Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 139 of 255
Found at i:44806901 original size:15 final size:15
Alignment explanation
Indices: 44806881--44806937 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44806871 ATTCAATATT
44806881 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44806896 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
44806915 AATATATTAATAATA
1 AATATTTTAATAATA
*
44806930 AATGTTTT
1 AATATTTT
44806938 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44809531 original size:6 final size:6
Alignment explanation
Indices: 44809520--44809546 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44809510 AGAGATGGGA
44809520 TTTAAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT
44809547 TTTCTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:44813312 original size:43 final size:42
Alignment explanation
Indices: 44813265--44813402 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 42
44813255 CCCAAATGTC
* *
44813265 GTCTTACATGTAATTAAAAATCGATGCC-ACTGTCCCAGACAAG
1 GTCTTACACGTAATCAAAAAT-GATGCCAAC-GTCCCAGACAAG
* * **
44813308 GTCTTACACGAAATCAAATATGATGCCAACGTCCCAGACGTG
1 GTCTTACACGTAATCAAAAATGATGCCAACGTCCCAGACAAG
* * * * **
44813350 GTCTTACACGTAAATCATAAGTCGATGCTAACATCCCAGACGTG
1 GTCTTACACGT-AATCAAAAAT-GATGCCAACGTCCCAGACAAG
44813394 GTCTTACAC
1 GTCTTACAC
44813403 AAAAACACAT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
42 26 0.32
43 26 0.32
44 28 0.35
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GTCTTACACGTAATCAAAAATGATGCCAACGTCCCAGACAAG
Found at i:44813344 original size:42 final size:44
Alignment explanation
Indices: 44813245--44813402 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 44
44813235 AGCTCGTACA
* * * * * * *
44813245 ATGCCAACGTCCCAAATGTCGTCTTACATGT-AATTAAAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
** *
44813288 ATGCC-ACTGTCCCAGACAAGGTCTTACACG-AAATCA-AA-TATG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
44813330 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
* *
44813374 ATGCTAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
44813403 AAAAACACAT
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
Found at i:44813388 original size:44 final size:42
Alignment explanation
Indices: 44813297--44813402 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 42
44813287 GATGCCACTG
** * *
44813297 TCCCAGACAAGGTCTTACACGAAATCAAATATGATGCCAACG
1 TCCCAGACGTGGTCTTACACGAAATCAAATACGATGCCAACA
*
44813339 TCCCAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCTAACA
1 TCCCAGACGTGGTCTTACACG-AAATCA-AA-TACGATGCCAACA
44813383 TCCCAGACGTGGTCTTACAC
1 TCCCAGACGTGGTCTTACAC
44813403 AAAAACACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 19 0.34
43 6 0.11
44 30 0.54
45 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAAATCAAATACGATGCCAACA
Found at i:44817658 original size:51 final size:49
Alignment explanation
Indices: 44817528--44817772 Score: 319
Period size: 49 Copynumber: 4.9 Consensus size: 49
44817518 GCTATTGTGA
44817528 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * **
44817577 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* * **
44817628 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
44817677 AGGTCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
44817727 GGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
44817773 GCTTCGGCTA
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 83 0.50
50 43 0.26
51 40 0.24
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:44817663 original size:28 final size:27
Alignment explanation
Indices: 44817632--44817715 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
44817622 AACTTTGATC
44817632 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* * *
44817660 ACGTGTATCAG-A-T-GGT-TAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
44817682 ACGTGTGTAGTACTAAGTGCAGGTTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
44817710 ACGTGT
1 ACGTGT
44817716 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:44821976 original size:15 final size:15
Alignment explanation
Indices: 44821956--44821985 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44821946 CATTTTATTT
44821956 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
44821971 ATATTATGATAATTA
1 ATATTAGGATAATTA
44821986 TTAAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:44822029 original size:10 final size:10
Alignment explanation
Indices: 44822010--44822041 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
44822000 TTTTAGGATT
44822010 TTAT-TTTAA
1 TTATCTTTAA
44822019 TTATCTTTAA
1 TTATCTTTAA
44822029 TTATCTTTAA
1 TTATCTTTAA
44822039 TTA
1 TTA
44822042 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:44826998 original size:40 final size:40
Alignment explanation
Indices: 44826947--44827770 Score: 1366
Period size: 40 Copynumber: 20.6 Consensus size: 40
44826937 CATTTGAATG
44826947 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
44826987 ATATTCGGGCTAAGACCTGAAGGTATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44827027 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44827067 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44827107 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44827147 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44827187 ATATCCGGGATAAGACTCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44827227 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44827267 ATATCCAGGCTAAGACCCGAAGGCATTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44827307 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44827347 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44827387 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44827426 ATATCCGGGATAAGACCCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCC-GAAGGCATTTGTGCGAATTGAT
*
44827467 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44827507 ATATCCGGGCGAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44827547 ATATCCGGGATAAGACCCGAAGGCA-TTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
44827586 ATATCCGGGATAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44827626 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44827666 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
44827706 ATATCCGGGCTAAGACCCGAAGACATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44827746 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
44827771 ATTGAGCTTG
Statistics
Matches: 738, Mismatches: 41, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
39 69 0.09
40 638 0.86
41 31 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:44828704 original size:40 final size:40
Alignment explanation
Indices: 44828649--44828760 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
44828639 CACCATCATC
** *
44828649 ATTTGATATATCCGGGCGAAGACCCGAAGGCATTTGTGCG
1 ATTTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCG
44828689 ATTTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCG
1 ATTTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCG
* * * *
44828729 AGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATTTGATATATCCGGGATAAGACCCGAAGGCA
44828761 ATTGAGCTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (40 bp):
ATTTGATATATCCGGGATAAGACCCGAAGGCATTCGTGCG
Found at i:44835310 original size:15 final size:15
Alignment explanation
Indices: 44835290--44835319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44835280 TATTTTATTT
*
44835290 ATATTAGGATAATTA
1 ATATTAAGATAATTA
44835305 ATATTAAGATAATTA
1 ATATTAAGATAATTA
44835320 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:44835347 original size:27 final size:26
Alignment explanation
Indices: 44835286--44835348 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
44835276 ACTCTATTTT
44835286 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
44835313 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
44835341 ATTTTATT
1 ATTTTATT
44835349 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:44836206 original size:13 final size:13
Alignment explanation
Indices: 44836188--44836216 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44836178 GGTTGTTTAT
44836188 TAAACTAATTAAC
1 TAAACTAATTAAC
44836201 TAAACTAATTAAC
1 TAAACTAATTAAC
44836214 TAA
1 TAA
44836217 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:44839115 original size:11 final size:11
Alignment explanation
Indices: 44839094--44839124 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
44839084 AATTAAATTG
44839094 AAATGAAAATAA
1 AAAT-AAAATAA
44839106 AAATAAAATAA
1 AAATAAAATAA
44839117 AAATAAAA
1 AAATAAAA
44839125 AGATAGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:44841963 original size:25 final size:25
Alignment explanation
Indices: 44841929--44841980 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
44841919 TCCGTAGCCT
44841929 TCGTTCTTCATGAGTGTGTCCTCTA
1 TCGTTCTTCATGAGTGTGTCCTCTA
*
44841954 TCGTTCTTCATGAGTGTGTCCTTTA
1 TCGTTCTTCATGAGTGTGTCCTCTA
44841979 TC
1 TC
44841981 CATAGTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (25 bp):
TCGTTCTTCATGAGTGTGTCCTCTA
Found at i:44841989 original size:25 final size:25
Alignment explanation
Indices: 44841936--44841989 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
44841926 CCTTCGTTCT
** **
44841936 TCATGAGTGTGTCCTCTATCGTTCT
1 TCATGAGTGTGTCCTCTATCCATAG
*
44841961 TCATGAGTGTGTCCTTTATCCATAG
1 TCATGAGTGTGTCCTCTATCCATAG
44841986 TCAT
1 TCAT
44841990 ATTGTCAGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.43
Consensus pattern (25 bp):
TCATGAGTGTGTCCTCTATCCATAG
Found at i:44847682 original size:31 final size:31
Alignment explanation
Indices: 44847645--44847706 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
44847635 GACTTTCTAG
*
44847645 ACTGTTTTGTTTTCAATTTTGAATTTGGTTT
1 ACTGTTTGGTTTTCAATTTTGAATTTGGTTT
*
44847676 ACTGTTTGGTTTTCAATTTTGGATTTGGTTT
1 ACTGTTTGGTTTTCAATTTTGAATTTGGTTT
44847707 TGTTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.06, G:0.19, T:0.60
Consensus pattern (31 bp):
ACTGTTTGGTTTTCAATTTTGAATTTGGTTT
Found at i:44847720 original size:31 final size:30
Alignment explanation
Indices: 44847654--44847720 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
44847644 GACTGTTTTG
**
44847654 TTTTCAATTTTGAATTTGGTTTACTGTTTGG
1 TTTTCAATTTTGAATTTGGTTTA-TGTTTAA
*
44847685 TTTTCAATTTTGGATTTGGTTT-TGTTTTAAA
1 TTTTCAATTTTGAATTTGGTTTATG-TTT-AA
44847716 TTTTC
1 TTTTC
44847721 CTGTGATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 2 0.06
30 3 0.10
31 26 0.84
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.61
Consensus pattern (30 bp):
TTTTCAATTTTGAATTTGGTTTATGTTTAA
Found at i:44847751 original size:15 final size:17
Alignment explanation
Indices: 44847731--44847762 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44847721 CTGTGATGTT
44847731 CGAAAA-AA-TATTTTA
1 CGAAAACAACTATTTTA
44847746 CGAAAACAACTATTTTA
1 CGAAAACAACTATTTTA
44847763 TGCAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (17 bp):
CGAAAACAACTATTTTA
Found at i:44851069 original size:26 final size:26
Alignment explanation
Indices: 44851040--44851147 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
44851030 TGGTACAAAT
44851040 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44851066 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44851092 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44851118 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44851144 TGAT
1 TGAT
44851148 GGTAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44852809 original size:27 final size:26
Alignment explanation
Indices: 44852769--44852909 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 26
44852759 AGGAAGCGTC
*
44852769 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44852796 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
44852823 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44852850 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
44852877 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
*
44852904 GTGGTG
1 CTGGTG
44852910 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:44852851 original size:54 final size:54
Alignment explanation
Indices: 44852769--44852909 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
44852759 AGGAAGCGTC
44852769 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
44852823 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
44852877 CTGGTGGCTCTACCACAA-TATCTGTATGTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
44852910 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:44859767 original size:27 final size:27
Alignment explanation
Indices: 44859727--44859885 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
44859717 AGGAAGCGTC
*
44859727 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
44859754 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
44859781 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
44859808 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
44859835 TTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
44859862 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
44859886 GCAGCCTCGG
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
26 10 0.09
27 100 0.88
28 3 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:44859809 original size:54 final size:53
Alignment explanation
Indices: 44859727--44859885 Score: 221
Period size: 54 Copynumber: 3.0 Consensus size: 53
44859717 AGGAAGCGTC
44859727 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
44859781 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * * * * *
44859835 TTGGTGGCTCTACCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
44859886 GCAGCCTCGG
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 14 0.15
54 82 0.85
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:44869521 original size:48 final size:48
Alignment explanation
Indices: 44869450--44869685 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 48
44869440 CCATTTGGGT
* * *
44869450 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * ** *
44869498 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGTGAT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * * * * *
44869546 GTTGTGAGAGCTAGTGTAAAACCATGTCTGGGACATATGCATAGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACAT-GGCATCGGCCA-C
* * * * *
44869595 GAGATGAGAGCTAGTGTAATACCATGTTTGGGACCTGGCATCGGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* *
44869643 GACATGTA-AGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GATATG-AGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
44869686 ACAATTCACC
Statistics
Matches: 152, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
48 113 0.74
49 39 0.26
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
Found at i:44869659 original size:97 final size:96
Alignment explanation
Indices: 44869459--44869683 Score: 242
Period size: 97 Copynumber: 2.3 Consensus size: 96
44869449 TGATATGTGT
* *
44869459 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCCACGAGATGAGAGCCAGTGTAAGACCATG
* **
44869524 TTTGGAACATGGCATTGGTGATGTTGTGAGA
66 TTTGGAACATGGCATCGGTGATCATGTGAGA
* * * * * *
44869555 GCTAGTGTAAAACCATGTCTGGGACATATGCATAGG-CATTGAGATGAGAGCTAGTGTAATACCA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GGCATAGGCCA-CGAGATGAGAGCCAGTGTAAGACCA
* *
44869619 TGTTTGGGACCTGGCATCGGCCTCGA-CATGT-A-A
64 TGTTTGGAACATGGCATCGG--T-GATCATGTGAGA
* *
44869652 GCCAGTGTAAGACCATGTTTGGAACATGGCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
44869684 CGACAATTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
96 31 0.29
97 68 0.64
98 1 0.01
99 4 0.04
100 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATAGGCCACGAGATGAGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGGTGATCATGTGAGA
Found at i:44870906 original size:21 final size:21
Alignment explanation
Indices: 44870880--44870927 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
44870870 TGTTAGGAAG
44870880 ACACGGGCGTGTCGCCCTTTC
1 ACACGGGCGTGTCGCCCTTTC
44870901 ACACGGGCGTGTCGCCCTTTC
1 ACACGGGCGTGTCGCCCTTTC
44870922 ACACGG
1 ACACGG
44870928 ACTTGTGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (21 bp):
ACACGGGCGTGTCGCCCTTTC
Found at i:44870938 original size:21 final size:21
Alignment explanation
Indices: 44870880--44870939 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
44870870 TGTTAGGAAG
*
44870880 ACACGGGCGTGTCGCCCTTTC
1 ACACGGACGTGTCGCCCTTTC
*
44870901 ACACGGGCGTGTCGCCCTTTC
1 ACACGGACGTGTCGCCCTTTC
* *
44870922 ACACGGACTTGTGGCCCT
1 ACACGGACGTGTCGCCCT
44870940 ATCAGCTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.12, C:0.37, G:0.28, T:0.23
Consensus pattern (21 bp):
ACACGGACGTGTCGCCCTTTC
Found at i:44876543 original size:44 final size:42
Alignment explanation
Indices: 44876480--44876636 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
44876470 TGTGTTTTTG
* *
44876480 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATAATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTTACA
* *
44876524 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTACA
** * *
44876566 TGTAAGACCTTGTCTGGGACAATGGCATCTATATTTGA-TTACA
1 TGTAAGACCACGTCTGGGACATTGGCATC--GATTTGATTTACA
* *
44876609 TGTAAGACCACATCTGGGAGATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
44876637 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.31
43 35 0.36
44 30 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:44878136 original size:27 final size:27
Alignment explanation
Indices: 44878106--44878191 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
44878096 AATACACCAA
*
44878106 AAAGGCAATCCATACAGAGTATGCCAC
1 AAAGGCAATCCATACAAAGTATGCCAC
44878133 AAAGGCAATCCATACAAAGTATGCCAC
1 AAAGGCAATCCATACAAAGTATGCCAC
* * * *
44878160 AAAGGCGATTCATACATAGTACGCCAC
1 AAAGGCAATCCATACAAAGTATGCCAC
44878187 AAAGG
1 AAAGG
44878192 TTAATAGGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.15
Consensus pattern (27 bp):
AAAGGCAATCCATACAAAGTATGCCAC
Found at i:44880862 original size:46 final size:46
Alignment explanation
Indices: 44880812--44880937 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
44880802 TGGTTGAGCA
*
44880812 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
44880858 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
44880904 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44880938 GGGGCGGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:44882496 original size:17 final size:19
Alignment explanation
Indices: 44882462--44882500 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
44882452 AAAAAATGCT
44882462 AAAAGAAAATAGACGAGAG
1 AAAAGAAAATAGACGAGAG
44882481 AAAAGAAAA-A-ACGAGAG
1 AAAAGAAAATAGACGAGAG
44882498 AAA
1 AAA
44882501 TATTGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 1 0.05
19 9 0.45
ACGTcount: A:0.69, C:0.05, G:0.23, T:0.03
Consensus pattern (19 bp):
AAAAGAAAATAGACGAGAG
Found at i:44884633 original size:19 final size:19
Alignment explanation
Indices: 44884606--44884643 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44884596 GGTTAACCTC
44884606 AAAAAATTTTAAAAATTAT
1 AAAAAATTTTAAAAATTAT
* *
44884625 AAAATATTTTCAAAATTAT
1 AAAAAATTTTAAAAATTAT
44884644 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAAATTTTAAAAATTAT
Found at i:44884956 original size:20 final size:20
Alignment explanation
Indices: 44884940--44884978 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
44884930 CAATAAACTC
44884940 TAAACCCTAAAC-TTAAACCT
1 TAAA-CCTAAACATTAAACCT
44884960 TAAACCTAAACATTAAACC
1 TAAACCTAAACATTAAACC
44884979 ATGAATCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACCTAAACATTAAACCT
Found at i:44884975 original size:13 final size:13
Alignment explanation
Indices: 44884933--44884998 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
44884923 ACCTTACCAA
*
44884933 TAAACTCTAAACCC
1 TAAAC-CTAAACCT
*
44884947 TAAACTTAAACCT
1 TAAACCTAAACCT
*
44884960 TAAACCTAAACAT
1 TAAACCTAAACCT
* *
44884973 TAAACCATGAATCT
1 TAAACC-TAAACCT
44884987 TAAACCATAAAC
1 TAAACC-TAAAC
44884999 TCCAAACTCC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
13 23 0.55
14 19 0.45
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAACCTAAACCT
Found at i:44888081 original size:40 final size:39
Alignment explanation
Indices: 44888018--44888099 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 39
44888008 TAACGACTTA
*
44888018 TCGGCTAAAATGGCACTTAGTGTGCAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * * *
44888057 TCGGTTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
44888097 TCG
1 TCG
44888100 ACTATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 9 0.24
40 28 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:44890905 original size:45 final size:47
Alignment explanation
Indices: 44890842--44890966 Score: 137
Period size: 50 Copynumber: 2.6 Consensus size: 47
44890832 CATGTGAACT
* *
44890842 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CTTGATAT-GTGTC
1 AGTGTAAGACCATATCTGGGACATGGCATCAGCCTTGATATAGAGTC
* * * **
44890887 AGTGTAAGAGCATATCTGGGATATGGCTTTGGCCTTGATATAAGAGAGTC
1 AGTGTAAGACCATATCTGGGACATGGCATCAGCCTTGATAT---AGAGTC
*
44890937 AGTGTAAGACCATATATGGGACATGGCATC
1 AGTGTAAGACCATATCTGGGACATGGCATC
44890967 GACTCTATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
45 26 0.41
46 8 0.13
50 29 0.46
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (47 bp):
AGTGTAAGACCATATCTGGGACATGGCATCAGCCTTGATATAGAGTC
Found at i:44891037 original size:43 final size:43
Alignment explanation
Indices: 44890973--44891082 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
44890963 CATCGACTCT
* *
44890973 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTG
1 ATATGTGATTACATGTAAGACCATGTCTGGGACAGTGACATCG
* * * *
44891016 -TATTGTGATTTCATGTAAGACCCTGTGTGGGACAGTGGCATCG
1 ATA-TGTGATTACATGTAAGACCATGTCTGGGACAGTGACATCG
*
44891059 ATATGTGATAACATGTAAGACCAT
1 ATATGTGATTACATGTAAGACCAT
44891083 ATCTAGGATA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.04
43 52 0.93
44 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGACAGTGACATCG
Found at i:44894134 original size:29 final size:28
Alignment explanation
Indices: 44894098--44894175 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
44894088 TCATGAGATT
44894098 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
44894128 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
44894155 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
44894176 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:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:44894523 original size:171 final size:174
Alignment explanation
Indices: 44894128--44894626 Score: 923
Period size: 171 Copynumber: 2.9 Consensus size: 174
44894118 AAATTGTACA
44894128 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
44894193 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
44894258 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
44894302 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
44894367 TGTGCGAACCCAATATATA-TTTCTATAAATTATTTACATTAA-GGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
44894430 -TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
44894473 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * *
44894538 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
44894603 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
44894627 ACCTTGAGTT
Statistics
Matches: 316, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
171 124 0.39
172 43 0.14
173 42 0.13
174 107 0.34
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:44902463 original size:29 final size:30
Alignment explanation
Indices: 44902392--44902470 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 30
44902382 GTCATGAGAT
*
44902392 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
44902423 -GCACAGCACTAAGTGTGCGAGTTTAAA-GTACA
1 TG----GCACTAAGTGTGCGAGTTTAAATGTACA
44902455 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44902471 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
29 14 0.33
30 1 0.02
32 5 0.12
33 1 0.02
34 21 0.50
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:44902718 original size:174 final size:174
Alignment explanation
Indices: 44902428--44902755 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
44902418 GTACAGCACA
*
44902428 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
44902493 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
44902558 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
44902602 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
44902667 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
44902732 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
44902756 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:44902996 original size:1 final size:1
Alignment explanation
Indices: 44902981--44903082 Score: 186
Period size: 1 Copynumber: 102.0 Consensus size: 1
44902971 AACTATGGTA
* *
44902981 TTTTTTATTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
44903046 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
44903083 GTTTATAGTT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 97 1.00
ACGTcount: A:0.01, C:0.01, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:44903117 original size:1 final size:1
Alignment explanation
Indices: 44903111--44903273 Score: 326
Period size: 1 Copynumber: 163.0 Consensus size: 1
44903101 ATGGAATATT
44903111 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44903176 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44903241 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44903274 CTCATTTCAT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 162 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:44903519 original size:29 final size:29
Alignment explanation
Indices: 44903456--44903523 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
44903446 TAATCAACCG
44903456 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44903485 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44903514 CGCACACTTA
1 CGCACACTTA
44903524 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44903663 original size:29 final size:30
Alignment explanation
Indices: 44903624--44903702 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44903614 CTTAATAATC
44903624 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44903654 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44903683 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44903703 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44903693 original size:173 final size:174
Alignment explanation
Indices: 44903371--44903696 Score: 539
Period size: 173 Copynumber: 1.9 Consensus size: 174
44903361 TGTTATTGCT
*
44903371 GACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACA
1 GACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACA
*
44903436 TAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCA
66 TAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCA
* ***
44903501 TGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATC
131 TACATTTCAAACCCGCACACTTACCTTTTCCGCTGTCCAAAATC
44903545 GACTCGGT-AAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACA
1 GACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACA
* * **
44903609 TAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTGCTG
66 TAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCA
44903674 TACAATTT-AAACCCGCACACTTA
131 TAC-ATTTCAAACCCGCACACTTA
44903697 GTGCCAATCT
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
173 129 0.91
174 12 0.09
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (174 bp):
GACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACA
TAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCA
TACATTTCAAACCCGCACACTTACCTTTTCCGCTGTCCAAAATC
Found at i:44911738 original size:29 final size:30
Alignment explanation
Indices: 44911699--44911777 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44911689 CTTAATAATC
44911699 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44911729 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44911758 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44911778 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44924908 original size:29 final size:28
Alignment explanation
Indices: 44924872--44924949 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
44924862 TCATGAGATT
44924872 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
44924902 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
44924929 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
44924950 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:44925167 original size:174 final size:174
Alignment explanation
Indices: 44924902--44925229 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
44924892 AAATTGTACA
44924902 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
44924967 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAACATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
44925032 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
44925076 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
44925141 TGTGCGAACCCAACATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAACATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
44925206 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
44925230 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAACATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:44933037 original size:29 final size:28
Alignment explanation
Indices: 44933001--44933078 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
44932991 TCATGAGATT
44933001 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
44933031 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
44933058 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
44933079 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:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:44933300 original size:176 final size:173
Alignment explanation
Indices: 44933031--44933359 Score: 595
Period size: 176 Copynumber: 1.9 Consensus size: 173
44933021 AAATTGTACA
*
44933031 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
44933096 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGAACCTTTACCGAGTC
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACA-TAAGGGTGCG-A-CTTTACCGAGTC
*
44933161 GATTTTGGACAGCGGAAAAGGTAAGTGTGCAAACTTGAAATGCATG
128 AATTTTGGACAGCGGAAAAGGTAAGTGTGCAAACTTGAAATGCATG
* *
44933207 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
44933272 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATAAGGGTGCGACTTTACCGAGTCAAT
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATAAGGGTGCGACTTTACCGAGTCAAT
44933337 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
44933360 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
173 37 0.25
174 1 0.01
175 10 0.07
176 101 0.68
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCAAACTTGAAATGCATG
Found at i:44937380 original size:28 final size:28
Alignment explanation
Indices: 44937340--44937423 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
44937330 TATATATATA
*
44937340 AATGGCACTTAGTGTGCAAAGTATCGAG
1 AATGACACTTAGTGTGCAAAGTATCGAG
* *
44937368 AATGACACTTAGTGTGCGAAA-CATCCAG
1 AATGACACTTAGTGTGC-AAAGTATCGAG
* * *
44937396 AAT-AGCACTTAGCGTGCGAGGTATCGAG
1 AATGA-CACTTAGTGTGCAAAGTATCGAG
44937424 TATGGTACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.04
28 40 0.89
29 3 0.07
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (28 bp):
AATGACACTTAGTGTGCAAAGTATCGAG
Found at i:44939129 original size:20 final size:20
Alignment explanation
Indices: 44939104--44939142 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
44939094 CTGAGGACAC
44939104 GGGCGTGTCCCGAGCCACAA
1 GGGCGTGTCCCGAGCCACAA
44939124 GGGCGTGTCCCGAGCCACA
1 GGGCGTGTCCCGAGCCACA
44939143 CGAGCATGTG
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:0.18, C:0.36, G:0.36, T:0.10
Consensus pattern (20 bp):
GGGCGTGTCCCGAGCCACAA
Found at i:44946062 original size:21 final size:21
Alignment explanation
Indices: 44946036--44946078 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44946026 AAAGGTTCAC
44946036 AATTTAGGATTGTACTTGGGA
1 AATTTAGGATTGTACTTGGGA
44946057 AATTTAGGATTGTACTTGGGA
1 AATTTAGGATTGTACTTGGGA
44946078 A
1 A
44946079 TCCCTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (21 bp):
AATTTAGGATTGTACTTGGGA
Found at i:44948985 original size:27 final size:27
Alignment explanation
Indices: 44948955--44949132 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44948945 ATATTGAGTC
* * * *
44948955 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44948982 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44949009 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44949037 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44949064 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44949091 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
44949118 CGCACACTCAGTGCT
1 CGCACACTTAGTGCT
44949133 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44949094 original size:82 final size:81
Alignment explanation
Indices: 44948976--44949131 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44948966 TGCTATATAA
* *
44948976 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
*
44949041 CACTTAGTGCCGCATGG
65 CACTCAGTGCCGCATGG
* * **
44949058 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44949122 CACTCAGTGC
65 CACTCAGTGC
44949132 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTCAGTGCCGCATGG
Found at i:44974270 original size:21 final size:17
Alignment explanation
Indices: 44974231--44974264 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44974221 GCATTCTCGA
44974231 CCAGTACAACAAACTCT
1 CCAGTACAACAAACTCT
44974248 CCAGTACAACAAACTCT
1 CCAGTACAACAAACTCT
44974265 TACTCCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.35, G:0.06, T:0.18
Consensus pattern (17 bp):
CCAGTACAACAAACTCT
Found at i:44975328 original size:13 final size:14
Alignment explanation
Indices: 44975294--44975327 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44975284 TTCAAATCAG
**
44975294 TTAAAAACCAATTT
1 TTAAAAACCAAAAT
44975308 TTAAAAACCAAAAT
1 TTAAAAACCAAAAT
44975322 TTAAAA
1 TTAAAA
44975328 CTCATAATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAAAAACCAAAAT
Found at i:44987624 original size:22 final size:21
Alignment explanation
Indices: 44987597--44987637 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44987587 GTTGAAATGT
*
44987597 CACACGGGCATGTTACCCCTCC
1 CACACGAGCATG-TACCCCTCC
*
44987619 CACACGAGCGTGTACCCCT
1 CACACGAGCATGTACCCCT
44987638 ATGTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.17
Consensus pattern (21 bp):
CACACGAGCATGTACCCCTCC
Found at i:44991727 original size:17 final size:17
Alignment explanation
Indices: 44991707--44991740 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44991697 GAAATGTTCA
*
44991707 AATTTAAGAGATGTATT
1 AATTTAAGAGATATATT
*
44991724 AATTTATGAGATATATT
1 AATTTAAGAGATATATT
44991741 TTGATTAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
AATTTAAGAGATATATT
Found at i:44995628 original size:40 final size:40
Alignment explanation
Indices: 44995545--44995764 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
44995535 ACCCAAGTAT
** * *
44995545 CTTCGGGAT-TTAG-CCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44995583 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
44995623 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44995663 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
44995703 CTTCAGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44995743 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
44995765 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:45007362 original size:76 final size:78
Alignment explanation
Indices: 45007240--45007421 Score: 211
Period size: 76 Copynumber: 2.4 Consensus size: 78
45007230 ATATAACCAT
* * *
45007240 GCACAAGGCCTTCGGGTC-TAGCCCGGATATGGTCACTAGCATAAATGCC-TCGGGA-CTTAG-C
1 GCACAAAGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC--GATCTTAGTC
45007301 C-GATATA-TCACTA
64 CGGATATAGTCACTA
*
45007314 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGATCTTAGTC
1 GCACAAA-GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGATCTTAGTC
45007378 CGGATATAGTCACTA
64 CGGATATAGTCACTA
* *
45007393 GCATAAAGCCTTC-GGACTTAGCCC-GATAT
1 GCACAAAGCCTTCGGGTCTTAGCCCGGATAT
45007422 CATTCGAAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
74 6 0.06
75 14 0.15
76 36 0.38
77 14 0.15
78 12 0.13
79 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (78 bp):
GCACAAAGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGATCTTAGTCCG
GATATAGTCACTA
Found at i:45007374 original size:39 final size:40
Alignment explanation
Indices: 45007247--45007421 Score: 192
Period size: 39 Copynumber: 4.6 Consensus size: 40
45007237 CATGCACAAG
* * *
45007247 GCCTTCGGGTC-TAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
45007286 GCC-TCGGGA-CTTAG-CC-GATATA-TCACTAGCACAAAT
1 GCCTTC-GGATCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
45007322 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* *
45007362 GCCTTC-GATCTTAGTCCGGATATAGTCACTAGCATAAA-
1 GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
45007400 GCCTTCGGA-CTTAGCCC-GATAT
1 GCCTTCGGATCTTAGCCCGGATAT
45007422 CATTCGAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
36 18 0.16
37 17 0.15
38 20 0.17
39 43 0.37
40 18 0.16
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:45015279 original size:40 final size:40
Alignment explanation
Indices: 45015232--45015414 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
45015222 TCGCACAAGG
* *
45015232 CCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATA
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATA
* * *
45015272 CCTTCGGGGCTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATA
* *
45015312 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATA
* * * *
45015352 CCTTCGGATCTTGGTCCGGATATAGTCACTAGCATAAA-A
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATA
* *
45015391 GCCTTCGGGACTTAACCCGGATAT
1 -CCTTCGGGTCTTAGCCCGGATAT
45015415 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATA
Found at i:45015326 original size:80 final size:80
Alignment explanation
Indices: 45015204--45015414 Score: 239
Period size: 80 Copynumber: 2.7 Consensus size: 80
45015194 TCTTCGGGAT
** * * *
45015204 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCA
1 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCA
* *
45015266 TAAATACCTTCGGGGC
65 CAAATACCTTCGGAGC
* * *
45015282 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
* *
45015347 AAATGCCTTCGGATC
66 AAATACCTTCGGAGC
* * * * *
45015362 TTGGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAACCCGGATAT
1 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
45015415 CATTCGAATA
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 4 0.04
79 17 0.15
80 91 0.81
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
AAATACCTTCGGAGC
Found at i:45022889 original size:2 final size:2
Alignment explanation
Indices: 45022882--45022906 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45022872 CTAATTACTC
45022882 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
45022907 ATACAATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45023131 original size:68 final size:70
Alignment explanation
Indices: 45023049--45023187 Score: 237
Period size: 68 Copynumber: 2.0 Consensus size: 70
45023039 TCATTTTGTC
45023049 AAAAAAAATTCCTTTTCATACATTACTTGTAAAG-TTTTT-TTTTTAATAATCTCATTATAAATT
1 AAAAAAAATTCCTTTTCATACATTACTTGTAAAGTTTTTTATTTTTAATAATCTCATTATAAATT
45023112 CTGAT
66 CTGAT
* *
45023117 AAAAAAATTTCCTTTTCATACATTACTTGTAAAGTTTTTTTATTTTTAATAATCTCATTATAAGT
1 AAAAAAAATTCCTTTTCATACATTACTTGTAAAG-TTTTTTATTTTTAATAATCTCATTATAAAT
45023182 TCTGAT
65 TCTGAT
45023188 CATATCTTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
68 33 0.50
70 5 0.08
71 28 0.42
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (70 bp):
AAAAAAAATTCCTTTTCATACATTACTTGTAAAGTTTTTTATTTTTAATAATCTCATTATAAATT
CTGAT
Found at i:45023201 original size:26 final size:26
Alignment explanation
Indices: 45023169--45023224 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
45023159 TTTTTAATAA
45023169 TCTCATTATAAGTTCTGATCATATCT
1 TCTCATTATAAGTTCTGATCATATCT
*
45023195 TCTCATTATAAGTTCTGATTATATCT
1 TCTCATTATAAGTTCTGATCATATCT
45023221 TCTC
1 TCTC
45023225 TTTTTGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (26 bp):
TCTCATTATAAGTTCTGATCATATCT
Found at i:45023210 original size:13 final size:13
Alignment explanation
Indices: 45023169--45023217 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
45023159 TTTTTAATAA
45023169 TCTCATTATAAGT
1 TCTCATTATAAGT
* * **
45023182 TCTGATCATATCT
1 TCTCATTATAAGT
45023195 TCTCATTATAAGT
1 TCTCATTATAAGT
*
45023208 TCTGATTATA
1 TCTCATTATA
45023218 TCTTCTCTTT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (13 bp):
TCTCATTATAAGT
Found at i:45023223 original size:13 final size:13
Alignment explanation
Indices: 45023181--45023223 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
45023171 TCATTATAAG
*
45023181 TTCTGATCATATC
1 TTCTGATTATATC
* **
45023194 TTCTCATTATAAG
1 TTCTGATTATATC
45023207 TTCTGATTATATC
1 TTCTGATTATATC
45023220 TTCT
1 TTCT
45023224 CTTTTTGAGA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (13 bp):
TTCTGATTATATC
Found at i:45028730 original size:14 final size:14
Alignment explanation
Indices: 45028713--45028739 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45028703 AAAAATCATA
45028713 TTAGTCAAATAATC
1 TTAGTCAAATAATC
45028727 TTAGTCAAATAAT
1 TTAGTCAAATAAT
45028740 TCTAACGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
TTAGTCAAATAATC
Found at i:45035111 original size:37 final size:37
Alignment explanation
Indices: 45035061--45035139 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
45035051 TTATTACGAA
* * *
45035061 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
45035098 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
45035135 GTCTT
1 GTCTT
45035140 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:45035336 original size:47 final size:47
Alignment explanation
Indices: 45035258--45035882 Score: 989
Period size: 47 Copynumber: 13.1 Consensus size: 47
45035248 CCCTTCGGGA
* * * * * *
45035258 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45035305 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45035352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035399 CCTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035448 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45035497 CTTATCACGTATATACGCTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035544 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45035591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035638 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035687 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035736 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45035783 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035832 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45035879 CTTA
1 CTTA
45035883 CTATCATTTC
Statistics
Matches: 544, Mismatches: 28, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 309 0.57
49 235 0.43
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45035677 original size:239 final size:239
Alignment explanation
Indices: 45035258--45035879 Score: 1100
Period size: 239 Copynumber: 2.6 Consensus size: 239
45035248 CCCTTCGGGA
* * * * * * * *
45035258 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45035323 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
45035388 GGCCATTAGGCCCTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
131 GGCCATTAGGCCCTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
45035453 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45035497 CTTATCACGTATATACGCTTTCACATTAATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45035562 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
45035627 GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
131 GGCCATTAGGCCCTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
45035692 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035736 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--
*
45035801 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACGTTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
45035866 TCGGCCATTAGGCC
129 TCGGCCATTAGGCC
45035880 TTACTATCAT
Statistics
Matches: 364, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
239 286 0.79
241 78 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (239 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCCTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45035880 original size:96 final size:96
Alignment explanation
Indices: 45035258--45035882 Score: 1001
Period size: 96 Copynumber: 6.5 Consensus size: 96
45035248 CCCTTCGGGA
* * * * * * * *
45035258 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45035321 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
45035352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAAATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45035417 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
45035448 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--GTATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
45035511 ACGCTTTCACATTAATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035544 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45035607 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
45035638 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
45035703 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
45035736 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
45035801 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
45035832 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
45035883 CTATCATTTC
Statistics
Matches: 497, Mismatches: 26, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
94 144 0.29
96 262 0.53
98 91 0.18
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45040350 original size:25 final size:25
Alignment explanation
Indices: 45040316--45040367 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
45040306 CAAGGGTTTG
45040316 ATCATTGATGCAAAGATAAATTTCA
1 ATCATTGATGCAAAGATAAATTTCA
45040341 ATCATTGATGCAAAGATAAATTTCA
1 ATCATTGATGCAAAGATAAATTTCA
45040366 AT
1 AT
45040368 GTTCTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (25 bp):
ATCATTGATGCAAAGATAAATTTCA
Found at i:45070008 original size:40 final size:40
Alignment explanation
Indices: 45069946--45070022 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
45069936 ACGGTACCAC
* *
45069946 TTGGTGTGTAAGGTTGGATGGGTTGATTCTATCCCCATAT
1 TTGGTGTGTAAGGCTGGATGGGTCGATTCTATCCCCATAT
* * *
45069986 TTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 TTGGTGTGTAAGGCTGGATGGGTCGATTCTATCCCCA
45070023 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAAGGCTGGATGGGTCGATTCTATCCCCATAT
Found at i:45076112 original size:40 final size:40
Alignment explanation
Indices: 45076048--45076126 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
45076038 ATATAGTACC
* *
45076048 ACTTGGTGTGTAGGGTTGGATGGGTTGATTCTATCCCCAT
1 ACTTCGTGTGTAGGGCTGGATGGGTTGATTCTATCCCCAT
* *
45076088 ACTTCGTGTGTAGGGCTGGGTGGGTTGATTTTATCCCCA
1 ACTTCGTGTGTAGGGCTGGATGGGTTGATTCTATCCCCA
45076127 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.14, C:0.16, G:0.33, T:0.37
Consensus pattern (40 bp):
ACTTCGTGTGTAGGGCTGGATGGGTTGATTCTATCCCCAT
Found at i:45080468 original size:17 final size:17
Alignment explanation
Indices: 45080413--45080469 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
45080403 TATAACATAG
* * *
45080413 ATTCATGAATTAGGTAC
1 ATTCATGTATTATGTAT
*
45080430 ATTCTTGTATTCAT-TAT
1 ATTCATGTATT-ATGTAT
*
45080447 TTTCATGTATTATGTAT
1 ATTCATGTATTATGTAT
45080464 ATTCAT
1 ATTCAT
45080470 ATATAGGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 2 0.06
17 28 0.90
18 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTCATGTATTATGTAT
Found at i:45082459 original size:46 final size:46
Alignment explanation
Indices: 45082392--45082565 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
45082382 GTAACCCGCT
45082392 CATAAGTGAACTCAGG-CTCAACTCAACGAGCTCGGGCGTTCACATC
1 CATAAGTGAACTC-GGACTCAACTCAACGAGCTCGGGCGTTCACATC
45082438 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACATC
* * * * *
45082488 TC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 -CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATC
* *
45082531 CATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
45082566 ATGCCCAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 2 0.02
46 59 0.54
47 27 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATC
Found at i:45082514 original size:93 final size:93
Alignment explanation
Indices: 45082399--45082570 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
45082389 GCTCATAAGT
* *
45082399 GAACTCAGGCTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGGCTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
45082464 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
45082492 GAACTC-GGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGG-CTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
45082556 ATGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
45082571 CAAAAATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGGCTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45082585 original size:46 final size:44
Alignment explanation
Indices: 45082396--45082585 Score: 111
Period size: 46 Copynumber: 4.1 Consensus size: 44
45082386 CCCGCTCATA
* ** ** *
45082396 AGTGAACTCAGG-CTCAACTCAACGAGCTCGGGCGTTCACATCCAT
1 AGTGAACTC-GGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
45082441 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
45082491 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
*
45082534 AAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAAAATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC--AAATCCT
45082581 AGTGA
1 AGTGA
45082586 CATGTCACTT
Statistics
Matches: 113, Mismatches: 15, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 2 0.02
46 62 0.55
47 28 0.25
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:45084792 original size:19 final size:20
Alignment explanation
Indices: 45084762--45084799 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
45084752 TCAACTTAAT
*
45084762 TCAATATCAATATTACAATA
1 TCAATATCAATATCACAATA
45084782 TCAAT-TCAATATCACAAT
1 TCAATATCAATATCACAAT
45084800 GCTAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
TCAATATCAATATCACAATA
Found at i:45089373 original size:46 final size:46
Alignment explanation
Indices: 45089321--45089594 Score: 377
Period size: 46 Copynumber: 6.0 Consensus size: 46
45089311 AGTGTGCTCT
* **
45089321 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
45089367 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
45089413 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
45089459 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
45089505 GTGACATGAAATGAATAAGACCATGGTGGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
45089551 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
45089595 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 210 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:45089901 original size:16 final size:17
Alignment explanation
Indices: 45089880--45089912 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45089870 ATGATGGAGC
45089880 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
45089896 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
45089913 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:45092729 original size:9 final size:10
Alignment explanation
Indices: 45092710--45092741 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
45092700 TTTGATATTC
45092710 TTCCTTTTTT
1 TTCCTTTTTT
*
45092720 TTTCTTTTTT
1 TTCCTTTTTT
45092730 TTCCTTTTTT
1 TTCCTTTTTT
45092740 TT
1 TT
45092742 TTGGGGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTCCTTTTTT
Found at i:45093606 original size:14 final size:14
Alignment explanation
Indices: 45093587--45093616 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45093577 AAGCAACTCT
45093587 TCTGAATTTATTTG
1 TCTGAATTTATTTG
45093601 TCTGAATTTATTTG
1 TCTGAATTTATTTG
45093615 TC
1 TC
45093617 CGACTACAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (14 bp):
TCTGAATTTATTTG
Found at i:45099142 original size:172 final size:174
Alignment explanation
Indices: 45098833--45099161 Score: 439
Period size: 172 Copynumber: 1.9 Consensus size: 174
45098823 ATTGAATCAA
* * *
45098833 GATTGTATTGAAAACTTATCTATAAGATCTTCACATTATCTTGGTCTTTATTATTATATTGTATA
1 GATTGCATTGAAAACTTATCTATAAGATCTCCACATTATCTTGGTCTTTATTATTATATTATATA
* * * * * * ** *
45098898 TATTATTTTAGTTGCAATTTCATATGGGATAGGATTGTAATTGTTCTTGTATATTAGCAAGTCTC
66 TATTATTTTAGCTACAATTTCATAGGGGATAGGACTATAATTGATCTAATATATTAGCAAGTCGC
*
45098963 GATCTCTTATATATTTAGAGAGACTTGTAAGGAGATTAGATTGG
131 AATCTCTTATATATTTAGAGAGACTTGTAAGGAGATTAGATTGG
* *
45099007 GATTGCATTGAAGACTTA-CTCTAAGATCTCCACATTATCTTGGTCTTTA-TATTATATTATATA
1 GATTGCATTGAAAACTTATCTATAAGATCTCCACATTATCTTGGTCTTTATTATTATATTATATA
* ** *
45099070 -ATCTATTTTAGCTACAATTTTATAGGGGATTTGACTATAATTGATCTAATATGTTAGCAAGTCG
66 TAT-TATTTTAGCTACAATTTCATAGGGGATAGGACTATAATTGATCTAATATATTAGCAAGTCG
* *
45099134 CAATCTCTTATATATTTGGAGAGGCTTG
130 CAATCTCTTATATATTTAGAGAGACTTG
45099162 CTAGATTTTG
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
171 2 0.02
172 86 0.65
173 29 0.22
174 16 0.12
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (174 bp):
GATTGCATTGAAAACTTATCTATAAGATCTCCACATTATCTTGGTCTTTATTATTATATTATATA
TATTATTTTAGCTACAATTTCATAGGGGATAGGACTATAATTGATCTAATATATTAGCAAGTCGC
AATCTCTTATATATTTAGAGAGACTTGTAAGGAGATTAGATTGG
Found at i:45106078 original size:37 final size:37
Alignment explanation
Indices: 45106015--45106106 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 37
45106005 ATTCTAAAAA
*
45106015 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
45106051 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
*
45106089 AAAGTGATTATCTTAATA
1 TAA-T-ATTATCTTAATA
45106107 TTAACTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.47
38 7 0.15
39 12 0.26
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:45106183 original size:17 final size:17
Alignment explanation
Indices: 45106161--45106193 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45106151 TAAAAAGATT
45106161 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
45106178 TAATATTAAATTTAAT
1 TAATATTAAATTTAAT
45106194 ATTAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Found at i:45107435 original size:19 final size:19
Alignment explanation
Indices: 45107373--45107435 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
45107363 TAAATTACAT
45107373 AACCCAATTTTAAAA-CCAA
1 AACCCAA-TTTAAAACCCAA
45107392 AA--C-A-TTACAAACCC-A
1 AACCCAATTTA-AAACCCAA
45107407 AACCCAAATTTAAAACCCAA
1 AACCC-AATTTAAAACCCAA
45107427 AACCCAATT
1 AACCCAATT
45107436 AACCCAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 3 0.08
17 2 0.06
19 13 0.36
20 9 0.25
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.17
Consensus pattern (19 bp):
AACCCAATTTAAAACCCAA
Found at i:45110418 original size:132 final size:132
Alignment explanation
Indices: 45110179--45110420 Score: 387
Period size: 132 Copynumber: 1.8 Consensus size: 132
45110169 CAAGTATTCA
* *
45110179 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGGCAATTCGCGAAATAGTGCCCTAAC
* *
45110244 GTGTTGGGTTGCAATTTCGAGTTTGCTCGAAATAATCGAATATCCTTTCAAACTTTCACTCATGC
66 GTGTTGGGTTGCAATTTCGAGTTTGCTCAAAATAATCAAATATCCTTTCAAACTTTCACTCATGC
45110309 CT
131 CT
* * *
45110311 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTTGATATTTGGCAATTCGCGAAATCGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGACAAGA-TTCGATATTTGGCAATTCGCGAAATAGTGCCCTAA
**
45110375 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCC
65 CGTGTTGGGTTGCAATTTCGAGTTTGCTCAAAATAATCAAATATCC
45110421 CTTCGAGATT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.01
132 99 0.99
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGACAAGATTCGATATTTGGCAATTCGCGAAATAGTGCCCTAAC
GTGTTGGGTTGCAATTTCGAGTTTGCTCAAAATAATCAAATATCCTTTCAAACTTTCACTCATGC
CT
Found at i:45110449 original size:132 final size:133
Alignment explanation
Indices: 45110181--45110469 Score: 377
Period size: 132 Copynumber: 2.2 Consensus size: 133
45110171 AGTATTCATT
* * *
45110181 TAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
1 TAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGGCAATTCGCGAAATAGTGCCCTAACG
* * * * *
45110245 TGTTGGGTTGCAATTTCGAGTTTGCTCGAAATAATCGAATATCCTTTCAAACTTTCACTCATGCC
66 TGTTGGGTTGCAATTTCGAGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTCCACTCAGGCC
*
45110310 TTT
131 TTC
* *
45110313 TAAAAATTCTTTAAAACGAAGGCAAAG-TTTGATATTTGGCAATTCGCGAAATCGTGCCCTAACG
1 TAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGGCAATTCGCGAAATAGTGCCCTAACG
** * * *
45110377 TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCGAGA-TTCCATTCAGGT
66 TGTTGGGTTGCAATTTCGAGTTTGCTCAAAATAATCAAATATCCCTTC-AAACTTCCACTCAGGC
45110441 CTTC
130 CTTC
* * *
45110445 TAAAAATCCTCTAAAACAAAGGCAA
1 TAAAAATTCTTTAAAACGAAGGCAA
45110470 TACTCGGTGT
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
132 132 0.97
133 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (133 bp):
TAAAAATTCTTTAAAACGAAGGCAAAGATTCGATATTTGGCAATTCGCGAAATAGTGCCCTAACG
TGTTGGGTTGCAATTTCGAGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTCCACTCAGGCC
TTC
Found at i:45110488 original size:132 final size:131
Alignment explanation
Indices: 45110209--45110538 Score: 358
Period size: 132 Copynumber: 2.5 Consensus size: 131
45110199 AAGACGAGAT
* ** *
45110209 TCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAATTTCGAGTTTGCTCGA
1 TCGATATTTGGCAATTCGC-GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* * * * * * * *
45110274 AATAATCGAATATCCTTTCAAACTTTCACTCATGCCTTTTAAAAATTCTTTAAAACGAAGGCAAA
65 AATAATCAAATATCCCTTCAAACTTCCACTCAGGCCTTCTAAAAATCCTCTAAAACAAAGGCAAA
*
45110339 GT
130 GC
*
45110341 TTGATATTTGGCAATTCGCGAAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
1 TCGATATTTGGCAATTCGCG-AATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* * *
45110406 AATAATCAAATATCCCTTCGAGA-TTCCATTCAGGTCTTCTAAAAATCCTCTAAAACAAAGGCAA
65 AATAATCAAATATCCCTTC-AAACTTCCACTCAGGCCTTCTAAAAATCCTCTAAAACAAAGGCAA
45110470 TA-C
129 -AGC
* * * ** * * * ** *
45110473 TCGGTGTTTGACAATTCTAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAA
1 TCGATATTTGGCAATTCGCGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAA
45110538 A
66 A
45110539 CGATCGAATA
Statistics
Matches: 166, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
131 41 0.25
132 122 0.73
133 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
TCGATATTTGGCAATTCGCGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAA
ATAATCAAATATCCCTTCAAACTTCCACTCAGGCCTTCTAAAAATCCTCTAAAACAAAGGCAAAG
C
Found at i:45118386 original size:38 final size:38
Alignment explanation
Indices: 45118330--45118409 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
45118320 GATGTGTATT
* * *
45118330 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
45118368 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
45118406 CGGG
1 CGGG
45118410 CCTTCATGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:45118450 original size:43 final size:43
Alignment explanation
Indices: 45118381--45118612 Score: 315
Period size: 43 Copynumber: 5.4 Consensus size: 43
45118371 GATAAATCCC
* * * *
45118381 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
45118422 GTAGGCTTAGTGCCGGTGATATGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
45118465 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
45118508 GCAGGCTTCGTGCCGATGATGTGTATTCGGGCCTTCGTTCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
45118551 GCAGGCTTCGTGCTGGTGATGTGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
45118594 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
45118613 AATGATATGT
Statistics
Matches: 169, Mismatches: 20, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 14 0.08
42 2 0.01
43 153 0.91
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:45122872 original size:38 final size:38
Alignment explanation
Indices: 45122816--45122895 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
45122806 GATGTGTATT
* * * *
45122816 CGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTATATC
1 CGGGATAAATCCCACAGGCCTAGTGCTAGTATTATATC
* * *
45122854 CGGGATAAATCTCACAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCACAGGCCTAGTGCTAGTATTATATC
45122892 CGGG
1 CGGG
45122896 CCTTCGTGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCACAGGCCTAGTGCTAGTATTATATC
Found at i:45122941 original size:43 final size:43
Alignment explanation
Indices: 45122888--45123098 Score: 361
Period size: 43 Copynumber: 4.9 Consensus size: 43
45122878 GCTGGTATTA
45122888 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
45122931 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
45122974 TATTTGGGCCTTCGTGCCTAGCAGGCTTCA-TGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTT-AGTGCCGGTGATGTG
* *
45123017 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
45123060 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
45123099 AATGATATGT
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
43 157 0.99
44 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:45127084 original size:40 final size:40
Alignment explanation
Indices: 45127048--45127197 Score: 230
Period size: 40 Copynumber: 3.8 Consensus size: 40
45127038 GGATATAACT
*
45127048 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
45127088 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
45127128 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
45127168 GCTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
45127198 CGTTATCATC
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 99 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:45129223 original size:40 final size:39
Alignment explanation
Indices: 45129138--45129224 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 39
45129128 CACCCATAAA
* * * *
45129138 AAATAATTTTTTTTTGTTTTCTCCCATTCTACTGAGCAT
1 AAATATTTTTTTTTTGTTTTCTCCCATACTACTAAGCAC
** * *
45129177 TGATATTTTTTTTTCTGTTTTCTCCCCTACTTCTAAGCAC
1 AAATATTTTTTTTT-TGTTTTCTCCCATACTACTAAGCAC
45129217 AAATATTT
1 AAATATTT
45129225 CTTCCTTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
39 11 0.30
40 26 0.70
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.52
Consensus pattern (39 bp):
AAATATTTTTTTTTTGTTTTCTCCCATACTACTAAGCAC
Found at i:45135667 original size:21 final size:20
Alignment explanation
Indices: 45135608--45135663 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
45135598 TATATTGTAA
*
45135608 TTTTAAATAATTTATATTAATT
1 TTTTAAATAATTTTTA-TAA-T
* * *
45135630 TTTTACA-AGTTGTTATAAT
1 TTTTAAATAATTTTTATAAT
45135649 TTTTAAATAATTTTT
1 TTTTAAATAATTTTT
45135664 TATATCATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 5 0.19
22 6 0.23
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTAAATAATTTTTATAAT
Found at i:45135794 original size:16 final size:16
Alignment explanation
Indices: 45135773--45135807 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45135763 TATTAAAGCT
45135773 TTTTTTATTTTTAAGA
1 TTTTTTATTTTTAAGA
*
45135789 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAAGA
45135805 TTT
1 TTT
45135808 GTTGACATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTATTTTTAAGA
Found at i:45144140 original size:13 final size:13
Alignment explanation
Indices: 45144106--45144147 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
45144096 ACCTTGTGGA
45144106 TTAATTTAAATAT
1 TTAATTTAAATAT
* *
45144119 TT-TTATTAAAAAT
1 TTAAT-TTAAATAT
45144132 TTAATTTAAATAT
1 TTAATTTAAATAT
45144145 TTA
1 TTA
45144148 TTAATAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTTAAATAT
Found at i:45144161 original size:30 final size:27
Alignment explanation
Indices: 45144106--45144166 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 27
45144096 ACCTTGTGGA
45144106 TTAATTTAAATATTTTTATTAAAAAT-
1 TTAATTTAAATATTTTTATTAAAAATG
45144132 TTAATTTAAATATTTATTAATAATAAAAATG
1 TTAATTTAAATATTT-TT-AT--TAAAAATG
45144163 TTAA
1 TTAA
45144167 AATATATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.50
27 2 0.07
28 2 0.07
30 7 0.23
31 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
TTAATTTAAATATTTTTATTAAAAATG
Found at i:45145117 original size:7 final size:7
Alignment explanation
Indices: 45145105--45145154 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
45145095 TATTCTTTAG
45145105 AAATTTT
1 AAATTTT
45145112 AAATTTT
1 AAATTTT
45145119 AAATTTT
1 AAATTTT
* *
45145126 ATATATT
1 AAATTTT
* *
45145133 AAAATAT
1 AAATTTT
45145140 AAATTTT
1 AAATTTT
45145147 AGAATTTT
1 A-AATTTT
45145155 TATAAATACT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:45145160 original size:18 final size:18
Alignment explanation
Indices: 45145137--45145174 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45145127 TATATTAAAA
45145137 TATAAAT-TTTAGAATTTT
1 TATAAATATTT-GAATTTT
45145155 TATAAATACTTTGAATTTT
1 TATAAATA-TTTGAATTTT
45145174 T
1 T
45145175 TTGTAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTGAATTTT
Found at i:45148731 original size:21 final size:21
Alignment explanation
Indices: 45148687--45148741 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
45148677 GTGGGGGTTT
* ***
45148687 ACATGCCCATGTGAAGGTTGC
1 ACATGCCCTTGTGAAGGCCAC
45148708 ACATGCCCTTGTGAAGGCCAC
1 ACATGCCCTTGTGAAGGCCAC
**
45148729 ACACACCCTTGTG
1 ACATGCCCTTGTG
45148742 GAGGGAGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (21 bp):
ACATGCCCTTGTGAAGGCCAC
Found at i:45154372 original size:12 final size:12
Alignment explanation
Indices: 45154346--45154378 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
45154336 AAAAATAATA
45154346 AAAATTAA-T-T
1 AAAATTAATTAT
45154356 AAAATTAATTAT
1 AAAATTAATTAT
45154368 AAAATTAATTA
1 AAAATTAATTA
45154379 AAATTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 1 0.05
12 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTAATTAT
Found at i:45154388 original size:10 final size:10
Alignment explanation
Indices: 45154336--45154388 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
45154326 CAAATCTGTC
* *
45154336 AAAAATAATA
1 AAAATTAATT
45154346 AAAATTAATT
1 AAAATTAATT
45154356 AAAATTAATTAT
1 AAAATTAA-T-T
45154368 AAAATTAATT
1 AAAATTAATT
*
45154378 AAAATTCATT
1 AAAATTAATT
45154388 A
1 A
45154389 TGTTAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 27 0.71
11 2 0.05
12 9 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:45154399 original size:22 final size:22
Alignment explanation
Indices: 45154346--45154389 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45154336 AAAAATAATA
45154346 AAAATTAATTAAAATTAATTAT
1 AAAATTAATTAAAATTAATTAT
*
45154368 AAAATTAATTAAAATTCATTAT
1 AAAATTAATTAAAATTAATTAT
45154390 GTTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATTAAAATTAATTAT
Found at i:45157868 original size:22 final size:21
Alignment explanation
Indices: 45157843--45157884 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
45157833 ATAATTAGTT
* *
45157843 TAAATTTTTTATGATGTAAAAA
1 TAAATATTTTATAAT-TAAAAA
45157865 TAAATATTTTATAATTAAAA
1 TAAATATTTTATAATTAAAA
45157885 TAGTGAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAATATTTTATAATTAAAAA
Found at i:45159316 original size:29 final size:29
Alignment explanation
Indices: 45159257--45159338 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 29
45159247 TTGTCATTGC
* * *
45159257 TTTTCAAAATTTAT-AATTTTACCACTAT
1 TTTTCAAAATTTTTCAGTTTTGCCACTAT
45159285 TTTTCAAAATTTTTCAGTTTTGCCA-TAAT
1 TTTTCAAAATTTTTCAGTTTTGCCACT-AT
* * *
45159314 TTTT-TAGATTTTACAGTTTTGCCAC
1 TTTTCAAAATTTTTCAGTTTTGCCAC
45159339 AGTTTTTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 31 0.69
29 14 0.31
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (29 bp):
TTTTCAAAATTTTTCAGTTTTGCCACTAT
Found at i:45159344 original size:28 final size:29
Alignment explanation
Indices: 45159284--45159362 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
45159274 TTTACCACTA
* * *
45159284 TTTTTCAAAATTTTTCAGTTTTGCCATAAT
1 TTTTTC-AGATTTTACAGTTTTGCCACAAT
*
45159314 TTTTT-AGATTTTACAGTTTTGCCACAGT
1 TTTTTCAGATTTTACAGTTTTGCCACAAT
*
45159342 TTTTTCAGATTTTACAATTTT
1 TTTTTCAGATTTTACAGTTTT
45159363 CCTCTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.56
29 14 0.33
30 5 0.12
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (29 bp):
TTTTTCAGATTTTACAGTTTTGCCACAAT
Found at i:45159345 original size:29 final size:28
Alignment explanation
Indices: 45159273--45159390 Score: 94
Period size: 29 Copynumber: 4.2 Consensus size: 28
45159263 AAATTTATAA
* * * *
45159273 TTTTACCACTATTTTTCAAAATTTTTCAG
1 TTTTGCCACAATTTTTC-AGATTTTACAG
* *
45159302 TTTTGCCATAATTTTTTAGATTTTACAG
1 TTTTGCCACAATTTTTCAGATTTTACAG
* *
45159330 TTTTGCCACAGTTTTTTCAGATTTTACAA
1 TTTTGCCACA-ATTTTTCAGATTTTACAG
* * * * *
45159359 TTTT-CCTCTATTTTACAAATTTTATAG
1 TTTTGCCACAATTTTTCAGATTTTACAG
45159386 TTTTG
1 TTTTG
45159391 ATCTAGGATT
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
27 17 0.24
28 21 0.30
29 32 0.46
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (28 bp):
TTTTGCCACAATTTTTCAGATTTTACAG
Found at i:45159791 original size:21 final size:22
Alignment explanation
Indices: 45159760--45159819 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
45159750 AGAAGAAGTG
*
45159760 TGAGAAGTTTATCTACAGT-GTT
1 TGAGTAGTTTATCTACA-TCGTT
* *
45159782 T-AGTGGTTTATCCACATCGTT
1 TGAGTAGTTTATCTACATCGTT
*
45159803 TGAGTAGTTTACCTACA
1 TGAGTAGTTTATCTACA
45159820 CCATTAAGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.03
21 16 0.53
22 13 0.43
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (22 bp):
TGAGTAGTTTATCTACATCGTT
Found at i:45159899 original size:45 final size:45
Alignment explanation
Indices: 45159810--45159900 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
45159800 GTTTGAGTAG
* * * *
45159810 TTTACCTACACCATTAAGTGGTTTATCCACACCTTATTAGCAACT
1 TTTACCTACACCAATAAGAGGTTTATCCACACCTTACTAACAACT
* *
45159855 TTTACCTACACCAATGAGAGGTTTATCCATA-CTGTACTAACAACT
1 TTTACCTACACCAATAAGAGGTTTATCCACACCT-TACTAACAACT
45159900 T
1 T
45159901 AAATATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (45 bp):
TTTACCTACACCAATAAGAGGTTTATCCACACCTTACTAACAACT
Found at i:45164247 original size:23 final size:23
Alignment explanation
Indices: 45164217--45164266 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
45164207 ATTAATCTGA
45164217 GTCCCTTCGGATATTGTGCTTGC
1 GTCCCTTCGGATATTGTGCTTGC
45164240 GTCCCTTCGGATATTGTGCTTGC
1 GTCCCTTCGGATATTGTGCTTGC
45164263 GTCC
1 GTCC
45164267 TAACCTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.28, G:0.26, T:0.38
Consensus pattern (23 bp):
GTCCCTTCGGATATTGTGCTTGC
Found at i:45169148 original size:24 final size:25
Alignment explanation
Indices: 45169115--45169190 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
45169105 TGCTCCACAG
*
45169115 CTCGTGTGAGCTTACCGA-TTACAA
1 CTCGTATGAGCTTACCGACTTACAA
45169139 CTCGTATGAGCTTACCGACTTACAA
1 CTCGTATGAGCTTACCGACTTACAA
* * * *
45169164 TTCGTGA-GAGCATACTGATTTACAA
1 CTCGT-ATGAGCTTACCGACTTACAA
45169189 CT
1 CT
45169191 TGAAAGAGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.39
25 26 0.59
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGACTTACAA
Done.