49942901 Score: 155
Period size: 30 Copynumber: 7.4 Consensus size: 29
49942673 TAACCAAAGT
49942683 TATCCC-TTTCATAGTTCGATAGTCGAAGC
1 TATCCCTTTTCATA-TTCGATAGTCGAAGC
*
49942712 TATCCCTTTTCATAATTTGATAG-CTGAAGC
1 TATCCCTTTTCAT-ATTCGATAGTC-GAAGC
49942742 TATCCCTTTTCATATATCGATAG-CTGAAGC
1 TATCCCTTTTCATAT-TCGATAGTC-GAAGC
* * * **
49942772 CATCCTTTTTCATAGTTCGATGGTCTTCA-C
1 TATCCCTTTTCATA-TTCGATAGTC-GAAGC
* ** *
49942802 CATCCCTTTTCAT-TGTTTATGGTC-ATCA-C
1 TATCCCTTTTCATAT-TCGATAGTCGA--AGC
*
49942831 TATCCCTTTTCATAATCGATAGTCGAAGC
1 TATCCCTTTTCATATTCGATAGTCGAAGC
* * *
49942860 TATCCTTTTTCGTATTCGATAGCCGAAGC
1 TATCCCTTTTCATATTCGATAGTCGAAGC
* *
49942889 CATCCTTTTTCAT
1 TATCCCTTTTCAT
49942902 TTGTCGATGA
Statistics
Matches: 156, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 73 0.47
30 76 0.49
31 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (29 bp):
TATCCCTTTTCATATTCGATAGTCGAAGC
Found at i:49942763 original size:60 final size:59
Alignment explanation
Indices: 49942652--49942901 Score: 183
Period size: 59 Copynumber: 4.2 Consensus size: 59
49942642 AATGGTTGAC
* * ** *
49942652 CCATCCTTTTTCATAATTTGATAACCAAAGTTATCCC-TTTCATAGTTCGATAGTCGAAG
1 CCATCCTTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATA-TTCGATAGTCGAAG
* * *
49942711 CTATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATATATCGATAG-CTGAAG
1 CCATCCTTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAT-TCGATAGTC-GAAG
* * ** * ** *
49942771 CCATCCTTTTTCATAGTTCGATGGTCTTCA-CCATCCCTTTTCAT-TGTTTATGGTC-ATCA-
1 CCATCCTTTTTCATAATTCGATAG-CTGAAGCTATCCCTTTTCATAT-TCGATAGTCGA--AG
* * * * *
49942830 CTATCCCTTTTCATAA-TCGATAG-TCGAAGCTATCCTTTTTCGTATTCGATAGCCGAAG
1 CCATCCTTTTTCATAATTCGATAGCT-GAAGCTATCCCTTTTCATATTCGATAGTCGAAG
49942888 CCATCCTTTTTCAT
1 CCATCCTTTTTCAT
49942902 TTGTCGATGA
Statistics
Matches: 146, Mismatches: 33, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
56 1 0.01
57 2 0.01
58 35 0.24
59 53 0.36
60 52 0.36
61 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (59 bp):
CCATCCTTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATTCGATAGTCGAAG
Found at i:49942835 original size:29 final size:30
Alignment explanation
Indices: 49942771--49942844 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
49942761 ATAGCTGAAG
* *
49942771 CCATCCTTTTTCATAGTTCGATGGTCTTCA
1 CCATCCCTTTTCATAGTTCGATGGTCATCA
* *
49942801 CCATCCCTTTTCATTGTT-TATGGTCATCA
1 CCATCCCTTTTCATAGTTCGATGGTCATCA
*
49942830 CTATCCCTTTTCATA
1 CCATCCCTTTTCATA
49942845 ATCGATAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.18, C:0.28, G:0.09, T:0.45
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCGATGGTCATCA
Found at i:49943715 original size:16 final size:15
Alignment explanation
Indices: 49943689--49943718 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
49943679 TATCCTATTT
49943689 TAATTACTTAATTAC
1 TAATTACTTAATTAC
49943704 TAATTCACTTAATTA
1 TAATT-ACTTAATTA
49943719 ACCTTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTACTTAATTAC
Found at i:49944060 original size:20 final size:20
Alignment explanation
Indices: 49944035--49944073 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49944025 TTTCACTGAA
49944035 AACGGGCTGTTACACTAGGT
1 AACGGGCTGTTACACTAGGT
49944055 AACGGGCTGTTACACTAGG
1 AACGGGCTGTTACACTAGG
49944074 CCTGATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (20 bp):
AACGGGCTGTTACACTAGGT
Found at i:49955325 original size:40 final size:40
Alignment explanation
Indices: 49955281--49955398 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
49955271 AAGTATTGAA
*
49955281 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCC
* *
49955321 TGAATGCACATACGTGCCCTTGTTTGTA-TTTCAGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTT-GGTAACCC
* * * * * *
49955361 TGAATGAACTTATGTGCCCCTATTTATACTCTGGTAAC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAAC
49955399 TCTAAATCAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCC
Found at i:49967482 original size:18 final size:18
Alignment explanation
Indices: 49967459--49967498 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
49967449 GGAGGAGAAT
49967459 AAGATGATGAGGATGAGA
1 AAGATGATGAGGATGAGA
* *
49967477 AAGATGATGATGATGAGG
1 AAGATGATGAGGATGAGA
49967495 AAGA
1 AAGA
49967499 CATGGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.38, T:0.17
Consensus pattern (18 bp):
AAGATGATGAGGATGAGA
Found at i:49973504 original size:174 final size:173
Alignment explanation
Indices: 49973214--49973577 Score: 667
Period size: 174 Copynumber: 2.1 Consensus size: 173
49973204 GTCATGAGAT
*
49973214 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
*
49973279 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
65 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
49973344 GATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
130 GATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
*
49973388 TGGCACTAAGTGTGTGAGTTTAAA-GTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA--GCACTAAGTGTGCGCGGTTGATTATTAAGCACT
49973452 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGT
64 ATGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGT
49973517 CGATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
129 CGATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
49973562 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49973578 CGGTTGATTA
Statistics
Matches: 184, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
172 5 0.03
174 179 0.97
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (173 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAT
GTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCG
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
Found at i:49973657 original size:145 final size:145
Alignment explanation
Indices: 49973415--49973688 Score: 539
Period size: 145 Copynumber: 1.9 Consensus size: 145
49973405 GTTTAAAGTA
49973415 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
49973480 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
49973545 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
49973560 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
49973625 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
49973689 ACCTTGAGTT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 128 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:49981493 original size:29 final size:28
Alignment explanation
Indices: 49981460--49981536 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 28
49981450 CATGAGATTG
49981460 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
49981490 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
49981517 TGGCACTAAGTGTGCGGGTT
1 -GGCACTAAGTGTGCGGGTT
49981537 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 38 0.88
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:49994935 original size:172 final size:171
Alignment explanation
Indices: 49994649--49995008 Score: 643
Period size: 172 Copynumber: 2.1 Consensus size: 171
49994639 GTCATGAGAT
*
49994649 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
*
49994714 TGTGTGCGAACCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTA-CGAGTCG
65 TGTGTGCGAACCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCG
49994778 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
130 A-TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
*
49994821 TGGCACTAAGTGTGTGAGTTTAAA-GTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACT
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA--GCACTAAGTGTGCGCGGTTGATTATTAAGCACT
49994885 ATGTGTGCGAACCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
64 ATGTGTGCGAACCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
49994950 GATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
129 GATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
49994993 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49995009 CGGTTGATTA
Statistics
Matches: 181, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
170 5 0.03
172 168 0.93
173 8 0.04
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (171 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAT
GTGTGCGAACCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
Found at i:50002940 original size:29 final size:28
Alignment explanation
Indices: 50002904--50002981 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
50002894 TCATGAGATT
50002904 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
50002934 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
50002961 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
50002982 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:50003199 original size:174 final size:174
Alignment explanation
Indices: 50002934--50003295 Score: 706
Period size: 174 Copynumber: 2.1 Consensus size: 174
50002924 AAATTGTACA
50002934 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
50002999 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
50003064 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
50003108 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
50003173 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
50003238 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
50003282 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50003296 CGGTTGATTA
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 185 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:50003375 original size:145 final size:145
Alignment explanation
Indices: 50003133--50003406 Score: 539
Period size: 145 Copynumber: 1.9 Consensus size: 145
50003123 GTTTAAAGTA
50003133 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
50003198 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
50003263 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
50003278 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
50003343 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
50003407 ACCTTGAGTT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 128 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:50006017 original size:21 final size:21
Alignment explanation
Indices: 50005991--50006054 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 21
50005981 ACTTAAATCC
*
50005991 TTTCTCTCAAATTCTCTCATA
1 TTTCTCTCAAATTCTCTCACA
50006012 TTTCTCTCCAATATTCTCTCACA
1 TTTCTCT-CAA-ATTCTCTCACA
50006035 TTTCTCTCAAATTC-CTCACA
1 TTTCTCTCAAATTCTCTCACA
50006055 AATTCCTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 6 0.15
21 11 0.28
22 6 0.15
23 17 0.43
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCACA
Found at i:50007185 original size:7 final size:7
Alignment explanation
Indices: 50007173--50007201 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50007163 CAATTTGTAC
50007173 TTAGTAT
1 TTAGTAT
50007180 TTAGTAT
1 TTAGTAT
50007187 TTAGTAT
1 TTAGTAT
50007194 TTAGTAT
1 TTAGTAT
50007201 T
1 T
50007202 ATGTATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTAGTAT
Found at i:50007843 original size:18 final size:18
Alignment explanation
Indices: 50007820--50007861 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
50007810 GCCAAGTGCT
* *
50007820 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
50007838 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
50007856 TTTCCT
1 TATCCT
50007862 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:50008328 original size:34 final size:32
Alignment explanation
Indices: 50008285--50008379 Score: 101
Period size: 34 Copynumber: 3.0 Consensus size: 32
50008275 TATTGATGCC
*
50008285 TATTACATGTAATAAAATAGAAATT-CTGTTATA
1 TATTTCATGTAATAAAATAGAAATTACT-TT-TA
*
50008318 TTATTTCATGTAATAAAATAAAAATTTACTTTTA
1 -TATTTCATGTAATAAAATAGAAA-TTACTTTTA
50008352 TATTT--T-TAATAAAATAGAAATTA-TTTTA
1 TATTTCATGTAATAAAATAGAAATTACTTTTA
50008380 AATAATTCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
28 5 0.09
29 3 0.05
30 13 0.23
31 1 0.02
33 5 0.09
34 23 0.41
35 4 0.07
36 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (32 bp):
TATTTCATGTAATAAAATAGAAATTACTTTTA
Found at i:50008393 original size:17 final size:17
Alignment explanation
Indices: 50008373--50008410 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
50008363 AAATAGAAAT
50008373 TATTTTAAATAATTCAA
1 TATTTTAAATAATTCAA
* *
50008390 TATTTTAAATATTTCTA
1 TATTTTAAATAATTCAA
50008407 TATT
1 TATT
50008411 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTAAATAATTCAA
Found at i:50008526 original size:55 final size:56
Alignment explanation
Indices: 50008344--50008526 Score: 146
Period size: 55 Copynumber: 3.2 Consensus size: 56
50008334 AATAAAAATT
**
50008344 TACTTT-TATATTTTTAATAAAATAGAAATTATTTTAAATAATTCAATATTTTAAA
1 TACTTTATATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAATATTTTAAA
* * * * *
50008399 TATTTCTATATTATTTCATTTAATAAAATA-AAACGTTGTTTTGAATCAAGG--A-ATTGTAATT
1 TACTT-TATA-TA-TT--TTTAATAAAATAGAAA--TTATTTTAAAT-AAGGCAATATTTTAA-A
* * *
50008460 TACTTTA-ATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAG
1 TACTTTATATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAATATTTTAAA
50008515 TA-TTTATATATT
1 TACTTTATATATT
50008527 ATTTCATTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
53 4 0.04
54 13 0.13
55 24 0.24
56 9 0.09
57 4 0.04
58 4 0.04
59 3 0.03
60 11 0.11
61 17 0.17
62 9 0.09
63 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (56 bp):
TACTTTATATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAATATTTTAAA
Found at i:50011770 original size:126 final size:125
Alignment explanation
Indices: 50011545--50011837 Score: 426
Period size: 126 Copynumber: 2.3 Consensus size: 125
50011535 GGCCAAATAG
* * *
50011545 GAACTACTGTAGCAAGAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGACAAAGCAAC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
* ** *
50011610 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAAGGTCTTCTTGAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTC-A
* * * *
50011671 GAACTACTGTAGCAAAAGAGCGTCCACGAGGGACCTTTTTTCAGTACTTTTGCTGACAATGCATC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
*
50011736 CTGCTTAAAGCGTTTTTGCCACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
* *
50011796 GTAACTACTGTAG-AAAGAAAGCATCCACGTGGGAGCTTTTTT
1 G-AACTACTGTAGCAAA-AGAGCGTCCACGTGGGAGCTTTTTT
50011838 AAATAAACAA
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
125 5 0.03
126 144 0.97
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (125 bp):
GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
Found at i:50012088 original size:95 final size:96
Alignment explanation
Indices: 50011870--50012173 Score: 398
Period size: 96 Copynumber: 3.2 Consensus size: 96
50011860 AATAACCCTA
* * *
50011870 AACCCCAAACCCTAATTTATTTGAGTTTTTCTTTAAAAACCCTAAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
***
50011935 TTTTTTAAAATATATAATTAATTTACTCAAGT
66 TTTAAAAAAAT-TATAATTAATTTACTCAAGT
50011967 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
50012031 TTTAAAAAAATTATAATTAATTTACTCAAGT
66 TTTAAAAAAATTATAATTAATTTACTCAAGT
* * * *
50012062 AACCCTAAACCCTAATTTAATTGATTTTTTCCTTAAAAA-CCATAAGTAC-AGAACCCTAATCTA
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAA-CACTA-AACCCTAATCTA
* ** * * **
50012125 ATTTTGAAAATTTTATAATTAATTTAATTAAAA
64 ATTTTAAAAAAATTATAATTAATTTACTCAAGT
*
50012158 AACCCTAAGCCCTAAT
1 AACCCTAAACCCTAAT
50012174 CCCTTTAAAA
Statistics
Matches: 187, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
95 49 0.26
96 115 0.61
97 23 0.12
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
TTTAAAAAAATTATAATTAATTTACTCAAGT
Found at i:50012211 original size:21 final size:20
Alignment explanation
Indices: 50012182--50012250 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
50012172 ATCCCTTTAA
*
50012182 AACCATAAACCCAAAAACCCT
1 AACCCTAAACCC-AAAACCCT
*
50012203 AACCCTAAACCCAAAACCCAA
1 AACCCTAAACCCAAAACCC-T
* *
50012224 AACCC-AAAACCAAAATCCT
1 AACCCTAAACCCAAAACCCT
50012243 AACCCTAA
1 AACCCTAA
50012251 CGCAGAGACA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.12
20 20 0.49
21 16 0.39
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.09
Consensus pattern (20 bp):
AACCCTAAACCCAAAACCCT
Found at i:50012238 original size:6 final size:7
Alignment explanation
Indices: 50012188--50012238 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
50012178 TTAAAACCAT
50012188 AAACCCAA
1 AAACCC-A
50012196 AAACCC-
1 AAACCCA
* *
50012202 TAACCCT
1 AAACCCA
50012209 AAACCCA
1 AAACCCA
50012216 AAACCCA
1 AAACCCA
50012223 AAACCCA
1 AAACCCA
50012230 AAA-CCA
1 AAACCCA
50012236 AAA
1 AAA
50012239 TCCTAACCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 11 0.28
7 22 0.56
8 6 0.15
ACGTcount: A:0.57, C:0.39, G:0.00, T:0.04
Consensus pattern (7 bp):
AAACCCA
Found at i:50012369 original size:40 final size:41
Alignment explanation
Indices: 50012277--50012373 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
50012267 AAACGCTTCC
* *
50012277 TCAAGGAAGCG-CTT-TGTCCACGTGGACACAAAGCGCGCCT
1 TCAAGGAAGCGTTTTCTATCCACGTGGA-ACAAAGCGCGCCT
* *
50012317 TCAAGGACGCGTTTTCTATCCACGTGG-ACAAAGCGCTTCCT
1 TCAAGGAAGCGTTTTCTATCCACGTGGAACAAAGCGC-GCCT
*
50012358 T-GAGGAAGCGTTTTCT
1 TCAAGGAAGCGTTTTCT
50012374 TGCTTTGTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 32 0.67
41 6 0.12
42 10 0.21
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (41 bp):
TCAAGGAAGCGTTTTCTATCCACGTGGAACAAAGCGCGCCT
Found at i:50029498 original size:39 final size:40
Alignment explanation
Indices: 50029381--50029558 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
50029371 GCTACTCGTT
* *
50029381 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
50029421 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
50029461 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
50029500 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50029541 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
50029559 CCCCAGACAT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 70 0.59
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50029525 original size:79 final size:81
Alignment explanation
Indices: 50029381--50029558 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 81
50029371 GCTACTCGTT
* * * *
50029381 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
50029446 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* **
50029461 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
50029523 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
50029541 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
50029559 CCCCAGACAT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 53 0.64
80 26 0.31
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:50036737 original size:79 final size:81
Alignment explanation
Indices: 50036602--50036819 Score: 229
Period size: 79 Copynumber: 2.8 Consensus size: 81
50036592 AAATCACGTA
** * *
50036602 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTT-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
50036662 ATAGTAACTCGCACAATTG
64 -TAGTAACTCGCACAAATG
* *
50036681 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
*
50036743 AGTATCTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
50036760 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGA
50036820 CATCATTCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 17
0.80 0.09 0.12
Matches are distributed among these distances:
78 3 0.03
79 66 0.56
80 48 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACTCGCACAAATG
Found at i:50036819 original size:40 final size:40
Alignment explanation
Indices: 50036635--50036819 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
50036625 GCTACTTGTT
* *
50036635 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
50036675 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
50036715 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
50036754 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
50036795 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50036820 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:50038754 original size:20 final size:20
Alignment explanation
Indices: 50038729--50038771 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
50038719 TGTTGGTAGC
50038729 TTGGTTCGGCTAAGCATAAA
1 TTGGTTCGGCTAAGCATAAA
50038749 TTGGTTCGGCTAAGCATAAA
1 TTGGTTCGGCTAAGCATAAA
50038769 TTG
1 TTG
50038772 TTGGTAGCTT
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:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (20 bp):
TTGGTTCGGCTAAGCATAAA
Found at i:50043185 original size:50 final size:50
Alignment explanation
Indices: 50043017--50043306 Score: 293
Period size: 50 Copynumber: 5.7 Consensus size: 50
50043007 ATATGTCAAA
* ** * * *
50043017 GCCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TCATGCACTACGAAA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATC-T-CGGTGCCAAT
* * ** * *
50043066 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC-AT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAT
* ** *
50043115 GTCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAT
* *
50043165 GCCATGTCCCAGACATGGTCTTACATGGGACATCTTGTCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAT
50043215 GCCATGTCCCAGACATGGTCTTAGC-TGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTA-CATGGGACCTCT--T-ATCTC--GG-TGCCAAT
*
50043271 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
50043307 TACCCAAATG
Statistics
Matches: 200, Mismatches: 29, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
49 67 0.34
50 80 0.40
51 4 0.02
52 2 0.01
53 4 0.02
54 1 0.00
55 3 0.01
56 39 0.19
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAT
Found at i:50043188 original size:99 final size:104
Alignment explanation
Indices: 50043066--50043300 Score: 311
Period size: 99 Copynumber: 2.3 Consensus size: 104
50043056 CACTACGAAA
* * ** *
50043066 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC-ATGTCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCGGTGCCAATGCCATGTCCCAGACA
50043130 TGGTCTTA-CGGGGGACCTCT-T-ATCTC-GG-TGCCAAC
66 TGGTCTTAGC-GGGGACCTCTATGATCTCAGGATGCCAAC
** *
50043165 GCCATGTCCCAGACATGGTCTTACATGGGACATCTTGTCTCGGTGCCAATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCGGTGCCAATGCCATGTCCCAGACA
* *
50043230 TGGTCTTAGCTGGGACCTCTCATGATCTCAAGGATGCCAAT
66 TGGTCTTAGCGGGGACCTCT-ATGATCTC-AGGATGCCAAC
50043271 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
50043301 TCTCTTTACC
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
99 40 0.34
100 33 0.28
101 1 0.01
102 1 0.01
103 5 0.04
105 2 0.02
106 36 0.31
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (104 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCGGTGCCAATGCCATGTCCCAGACA
TGGTCTTAGCGGGGACCTCTATGATCTCAGGATGCCAAC
Found at i:50052061 original size:8 final size:8
Alignment explanation
Indices: 50052050--50052083 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
50052040 CTTTAATTGG
50052050 CTAATTAC
1 CTAATTAC
50052058 CTAATTAC
1 CTAATTAC
50052066 CTAATTAC
1 CTAATTAC
50052074 C--ATTAC
1 CTAATTAC
50052080 CTAA
1 CTAA
50052084 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (8 bp):
CTAATTAC
Found at i:50052069 original size:16 final size:14
Alignment explanation
Indices: 50052050--50052083 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
50052040 CTTTAATTGG
50052050 CTAATTACCTAATTAC
1 CTAATTACC--ATTAC
50052066 CTAATTACCATTAC
1 CTAATTACCATTAC
50052080 CTAA
1 CTAA
50052084 CTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (14 bp):
CTAATTACCATTAC
Found at i:50058022 original size:8 final size:8
Alignment explanation
Indices: 50058009--50058048 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
50057999 CCCCGATTGC
50058009 ATGTTTGT
1 ATGTTTGT
50058017 ATGTTTGT
1 ATGTTTGT
*
50058025 ATGGTT-T
1 ATGTTTGT
50058032 -TGTTTGT
1 ATGTTTGT
50058039 ATGTTTGT
1 ATGTTTGT
50058047 AT
1 AT
50058049 TGCTCATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
8 22 0.79
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATGTTTGT
Found at i:50060197 original size:90 final size:89
Alignment explanation
Indices: 50060094--50060298 Score: 275
Period size: 90 Copynumber: 2.3 Consensus size: 89
50060084 TTGATTTTAG
* * * *
50060094 TAAATTCATATAAGAACATTTTTTATTAAGAAATTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATCATATATCATTATTAAATTATA
* * *
50060159 TTTAACATTATTTATTTTAAATGTA
66 TGTAACAATAATTATTTTAAAT-TA
* * *
50060184 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATCATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATCATATATCATTATTAAATTATA
*
50060249 TGTAATAATAATTATTTTAAATTA
66 TGTAACAATAATTATTTTAAATTA
*
50060273 TACAAATTCATATAAGATAATTTATT
1 T--AAATTCATATAAGAAAATTTATT
50060299 GGTTATAATT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 3 0.03
90 76 0.75
91 22 0.22
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (89 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAAATTTATGAAATCATATATCATTATTAAATTATA
TGTAACAATAATTATTTTAAATTA
Found at i:50060268 original size:26 final size:28
Alignment explanation
Indices: 50060214--50060274 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50060204 TATTATCAAT
* *
50060214 AATTTTATGAAATCATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
50060242 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
50060268 AATTATA
1 AATTATA
50060275 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:50060475 original size:15 final size:15
Alignment explanation
Indices: 50060445--50060491 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
50060435 AATTTTATGA
50060445 AATTAT-ATAT-TTT
1 AATTATAATATATTT
50060458 AATTATAATATATTT
1 AATTATAATATATTT
*
50060473 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
50060488 AATT
1 AATT
50060492 TATATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 7 0.24
15 16 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:50060560 original size:119 final size:120
Alignment explanation
Indices: 50060315--50060726 Score: 729
Period size: 120 Copynumber: 3.4 Consensus size: 120
50060305 AATTATTTTA
* * * * *
50060315 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
*
50060379 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
50060435 AATTTTATGAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
50060500 ATAGTA-CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
50060554 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
50060619 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
50060674 AATTTTATTAAATTATATATTTAAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
50060727 TAAATATGAT
Statistics
Matches: 281, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
119 117 0.42
120 162 0.58
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:50060594 original size:15 final size:15
Alignment explanation
Indices: 50060559--50060610 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50060549 TTAAGAATTT
*
50060559 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50060573 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50060587 TATTTAATAATAAT-
1 TATTTAATTATAATA
50060601 TATGTTAATT
1 TAT-TTAATT
50060611 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50060707 original size:16 final size:16
Alignment explanation
Indices: 50060688--50060732 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
50060678 TTATTAAATT
*
50060688 ATATATTTAAATTATA
1 ATATATTTAAATAATA
50060704 ATATATTT-AATAATA
1 ATATATTTAAATAATA
*
50060719 ATTATGTTTAAATA
1 A-TATATTTAAATA
50060733 TGATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATATTTAAATAATA
Found at i:50060884 original size:16 final size:16
Alignment explanation
Indices: 50060859--50060896 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
50060849 CCATTATGCT
50060859 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
50060875 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
50060891 AATACA
1 ATTACA
50060897 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:50063414 original size:25 final size:25
Alignment explanation
Indices: 50063375--50063452 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
50063365 GTGATAAACA
* *
50063375 GTAAGCTCCTTCGAGCTGAATAAT-G
1 GTAAGCTCATACGAGCTGAAT-ATCG
* *
50063400 GTAAGCTCATACGAGTTGAGTATCG
1 GTAAGCTCATACGAGCTGAATATCG
* *
50063425 GTAAGCTCATAAGAGCTGGA-ATCG
1 GTAAGCTCATACGAGCTGAATATCG
50063449 GTAA
1 GTAA
50063453 CCCTAATTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 10 0.23
25 34 0.77
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATATCG
Found at i:50071904 original size:63 final size:63
Alignment explanation
Indices: 50071805--50071925 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
50071795 GAACATAAGA
* * *
50071805 ATTCAAATATCACTATTTCCAAACACTTATAATCCATTATCAACATTAATGGGCTAATAATTC
1 ATTCAAATATCACTATTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAATAATTC
* *
50071868 ATTCAAATTTCACTCTTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAAT
1 ATTCAAATATCACTATTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAAT
50071926 TACCATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (63 bp):
ATTCAAATATCACTATTGCCAAAAACTTATAATCCATTATCAACATTAATAGGCTAATAATTC
Found at i:50088282 original size:40 final size:40
Alignment explanation
Indices: 50088227--50088312 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
50088217 AATTATTGAA
* * *
50088227 TGTTTGCACATACGTGCC-CCAGTTTGTACTTTGGTACTCC
1 TGTTTGCACACACGTGCCACCA-TTTGTACTTCGGTACCCC
* *
50088267 TGTTTGCACACACGTGCCACTATTTTTACTTCGGTACCCC
1 TGTTTGCACACACGTGCCACCATTTGTACTTCGGTACCCC
50088307 TGTTTG
1 TGTTTG
50088313 TACTTCGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.38
Consensus pattern (40 bp):
TGTTTGCACACACGTGCCACCATTTGTACTTCGGTACCCC
Found at i:50091277 original size:19 final size:19
Alignment explanation
Indices: 50091241--50091278 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50091231 TCAATCATCC
*
50091241 CTCATTCCATCATCTCTCA
1 CTCATTCCATCATATCTCA
50091260 CTCATT-CATCATTATCTCA
1 CTCATTCCATCA-TATCTCA
50091279 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCCATCATATCTCA
Found at i:50094059 original size:3 final size:3
Alignment explanation
Indices: 50094051--50094125 Score: 98
Period size: 3 Copynumber: 25.3 Consensus size: 3
50094041 ACCTTGCTTT
* * * *
50094051 ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ACA GTA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
50094099 GTA ATA ATA ATA A-A ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
50094126 ATATATATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:50097003 original size:14 final size:15
Alignment explanation
Indices: 50096978--50097017 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
50096968 ATATTTTTTC
50096978 AAGCTATA-TTTTAA
1 AAGCTATAGTTTTAA
*
50096992 AAG-TATAGTTTTAT
1 AAGCTATAGTTTTAA
50097006 AAGCTAT-GTTTT
1 AAGCTATAGTTTT
50097018 TCCGAGCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (15 bp):
AAGCTATAGTTTTAA
Found at i:50098539 original size:8 final size:8
Alignment explanation
Indices: 50098504--50098561 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
50098494 TTCATCGTTC
50098504 TTTTA-TT
1 TTTTATTT
50098511 TTTTATTT
1 TTTTATTT
*
50098519 TTATATATAT
1 TT-T-TATTT
50098529 TTTTATTT
1 TTTTATTT
***
50098537 TTTTCCGT
1 TTTTATTT
50098545 TTTTATTT
1 TTTTATTT
50098553 TTTTATTT
1 TTTTATTT
50098561 T
1 T
50098562 GCTTTAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
7 5 0.12
8 27 0.68
9 2 0.05
10 6 0.15
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:50110700 original size:42 final size:42
Alignment explanation
Indices: 50110630--50110710 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
50110620 CCCAAAAAGA
*
50110630 GCAGCTCAAATATTGATCAGAATAGGGCATG-AGATGGTCAGG
1 GCAGCTCAAATATTGATCAAAATAGGGCATGCAG-TGGTCAGG
* *
50110672 GCAGTTCAAATATTGATCAAAATGGGGCATGCAGTGGTC
1 GCAGCTCAAATATTGATCAAAATAGGGCATGCAGTGGTC
50110711 TTGCTATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (42 bp):
GCAGCTCAAATATTGATCAAAATAGGGCATGCAGTGGTCAGG
Found at i:50110951 original size:13 final size:13
Alignment explanation
Indices: 50110933--50110958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50110923 TTCCTAACTA
50110933 ATTTCTTTATTAT
1 ATTTCTTTATTAT
50110946 ATTTCTTTATTAT
1 ATTTCTTTATTAT
50110959 CTTTGATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTCTTTATTAT
Found at i:50112366 original size:45 final size:45
Alignment explanation
Indices: 50111770--50112364 Score: 776
Period size: 45 Copynumber: 13.1 Consensus size: 45
50111760 CCCAGAGAAC
* * *
50111770 AGATCGAAGATAACAGATCTTGTCTTCCTGTCTTGGCAGCAAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* ** * *
50111815 AGATCAAAGATAGTAGATCTTGTTTTCCTATATTGGTAGCGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * *
50111860 AGATCGAAGATAACGGATCTTGTCTTCCTGTATTGGCAGCAAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* ** *
50111905 AGATCAAAGATAGTAGATCTTGTCTTCCTATATTGGTAGCGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* *
50111950 AGATCGAAGATAACATATCTTGTCTTCCCTTCCTATATTGGTAGCGAAGT
1 AGATCGAAGATAACAGATCTTG---T--CTTCCTGTATTGGTAGCGAAGT
* *
50112000 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * *
50112045 ATATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
*
50112090 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* *
50112135 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * * * *
50112180 AGATCAAAGACAACAGATCTTGTCTTCCTATATTAGTAGCAAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * *
50112225 AGATCGAAGATAACAGATCTTGTCTTCCTGTATGGGCAACGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* * * * * *
50112270 AGATCAAAGATAGCAAATCTTGTTTTCTTGTATTGGTAGTGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
* *
50112315 AGATCAAAGATAACAGATCATGTCTTCCTGTATTGGTAGCGAAGT
1 AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
50112360 AGATC
1 AGATC
50112365 AAGGATAGCA
Statistics
Matches: 474, Mismatches: 71, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
45 429 0.91
47 1 0.00
48 1 0.00
50 43 0.09
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (45 bp):
AGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGT
Found at i:50114013 original size:3 final size:3
Alignment explanation
Indices: 50114005--50114051 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
50113995 TTTAAAAATA
* * *
50114005 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAC TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
50114052 GCGTAAGTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:50114022 original size:12 final size:12
Alignment explanation
Indices: 50114005--50114051 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
50113995 TTTAAAAATA
*
50114005 TATTATTATTAT
1 TATTATTATTAC
50114017 TATTATTATTAC
1 TATTATTATTAC
*
50114029 TATTACTATTAC
1 TATTATTATTAC
50114041 TATTATTATTA
1 TATTATTATTA
50114052 GCGTAAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:50114105 original size:19 final size:19
Alignment explanation
Indices: 50114066--50114101 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50114056 AAGTACCCTT
50114066 TTTTTTATATGACAATTTA
1 TTTTTTATATGACAATTTA
50114085 TTTTTTATATG-CAATTT
1 TTTTTTATATGACAATTT
50114102 TATTCTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTTTATATGACAATTTA
Found at i:50150412 original size:40 final size:39
Alignment explanation
Indices: 50150326--50150412 Score: 88
Period size: 40 Copynumber: 2.2 Consensus size: 39
50150316 AGCCTGTATG
* * *
50150326 TCCCACACGGCTACACTCACACCATCACACGGTCGTGCC
1 TCCCACACGGCCACACTCACACCATCACACAGCCGTGCC
* *
50150365 TCGCACACGGCCACAC-CTACTA-CATTCACACAGCCGTGTC
1 TCCCACACGGCCACACTC-AC-ACCA-TCACACAGCCGTGCC
50150405 TCCCACAC
1 TCCCACAC
50150413 AGCTAGCCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.03
39 18 0.46
40 20 0.51
ACGTcount: A:0.24, C:0.46, G:0.14, T:0.16
Consensus pattern (39 bp):
TCCCACACGGCCACACTCACACCATCACACAGCCGTGCC
Found at i:50153449 original size:27 final size:27
Alignment explanation
Indices: 50153429--50153490 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
50153419 TATTTTGGTT
*
50153429 ATTTTACCATTTGAGGCTATTTCGATA
1 ATTTTACCATTCGAGGCTATTTCGATA
* * * *
50153456 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCATTCGAGGCTATTTCGATA
50153483 ATTTTACC
1 ATTTTACC
50153491 CTTCAGGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (27 bp):
ATTTTACCATTCGAGGCTATTTCGATA
Found at i:50153556 original size:54 final size:54
Alignment explanation
Indices: 50153447--50153567 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 54
50153437 ATTTGAGGCT
* * * **
50153447 ATTTCGATAATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCTTCAGGGGTA
1 ATTT-GATCATTTTACCCTTCGAGGGTAATTCAATCATTTTACCCTCCAAAGGTA
50153502 ATTTGATCATTTTACCCTTC-ACGGGTAATTCAATCATTTTACCCTCCAAAGGTA
1 ATTTGATCATTTTACCCTTCGA-GGGTAATTCAATCATTTTACCCTCCAAAGGTA
* *
50153556 ATTCGGTCATTT
1 ATTTGATCATTT
50153568 AAAAACCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
53 1 0.02
54 53 0.91
55 4 0.07
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (54 bp):
ATTTGATCATTTTACCCTTCGAGGGTAATTCAATCATTTTACCCTCCAAAGGTA
Found at i:50153565 original size:27 final size:27
Alignment explanation
Indices: 50153449--50153567 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
50153439 TTGAGGCTAT
* * *
50153449 TTCGATAATTTTACCCTTCGAGGGTAT
1 TTCGATCATTTTACCCTTCAAGGGTAA
* *
50153476 TTCAATCATTTTACCCTTCAGGGGTAA
1 TTCGATCATTTTACCCTTCAAGGGTAA
* *
50153503 TTTGATCATTTTACCCTTCACGGGTAA
1 TTCGATCATTTTACCCTTCAAGGGTAA
* * *
50153530 TTCAATCATTTTACCCTCCAAAGGTAA
1 TTCGATCATTTTACCCTTCAAGGGTAA
*
50153557 TTCGGTCATTT
1 TTCGATCATTT
50153568 AAAAACCTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (27 bp):
TTCGATCATTTTACCCTTCAAGGGTAA
Found at i:50155011 original size:25 final size:25
Alignment explanation
Indices: 50154974--50155027 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
50154964 TGAACCTCTG
50154974 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* *
50154999 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
50155024 ACCT
1 ACCT
50155028 TTCCACTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.48, G:0.13, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:50155033 original size:22 final size:22
Alignment explanation
Indices: 50154978--50155033 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 22
50154968 CCTCTGACCT
*
50154978 CCTTACCACACCTGTGACGCCA
1 CCTTTCCACACCTGTGACGCCA
*
50155000 CCTCCTTGCCACACCTGTGTCGCCA
1 CCT--TT-CCACACCTGTGACGCCA
50155025 CCTTTCCAC
1 CCTTTCCAC
50155034 TACACCACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 1 0.03
25 19 0.66
ACGTcount: A:0.16, C:0.48, G:0.12, T:0.23
Consensus pattern (22 bp):
CCTTTCCACACCTGTGACGCCA
Found at i:50157325 original size:16 final size:16
Alignment explanation
Indices: 50157295--50157350 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
50157285 GGTAAGTGTT
50157295 CTTTAGA-TTTGAAAA
1 CTTTAGACTTTGAAAA
*
50157310 CTTTAGACTGTGAAAA
1 CTTTAGACTTTGAAAA
*
50157326 CTATAGACTTTGAAAA
1 CTTTAGACTTTGAAAA
50157342 CTTTAGACT
1 CTTTAGACT
50157351 ATATACTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 7 0.19
16 29 0.81
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (16 bp):
CTTTAGACTTTGAAAA
Found at i:50157351 original size:23 final size:23
Alignment explanation
Indices: 50157325--50157371 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
50157315 GACTGTGAAA
50157325 ACTATAGACTTTGAAAACTTTAG
1 ACTATAGACTTTGAAAACTTTAG
* *
50157348 ACTATATACTTTGAAACCTTTAG
1 ACTATAGACTTTGAAAACTTTAG
50157371 A
1 A
50157372 TTATGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (23 bp):
ACTATAGACTTTGAAAACTTTAG
Found at i:50166387 original size:17 final size:17
Alignment explanation
Indices: 50166335--50166387 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
50166325 TATGGAAACA
* *
50166335 TAATCTTCGAGGATATG
1 TAATCTTTGAAGATATG
*
50166352 CAATCTTTGATATGATATG
1 TAATCTTTGA-A-GATATG
50166371 TAATCTTTGAAGATATG
1 TAATCTTTGAAGATATG
50166388 ATTTTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (17 bp):
TAATCTTTGAAGATATG
Found at i:50173570 original size:50 final size:50
Alignment explanation
Indices: 50173482--50173603 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
50173472 ATCTATCGTA
* * * * *
50173482 GCTTGTCCATAAAATGTTATCAGTGGCAGCATAACTGCATATCAATGGAG
1 GCTTGTCCACAAAGTGTTATCAGTGACAGCATAACTGCAAATCAATAGAG
* * ** * *
50173532 GTTTGTCCACAAAGTGTTATCAGTGATAGTTTATCTGCAAATCAATAGTG
1 GCTTGTCCACAAAGTGTTATCAGTGACAGCATAACTGCAAATCAATAGAG
50173582 GCTTGTCCACAAATGGTGTTAT
1 GCTTGTCCACAAA--GTGTTAT
50173604 GGATGGATGA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 51 0.88
52 7 0.12
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (50 bp):
GCTTGTCCACAAAGTGTTATCAGTGACAGCATAACTGCAAATCAATAGAG
Found at i:50180561 original size:24 final size:24
Alignment explanation
Indices: 50180531--50180646 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
50180521 CCCTCGGGGT
50180531 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTCTGTGATG
* *
50180555 TAAATGATTGATTTGTCCGAGATG
1 TAAATGATTGATTTGTCTGTGATG
* * *
50180579 TAAATGACTGATTTGTCTATGATT
1 TAAATGATTGATTTGTCTGTGATG
* * * *
50180603 TAAATGACTGATTTGCCTGTAATT
1 TAAATGATTGATTTGTCTGTGATG
*
50180627 TAAATGGTTGATTTGTCTGT
1 TAAATGATTGATTTGTCTGT
50180647 AATTTGTATG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.44
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTGATG
Found at i:50180767 original size:27 final size:27
Alignment explanation
Indices: 50180732--50180791 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
50180722 GGAAGTAGTG
50180732 TTCTGGTGGCTCT-GCCACA-ATCACTGT
1 TTCTGGTGGCT-TGGCCACATAT-ACTGT
50180759 TTCTGGTGGCTTGGCCACATATACTGT
1 TTCTGGTGGCTTGGCCACATATACTGT
*
50180786 TACTGG
1 TTCTGG
50180792 CAGTTTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (27 bp):
TTCTGGTGGCTTGGCCACATATACTGT
Found at i:50180864 original size:32 final size:32
Alignment explanation
Indices: 50180828--50180966 Score: 161
Period size: 32 Copynumber: 4.3 Consensus size: 32
50180818 CTTTTTACCG
* * *
50180828 ATCATATTACCATTACCGATGGCTGTGTGCCA
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
* **
50180860 ATCATATTACTACTACTGATGGCTTTGTGCTG
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
* * * * *
50180892 ATCATACTACTATTACTGATCGCTGTGTGTCG
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
* *
50180924 ATCATATTACTACTACTGGTGGCTTTGTGCCA
1 ATCATATTACTACTACTGATGGCTGTGTGCCA
50180956 ATCATATTACT
1 ATCATATTACT
50180967 GTACTTATGG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 88 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (32 bp):
ATCATATTACTACTACTGATGGCTGTGTGCCA
Found at i:50180917 original size:64 final size:64
Alignment explanation
Indices: 50180812--50180961 Score: 201
Period size: 64 Copynumber: 2.3 Consensus size: 64
50180802 GTGATGCTAT
* * * *
50180812 TGATGGCTTTTTACCGATCATATTACCATTACCGATGGCTGTGTGCCAATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATACTACCATTACCGATCGCTGTGTGCCAATCATATTACTACTAC
* * * * *
50180876 TGATGGCTTTGTGCTGATCATACTACTATTACTGATCGCTGTGTGTCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATACTACCATTACCGATCGCTGTGTGCCAATCATATTACTACTAC
* *
50180940 TGGTGGCTTTGTGCCAATCATA
1 TGATGGCTTTGTGCCGATCATA
50180962 TTACTGTACT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGATCATACTACCATTACCGATCGCTGTGTGCCAATCATATTACTACTAC
Found at i:50182128 original size:40 final size:40
Alignment explanation
Indices: 50182084--50182463 Score: 474
Period size: 40 Copynumber: 9.5 Consensus size: 40
50182074 ATAATTATTG
* * *
50182084 CTGAATGCACAAACATGCCCATGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
50182124 CTGAATACACATACGTGCCCCTATTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* **
50182164 CTGAATGCACATACGTGCCCTTGTTTGTACTTTAGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
50182204 CTGAATGCACATATGTGCCCCTATTTGTACTTCAGTACCT
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
50182244 CTGAATGTACATACGTGCCCCTGTTTGTAATTCGATACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
50182284 CTGAATGCACATACGTACCCCTGTTTGTACTTCAGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * ** * *
50182324 TTGAATACACATACGTGACATTATTTGTACTTCGGTACCA
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
50182364 CTGAATGCACATATGTGCCCCTATTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
**
50182404 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGACACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
*
50182444 CTGAACT-CACATACATGCCC
1 CTGAA-TGCACATACGTGCCC
50182464 TATTTATACT
Statistics
Matches: 289, Mismatches: 50, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
40 288 1.00
41 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.31
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:50182321 original size:20 final size:19
Alignment explanation
Indices: 50182185--50182323 Score: 62
Period size: 20 Copynumber: 6.9 Consensus size: 19
50182175 TACGTGCCCT
50182185 TGTTTGTACTTTAGTACCCC
1 TGTTTGTAC-TTAGTACCCC
** * * *
50182205 TGAATGCACATATGTGCCCC
1 TGTTTGTACTTA-GTACCCC
* *
50182225 TATTTGTACTTCAGTACCTC
1 TGTTTGTACTT-AGTACCCC
** * *
50182245 TGAATGTACATACGTGCCCC
1 TGTTTGTACTTA-GTACCCC
* *
50182265 TGTTTGTAATTCGATACCCC
1 TGTTTGTACTTAG-TACCCC
** * *
50182285 TGAATGCACATACGTACCCC
1 TGTTTGTACTTA-GTACCCC
50182305 TGTTTGTACTTCAGTACCC
1 TGTTTGTACTT-AGTACCC
50182324 TTGAATACAC
Statistics
Matches: 79, Mismatches: 34, Indels: 12
0.63 0.27 0.10
Matches are distributed among these distances:
19 4 0.05
20 72 0.91
21 3 0.04
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.35
Consensus pattern (19 bp):
TGTTTGTACTTAGTACCCC
Found at i:50183533 original size:27 final size:27
Alignment explanation
Indices: 50183503--50183563 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
50183493 TCAACTCCTA
* *
50183503 GGGGTATAACGGTCATTTTACCCTTCG
1 GGGGTATAACAGTAATTTTACCCTTCG
***
50183530 GGGGTATTTTAGTAATTTTACCCTTCG
1 GGGGTATAACAGTAATTTTACCCTTCG
*
50183557 AGGGTAT
1 GGGGTAT
50183564 TTCGATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGGTATAACAGTAATTTTACCCTTCG
Found at i:50183564 original size:27 final size:27
Alignment explanation
Indices: 50183517--50183845 Score: 300
Period size: 27 Copynumber: 12.3 Consensus size: 27
50183507 TATAACGGTC
*
50183517 ATTTTACCCTTCGGGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
*
50183544 ATTTTACCCTTCGAGGGTA-TTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
* * *
50183571 ATTTTACCCATCAAGGGTA-TTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
*
50183598 ATTTTACCCTTTG-GGGTA-TTTATGTA
1 ATTTTACCCTTCGAGGGTATTTTA-GTA
* *
50183624 ATTTTACCCTTTGAGGATATTTT-GATA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
* ** * *
50183651 ATTTAACTTTTAG-GGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* * *
50183677 ATTTTACACTTCGAGGGTA-TTTCGATT
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
* * * * *
50183704 ATTTTACCCTTTGAGGTTAATTCAATA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* * *
50183731 ATTTTACCTTTCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
50183758 ATTTTACCCTTCGAGGGTATTTTA-TA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
50183784 ATTTTACCCTTCGAGGGTATTTTA-TA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* *
50183810 ATTTTACCCTTCGAAGGTA-TTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
50183837 ATTTTACCC
1 ATTTTACCC
50183846 ACGATACGCA
Statistics
Matches: 254, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 95 0.37
27 151 0.59
28 5 0.02
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTAGTA
Found at i:50183645 original size:53 final size:53
Alignment explanation
Indices: 50183517--50183845 Score: 337
Period size: 53 Copynumber: 6.2 Consensus size: 53
50183507 TATAACGGTC
* * * *
50183517 ATTTTACCCTTCGGGGGTATTT-TAGTAATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCTTTGAGGGTATTTAG-TA
* *
50183571 ATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTTG-GGGTATTTATGTA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTA-GTA
* * * * *
50183624 ATTTTACCCTTTGAGGATATTTTGATAA-TTTA-ACTTTTAGGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGA-GGGTATTT-AGTA
* * * * *
50183677 ATTTTACACTTCGAGGGTATTTCGATTATTTTACCCTTTGAGGTTAATTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGT-ATTTAGTA
* * *
50183731 ATTTTACCTTTCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTTA-TA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTA-TTTAGTA
* * * *
50183784 ATTTTACCCTTCGAGGGTATTT-TATAATTTTACCCTTCGAAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTAG-TA
50183837 ATTTTACCC
1 ATTTTACCC
50183846 ACGATACGCA
Statistics
Matches: 230, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
51 7 0.03
52 25 0.11
53 102 0.44
54 87 0.38
55 9 0.04
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTAGTA
Found at i:50184787 original size:17 final size:16
Alignment explanation
Indices: 50184765--50184801 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
50184755 TGGCAACAAG
50184765 AGAAGAAAAAATAGAAA
1 AGAAGAAAAAA-AGAAA
*
50184782 AGAAGAAGAAAAGAAA
1 AGAAGAAAAAAAGAAA
50184798 AGAA
1 AGAA
50184802 ATTCGGCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (16 bp):
AGAAGAAAAAAAGAAA
Found at i:50186192 original size:41 final size:42
Alignment explanation
Indices: 50186135--50186223 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
50186125 ACAGCCTAGC
* *
50186135 ACACGGCCTAGCACAC-GACATGTG-GTGCTACTCAGTGAGTT
1 ACACGGCCTAGCACACGGACATATGAG-GCTACTCAGTAAGTT
* *
50186176 ACACGGCCTGGCACACGGGCATATGAGGCTACTCAGTAAGTT
1 ACACGGCCTAGCACACGGACATATGAGGCTACTCAGTAAGTT
50186218 ACACGG
1 ACACGG
50186224 GTGAGGACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 15 0.36
42 26 0.62
43 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (42 bp):
ACACGGCCTAGCACACGGACATATGAGGCTACTCAGTAAGTT
Found at i:50186862 original size:17 final size:18
Alignment explanation
Indices: 50186833--50186869 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
50186823 ATCAGCACTT
*
50186833 TTTTTATTCTTCTTTTTA
1 TTTTTATTCTTCTTTATA
50186851 TTTTTATT-TTCTTTATA
1 TTTTTATTCTTCTTTATA
50186868 TT
1 TT
50186870 ATATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTCTTCTTTATA
Found at i:50197534 original size:48 final size:48
Alignment explanation
Indices: 50197458--50197688 Score: 345
Period size: 48 Copynumber: 4.8 Consensus size: 48
50197448 ATGTTCTGTC
* * **
50197458 ATGACACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
*
50197506 ATGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
*
50197554 ATGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
* * * * *
50197602 ATGATACAAGGGTGGCACGGACTGTGTGTAGACCACCAATAATCTGTT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
* *
50197650 AAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCGA
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGA
50197689 AAATCTGCTA
Statistics
Matches: 167, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 167 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATT
Found at i:50197694 original size:48 final size:48
Alignment explanation
Indices: 50197458--50197743 Score: 313
Period size: 48 Copynumber: 5.9 Consensus size: 48
50197448 ATGTTCTGTC
* * ** * *
50197458 ATGACACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAAAATCTATT
* * *
50197506 ATGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAAAATCTATT
* * *
50197554 ATGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAAAATCTATT
* * *
50197602 ATGATACAAGGGTGGCACGGACTGTGTGTAGACCACC-AATAATCTGTT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAA-AATCTATT
* * **
50197650 AAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCGAAAATCTGCT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAAAATCTATT
* * * * * * *
50197698 ATTACACAAAGGTGGTATGGACTGTGTGCAGACCATCGAGAAATCT
1 ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGA-AAATCT
50197744 GTTTTTATTC
Statistics
Matches: 210, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.00
48 201 0.96
49 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAAAATCTATT
Found at i:50197712 original size:96 final size:96
Alignment explanation
Indices: 50197463--50197732 Score: 353
Period size: 96 Copynumber: 2.8 Consensus size: 96
50197453 CTGTCATGAC
* **
50197463 ACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCACGGAC
1 ACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCACGGAC
* * *
50197528 TGTGTGCA-AGCCACCGATATTCTATTATGAT
66 TGTGTGCAGA-CCACCAATAATCTATTAAGAT
*
50197559 ACAAGGGTGGCACGGACTGTGTGCAAGCCACCGATATTCTATTATGATACAAGGGTGGCACGGAC
1 ACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCACGGAC
* *
50197624 TGTGTGTAGACCACCAATAATCTGTTAAGAT
66 TGTGTGCAGACCACCAATAATCTATTAAGAT
* * * ** * * * * *
50197655 ACAAGGGTGGCACGGACTATGTGCAGGCCACCGAAAATCTGCTATTACACAAAGGTGGTATGGAC
1 ACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCACGGAC
50197720 TGTGTGCAGACCA
66 TGTGTGCAGACCA
50197733 TCGAGAAATC
Statistics
Matches: 152, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 151 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (96 bp):
ACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCACGGAC
TGTGTGCAGACCACCAATAATCTATTAAGAT
Found at i:50197723 original size:144 final size:144
Alignment explanation
Indices: 50197458--50197727 Score: 351
Period size: 144 Copynumber: 1.9 Consensus size: 144
50197448 ATGTTCTGTC
* * * * *
50197458 ATGACACAAGAGTGGCATAGACTGTGTGCAGGCCACCGATATTCTATTATGATACAAGGGTGGCA
1 ATGACACAAGAGTGGCACAGACTGTGTGCAGACCACCAATAATCTATTAAGATACAAGGGTGGCA
* * * * * *
50197523 CGGACTGTGTGCAAGCCACCGATATTCTATTATGATACAAGGGTGGCACGGACTGTGTGCAAGCC
66 CGGACTATGTGCAAGCCACCGAAAATCTACTATGACACAAAGGTGGCACGGACTGTGTGCAAGCC
50197588 ACCGATATTCTATT
131 ACCGATATTCTATT
* * * * *
50197602 ATGATACAAGGGTGGCACGGACTGTGTGTAGACCACCAATAATCTGTTAAGATACAAGGGTGGCA
1 ATGACACAAGAGTGGCACAGACTGTGTGCAGACCACCAATAATCTATTAAGATACAAGGGTGGCA
* * * * *
50197667 CGGACTATGTGCAGGCCACCGAAAATCTGCTATTACACAAAGGTGGTATGGACTGTGTGCA
66 CGGACTATGTGCAAGCCACCGAAAATCTACTATGACACAAAGGTGGCACGGACTGTGTGCA
50197728 GACCATCGAG
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
144 105 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (144 bp):
ATGACACAAGAGTGGCACAGACTGTGTGCAGACCACCAATAATCTATTAAGATACAAGGGTGGCA
CGGACTATGTGCAAGCCACCGAAAATCTACTATGACACAAAGGTGGCACGGACTGTGTGCAAGCC
ACCGATATTCTATT
Done.