Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 106 of 295
Found at i:31643960 original size:29 final size:29
Alignment explanation
Indices: 31643914--31643983 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
31643904 TACTTAAGCA
* *
31643914 GGGTTTGCACATATAGGGTTTGCTCATAT
1 GGGTTTGCACATACAGGGTTTGCACATAT
31643943 GGGTTTGCACATACAGGGTTTGCACATAT
1 GGGTTTGCACATACAGGGTTTGCACATAT
31643972 -GGTTTGCACATA
1 GGGTTTGCACATA
31643984 TAGGTTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 12 0.31
29 27 0.69
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (29 bp):
GGGTTTGCACATACAGGGTTTGCACATAT
Found at i:31644088 original size:22 final size:22
Alignment explanation
Indices: 31644027--31644099 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
31644017 TTCGTACATA
* * *
31644027 GTTTGTATAATCAACAAATAGG
1 GTTTGCATAAACAACATATAGG
* * * *
31644049 G-TTACATATACCATATATAGG
1 GTTTGCATAAACAACATATAGG
*
31644070 GTTTGCATAAACAACATATAAG
1 GTTTGCATAAACAACATATAGG
31644092 GTTTGCAT
1 GTTTGCAT
31644100 TATTTAAATT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 14 0.37
22 24 0.63
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (22 bp):
GTTTGCATAAACAACATATAGG
Found at i:31644127 original size:68 final size:66
Alignment explanation
Indices: 31644045--31644173 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 66
31644035 AATCAACAAA
* * *
31644045 TAGGGTTACATATACCATATATAGGGTTTGCATAAACAACATATAAGGTTTGCATTATTTAAATT
1 TAGGGTTACATATACCATATATAAGGTTCGCATAAACAACATATAAGGTTCGCA-TATTTAAATT
31644110 GT
65 GT
* * * *
31644112 TAGGGTTTGCATATACCATATGTAAGGTTCGCATAAACAATATATAGGGTTCGCATATTTAA
1 TAGGG-TTACATATACCATATATAAGGTTCGCATAAACAACATATAAGGTTCGCATATTTAA
31644174 GCATATAAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 12 0.22
68 42 0.78
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (66 bp):
TAGGGTTACATATACCATATATAAGGTTCGCATAAACAACATATAAGGTTCGCATATTTAAATTG
T
Found at i:31644145 original size:22 final size:22
Alignment explanation
Indices: 31644115--31644187 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
31644105 AAATTGTTAG
* * *
31644115 GGTTTGCATATACCATATGTAA
1 GGTTCGCATATACAATATATAA
* *
31644137 GGTTCGCATAAACAATATATAG
1 GGTTCGCATATACAATATATAA
** *
31644159 GGTTCGCATATTTAAGCATATAA
1 GGTTCGCATATACAA-TATATAA
31644182 GGTTCG
1 GGTTCG
31644188 TATAAATAAC
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 29 0.73
23 11 0.28
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (22 bp):
GGTTCGCATATACAATATATAA
Found at i:31644445 original size:31 final size:27
Alignment explanation
Indices: 31644364--31644424 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
31644354 TCATTATAGA
31644364 GGCTCGCCTATA-AGGGTTCGCATAAAG
1 GGCTCGCCTATATA-GGTTCGCATAAAG
*
31644391 GGCTCGCCTATATAGGTTCGCATAAGG
1 GGCTCGCCTATATAGGTTCGCATAAAG
31644418 GGCTCGC
1 GGCTCGC
31644425 ACATGCATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (27 bp):
GGCTCGCCTATATAGGTTCGCATAAAG
Found at i:31644470 original size:18 final size:18
Alignment explanation
Indices: 31644437--31644471 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31644427 ATGCATGAGA
*
31644437 GTTCGCATATTATAGGGG
1 GTTCGCATACTATAGGGG
*
31644455 GTTCGCATACTCTAGGG
1 GTTCGCATACTATAGGG
31644472 TTGTCATGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (18 bp):
GTTCGCATACTATAGGGG
Found at i:31646369 original size:16 final size:16
Alignment explanation
Indices: 31646348--31646378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31646338 TGAAATTCTA
*
31646348 ATTTTATTATGTGATG
1 ATTTTATTAAGTGATG
31646364 ATTTTATTAAGTGAT
1 ATTTTATTAAGTGAT
31646379 TTCAATAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAGTGATG
Found at i:31647052 original size:33 final size:33
Alignment explanation
Indices: 31646980--31647052 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
31646970 ATAGCTAGGC
* ** *
31646980 TATGGCATCCTGATGATAAGACCATAATTGGGT
1 TATGGCATCATGAACATAAGACCATAATTGGAT
* **
31647013 TGTGGCATCATGAACATAAGACCATGGTTGGAT
1 TATGGCATCATGAACATAAGACCATAATTGGAT
31647046 TATGGCA
1 TATGGCA
31647053 GTAAATATTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (33 bp):
TATGGCATCATGAACATAAGACCATAATTGGAT
Found at i:31647141 original size:103 final size:102
Alignment explanation
Indices: 31646925--31647122 Score: 288
Period size: 103 Copynumber: 1.9 Consensus size: 102
31646915 GAGTCGACGG
* *
31646925 ATAAGACCATGGTTGAACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCTATGGCATCC
1 ATAAGACCATGGTTGAACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCAATGGCATCA
* * * * *
31646990 TGATGATAAGACCATAATTGGGTTGTGGCATCATGAAC
66 TGATGACAAGACCATAACTAGGTTATGACATCA-GAAC
* ** *
31647028 ATAAGACCATGGTTGGATTATGGCAGTAAATATTCGTGAAAGACCATAGCTGGGCAATGGCATCA
1 ATAAGACCATGGTTGAACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCAATGGCATCA
31647093 TGATGACAAGACCATAACTAGGTTATGACA
66 TGATGACAAGACCATAACTAGGTTATGACA
31647123 CTACAAGTGT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (102 bp):
ATAAGACCATGGTTGAACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCAATGGCATCA
TGATGACAAGACCATAACTAGGTTATGACATCAGAAC
Found at i:31647154 original size:103 final size:102
Alignment explanation
Indices: 31646941--31647175 Score: 239
Period size: 103 Copynumber: 2.3 Consensus size: 102
31646931 CCATGGTTGA
* * *
31646941 ACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCTATGGCATCCTGATGATAAGACCATA
1 ACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCAATGGCATCATGATGACAAGACCATA
* * * * ***
31647006 ATTGGGTTGTGGCATCATGAACATAAGACCATGGTTGG
66 ACTAGGTTATGACATCA-GAACATAAGACCATGCAAGG
** *
31647044 ATTATGGCAGTAAATATTCGTGAAAGACCATAGCTGGGCAATGGCATCATGATGACAAGACCATA
1 ACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCAATGGCATCATGATGACAAGACCATA
***
31647109 ACTAGGTTATGACACTACA-AGTGTAAGACCATGACAAGG
66 ACTAGGTTATGACA-T-CAGAACATAAGACCATG-CAAGG
*
31647148 -CCATGGC----AATATTCGTGTAAGACCATAG
1 ACCATGGCAGTAAATATTCGTGAAAGACCATAG
31647176 TTGGACTATG
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
99 20 0.18
103 85 0.77
104 3 0.03
105 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (102 bp):
ACCATGGCAGTAAATATTCGTGAAAGACCATAGCTAGGCAATGGCATCATGATGACAAGACCATA
ACTAGGTTATGACATCAGAACATAAGACCATGCAAGG
Found at i:31648306 original size:29 final size:29
Alignment explanation
Indices: 31648273--31648337 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
31648263 CTAAGTTCTC
* * *
31648273 AATTTAGTCTCGACTTACATATAAACCTT
1 AATTTAGTCCCAAATTACATATAAACCTT
* *
31648302 AATTTAGTCCCAAATTACATCTAAAGCTT
1 AATTTAGTCCCAAATTACATATAAACCTT
*
31648331 AAATTAG
1 AATTTAG
31648338 GCCTCGAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (29 bp):
AATTTAGTCCCAAATTACATATAAACCTT
Found at i:31650055 original size:9 final size:9
Alignment explanation
Indices: 31650043--31650084 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
31650033 ATTTTTGATA
31650043 AATTTGAGT
1 AATTTGAGT
*
31650052 AATTTGGGCT
1 AATTTGAG-T
*
31650062 AAATTGAGT
1 AATTTGAGT
31650071 AATTTGAGT
1 AATTTGAGT
31650080 AATTT
1 AATTT
31650085 TTGAATTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTTGAGT
Found at i:31653425 original size:41 final size:41
Alignment explanation
Indices: 31653368--31653453 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
31653358 GATCTGTAGG
31653368 TAACCCTGACAACTCTTCGGGAAACACATCAGGAAATTCAC
1 TAACCCTGACAACTCTTCGGGAAACACATCAGGAAATTCAC
* * *
31653409 TAACCTTGACAACTCTTTGGGAAACACGTCAGGAAATTCAC
1 TAACCCTGACAACTCTTCGGGAAACACATCAGGAAATTCAC
31653450 TAAC
1 TAAC
31653454 GGTTTGAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (41 bp):
TAACCCTGACAACTCTTCGGGAAACACATCAGGAAATTCAC
Found at i:31664163 original size:15 final size:17
Alignment explanation
Indices: 31664134--31664167 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
31664124 TTCTTTAGAC
31664134 TTTTTTTAGATTTCTTA
1 TTTTTTTAGATTTCTTA
31664151 TTTTTTTA-A-TTCTTA
1 TTTTTTTAGATTTCTTA
31664166 TT
1 TT
31664168 AAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTTAGATTTCTTA
Found at i:31671122 original size:23 final size:23
Alignment explanation
Indices: 31671094--31671143 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
31671084 GTTATCAAAT
31671094 TATGAAAATTTGCCATGGATGAA
1 TATGAAAATTTGCCATGGATGAA
*
31671117 TATGAAAATTTTCCATGGATGAA
1 TATGAAAATTTGCCATGGATGAA
31671140 TATG
1 TATG
31671144 CTGAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (23 bp):
TATGAAAATTTGCCATGGATGAA
Found at i:31671740 original size:7 final size:7
Alignment explanation
Indices: 31671730--31671763 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
31671720 GATAATGCTC
31671730 GATAAAT
1 GATAAAT
31671737 GATAAAT
1 GATAAAT
31671744 GATAAAT
1 GATAAAT
31671751 GATAAAT
1 GATAAAT
31671758 GATAAA
1 GATAAA
31671764 AAATGTTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:31672509 original size:15 final size:15
Alignment explanation
Indices: 31672489--31672530 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31672479 ATGATGATAC
31672489 ATGATATATGGAAAT
1 ATGATATATGGAAAT
31672504 ATGATATGAT-GAAAT
1 ATGATAT-ATGGAAAT
*
31672519 ATG-TACATGGAA
1 ATGATATATGGAA
31672531 TTTACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 5 0.21
15 15 0.62
16 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.31
Consensus pattern (15 bp):
ATGATATATGGAAAT
Found at i:31685442 original size:22 final size:23
Alignment explanation
Indices: 31685417--31685462 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31685407 CAACCAAACC
31685417 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31685439 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31685462 A
1 A
31685463 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31685468 original size:23 final size:23
Alignment explanation
Indices: 31685424--31685468 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31685414 ACCAATTCAA
*
31685424 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
31685447 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
31685469 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:31686968 original size:35 final size:35
Alignment explanation
Indices: 31686922--31686993 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
31686912 TTCTATTAAA
31686922 AATATACTAATTCAAGATTCTAGACATATAAATTT
1 AATATACTAATTCAAGATTCTAGACATATAAATTT
31686957 AATATACTAATTCAAGATTCTAGACATATAAATTT
1 AATATACTAATTCAAGATTCTAGACATATAAATTT
31686992 AA
1 AA
31686994 GTCCATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (35 bp):
AATATACTAATTCAAGATTCTAGACATATAAATTT
Found at i:31720153 original size:20 final size:20
Alignment explanation
Indices: 31720130--31720168 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31720120 AATGGAATAC
31720130 AATGGGATAAT-ATGGGATGT
1 AATGGGAT-ATGATGGGATGT
*
31720150 AATGTGATATGATGGGATG
1 AATGGGATATGATGGGATG
31720169 ATTACAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (20 bp):
AATGGGATATGATGGGATGT
Found at i:31724941 original size:15 final size:15
Alignment explanation
Indices: 31724921--31724958 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
31724911 TGCTGTTGTG
31724921 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
31724936 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
31724951 CAGGTGGA
1 CAGGTGGA
31724959 AGTAGTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.18
Consensus pattern (15 bp):
CAGGTGGATACTGCC
Found at i:31725322 original size:11 final size:11
Alignment explanation
Indices: 31725295--31725329 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
31725285 AGACTCTGAA
31725295 AATCAAAACA-
1 AATCAAAACAC
*
31725305 AAACAAAACAC
1 AATCAAAACAC
31725316 AATCAAAACAC
1 AATCAAAACAC
31725327 AAT
1 AAT
31725330 TGATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (11 bp):
AATCAAAACAC
Found at i:31727488 original size:39 final size:39
Alignment explanation
Indices: 31727434--31727511 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
31727424 GTAAATACAA
* *
31727434 ATTTTTCTCTAGGTTGCCCTGCGTCTAACACCTGCCATT
1 ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
31727473 ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
1 ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
31727512 TCTTCTCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.17, C:0.32, G:0.14, T:0.37
Consensus pattern (39 bp):
ATTTTTCTCTAGGTTGCCCCGCGTCTAACACCTACCATT
Found at i:31727856 original size:15 final size:15
Alignment explanation
Indices: 31727836--31727869 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
31727826 AAAATAATTA
31727836 ATAACTAATAACATT
1 ATAACTAATAACATT
31727851 ATAACTAATAACATT
1 ATAACTAATAACATT
31727866 ATAA
1 ATAA
31727870 AAGTGGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAACTAATAACATT
Found at i:31738080 original size:21 final size:20
Alignment explanation
Indices: 31738056--31738096 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31738046 ATAAGAGAGT
*
31738056 AAAAAGAGCGAGAAATGGGCC
1 AAAAAGAGAGA-AAATGGGCC
*
31738077 AAAAATAGAGAAAATGGGCC
1 AAAAAGAGAGAAAATGGGCC
31738097 CATATGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.12, G:0.29, T:0.07
Consensus pattern (20 bp):
AAAAAGAGAGAAAATGGGCC
Found at i:31749191 original size:24 final size:24
Alignment explanation
Indices: 31749159--31749310 Score: 187
Period size: 24 Copynumber: 6.0 Consensus size: 24
31749149 TGGCATTATG
*
31749159 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31749183 CTAAGTGAAATAAGTCCATGGCAATAT
1 CTAAGTGAAATAAGTCCATGGC---AT
*
31749210 GCTAAGTGAAATAAGACCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
31749235 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
* *
31749262 GCTAAGTGAAATAAGTCCACGACAT
1 -CTAAGTGAAATAAGTCCATGGCAT
*
31749287 CTAAGCGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31749311 GGTGCTAAGT
Statistics
Matches: 112, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
24 63 0.56
25 4 0.04
27 4 0.04
28 41 0.37
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:31749216 original size:52 final size:52
Alignment explanation
Indices: 31749148--31749322 Score: 271
Period size: 52 Copynumber: 3.4 Consensus size: 52
31749138 TATCTAGTAT
*
31749148 ATGGCATTATGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATATGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
31749200 ATGGCAATATGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATATGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
* * * * *
31749252 ATGGCAATGTGCTAAGTGAAATAAGTCCACGACATCTAAGCGAAATAAGTCC
1 ATGGCAATATGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
31749304 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-ATGCTAAGTGA
31749323 GAAATTTCCC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
51 2 0.02
52 114 0.98
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (52 bp):
ATGGCAATATGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:31749424 original size:51 final size:51
Alignment explanation
Indices: 31749346--31749595 Score: 385
Period size: 51 Copynumber: 4.9 Consensus size: 51
31749336 TGAACCTTAG
* *
31749346 GAATAAAATAGCTTTAGACACAGGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * * *
31749397 GAATATAATAGCTTCGGACACAAGTGTGGTACTAAGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
31749448 GAATATAATAGCTTTGGACACAAGTGTGGTACTAAGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
31749499 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* *
31749550 GAATAAAATAGCTTTGG-CTACAAGGGTGGTATTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
31749596 CGTGTATCCG
Statistics
Matches: 186, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 1 0.01
51 185 0.99
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:31761446 original size:14 final size:14
Alignment explanation
Indices: 31761423--31761452 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31761413 TTGAAAATAT
31761423 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
31761437 GTTGATTTGGATTG
1 GTTGAATTGGATTG
31761451 GT
1 GT
31761453 CTCGAGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:31770433 original size:57 final size:58
Alignment explanation
Indices: 31770337--31770456 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 58
31770327 TTTTTCAGGT
*
31770337 CATTTTTATTTTCATTTTGGAAAAAATTACATTATTTTCCAAATGATTC-TATTTCTC
1 CATTTTTATTTTCATTTTGGAAAAAATTACATCATTTTCCAAATGATTCTTATTTCTC
* *
31770394 TATTTTTATTTTCATTTTGGAGAAAACCA-TA-ATCA-TTTCCAAATGTTTCTTATTTCTC
1 CATTTTTATTTTCATTTTGGA-AAAA--ATTACATCATTTTCCAAATGATTCTTATTTCTC
31770452 CATTT
1 CATTT
31770457 CACCATTTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
57 33 0.60
58 19 0.35
59 2 0.04
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (58 bp):
CATTTTTATTTTCATTTTGGAAAAAATTACATCATTTTCCAAATGATTCTTATTTCTC
Found at i:31771340 original size:21 final size:21
Alignment explanation
Indices: 31771311--31771350 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31771301 AGACAAGTGT
*
31771311 TTTTATTAAGTTTTAATTATG
1 TTTTATTAAGTTTCAATTATG
*
31771332 TTTTCTTAAGTTTCAATTA
1 TTTTATTAAGTTTCAATTA
31771351 ATTTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTATTAAGTTTCAATTATG
Found at i:31777591 original size:28 final size:29
Alignment explanation
Indices: 31777515--31777583 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
31777505 AAGGCAGCCA
31777515 TTGTGGCTATCTCTATTAAATGAATGTCT
1 TTGTGGCTATCTCTATTAAATGAATGTCT
* *
31777544 TTATGGTTATCTCTATTAAATG-AT-TCCT
1 TTGTGGCTATCTCTATTAAATGAATGT-CT
31777572 TTGTGGCTATCT
1 TTGTGGCTATCT
31777584 TTGTTAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.03
28 14 0.40
29 20 0.57
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (29 bp):
TTGTGGCTATCTCTATTAAATGAATGTCT
Found at i:31777967 original size:21 final size:21
Alignment explanation
Indices: 31777941--31777982 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31777931 ATGTCTCAAG
*
31777941 TAAAAGAAGAATCAGGGGGGA
1 TAAAAGAACAATCAGGGGGGA
*
31777962 TAAAAGAACCATCAGGGGGGA
1 TAAAAGAACAATCAGGGGGGA
31777983 CGACGACAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.36, T:0.10
Consensus pattern (21 bp):
TAAAAGAACAATCAGGGGGGA
Found at i:31781735 original size:24 final size:24
Alignment explanation
Indices: 31781707--31781753 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31781697 ATATAGATAC
31781707 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
31781731 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
31781754 CCATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:31784607 original size:49 final size:49
Alignment explanation
Indices: 31784525--31784834 Score: 533
Period size: 49 Copynumber: 6.4 Consensus size: 49
31784515 AAATAAAGGT
*
31784525 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31784572 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31784621 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
31784668 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31784717 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31784766 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
31784813 CATTAGGCCTTATCACATATAT
1 CATTAGGCCTTATCACATATAT
31784835 TGCCCATACT
Statistics
Matches: 248, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
47 105 0.42
49 143 0.58
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
Found at i:31784688 original size:96 final size:96
Alignment explanation
Indices: 31784525--31784834 Score: 543
Period size: 96 Copynumber: 3.2 Consensus size: 96
31784515 AAATAAAGGT
*
31784525 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
31784590 ATATATACACTTTCACATTCATCACATTGGC
66 ATATATACACTTTCACATTCATCACATCGGC
*
31784621 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
31784686 ATATATACACTTTCACATTCATCACATCGGC
66 ATATATACACTTTCACATTCATCACATCGGC
* *
31784717 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 CATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
31784782 --ATATATACACTTTCACATTCATCACATCGGC
64 ATATATATACACTTTCACATTCATCACATCGGC
31784813 CATTAGGCCTTATCACATATAT
1 CATTAGGCCTTATCACATATAT
31784835 TGCCCATACT
Statistics
Matches: 208, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
94 6 0.03
96 157 0.75
98 45 0.22
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCACATTCATCACATCGGC
Found at i:31784791 original size:145 final size:145
Alignment explanation
Indices: 31784525--31784834 Score: 597
Period size: 145 Copynumber: 2.2 Consensus size: 145
31784515 AAATAAAGGT
*
31784525 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
31784588 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
66 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
31784653 ATTCATCACATCGGC
131 ATTCATCACATCGGC
31784668 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
31784733 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
66 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
31784798 ATTCATCACATCGGC
131 ATTCATCACATCGGC
31784813 CATTAGGCCTTATCACATATAT
1 CATTAGGCCTTATCACATATAT
31784835 TGCCCATACT
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 15 0.09
145 149 0.91
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
ATTCATCACATCGGC
Found at i:31784871 original size:27 final size:27
Alignment explanation
Indices: 31784839--31784920 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
31784829 ATATATTGCC
31784839 CATACTCCTTATTTTATTTTTTTCTAA
1 CATACTCCTTATTTTATTTTTTTCTAA
* *
31784866 CATACTCCTTA--TTATTTTATTGC--C
1 CATACTCCTTATTTTATTTT-TTTCTAA
31784890 CATACTCCTTATTTTATTTTTTTCTAA
1 CATACTCCTTATTTTATTTTTTTCTAA
31784917 CATA
1 CATA
31784921 AACCATTATC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
24 11 0.24
25 10 0.22
26 10 0.22
27 15 0.33
ACGTcount: A:0.23, C:0.21, G:0.01, T:0.55
Consensus pattern (27 bp):
CATACTCCTTATTTTATTTTTTTCTAA
Found at i:31784893 original size:24 final size:24
Alignment explanation
Indices: 31784832--31784902 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 24
31784822 TTATCACATA
31784832 TATTGCCCATACTCCTTATTTTATTT
1 TATTGCCCATACTCCTTA--TTATTT
* *
31784858 T-TTTCTAACATACTCCTTATTATTT
1 TATTGC--CCATACTCCTTATTATTT
31784883 TATTGCCCATACTCCTTATT
1 TATTGCCCATACTCCTTATT
31784903 TTATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 13 0.34
25 10 0.26
26 4 0.11
27 11 0.29
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (24 bp):
TATTGCCCATACTCCTTATTATTT
Found at i:31786959 original size:40 final size:40
Alignment explanation
Indices: 31786608--31786950 Score: 506
Period size: 40 Copynumber: 8.6 Consensus size: 40
31786598 CCAGCATGAT
* * * * *
31786608 TGCTCTTCGGGACCTAGCTCGGATATAACACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** * **
31786648 TGCTCCTCGGGGTTTAGCACGGATGTATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
31786688 TGCTCTTCAGAACTTAGCCCGGATACACCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
31786728 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31786768 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
31786808 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31786848 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
31786888 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
31786928 TGCTCTTCGAGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
31786951 CATTTCACTC
Statistics
Matches: 273, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 273 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:31787596 original size:49 final size:49
Alignment explanation
Indices: 31787514--31788030 Score: 856
Period size: 49 Copynumber: 10.8 Consensus size: 49
31787504 AAATAAAGGT
*
31787514 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
**
31787561 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTAGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31787610 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
31787657 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
* *
31787706 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCATATTGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
* *
31787755 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
31787802 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31787851 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
*
31787900 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
31787947 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
* *
31787996 TATTAGGCCTTATCAC--ATATATACATTTTCACATT
1 CATTAGGCCTTATCACATATATATACACTTTCACATT
31788031 TATTCAAATA
Statistics
Matches: 441, Mismatches: 21, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
47 165 0.37
49 276 0.63
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
Found at i:31787677 original size:96 final size:96
Alignment explanation
Indices: 31787514--31788030 Score: 867
Period size: 96 Copynumber: 5.4 Consensus size: 96
31787504 AAATAAAGGT
*
31787514 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
31787579 ATATATACACTTTCACATTCATCACATTAGC
66 ATATATACACTTTCACATTCATCACATTGGC
*
31787610 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
31787675 ATATATACACTTTCACATTCATCACATCGGC
66 ATATATACACTTTCACATTCATCACATTGGC
* * *
31787706 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCATATTGGCCATTCGGCCTTATCAC
1 CATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
31787771 --ATATATACACTTTCACATTCATCACATCGAC
64 ATATATATACACTTTCACATTCATCACATTGGC
31787802 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 CATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
31787867 ATATATATACACTTTCACATTCATCACATTGGC
64 ATATATATACACTTTCACATTCATCACATTGGC
*
31787900 CATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
31787965 ATATATACACTTTCACATTCATCACATCGGC
66 ATATATACACTTTCACATTCATCACATTGGC
* *
31787996 TATTAGGCCTTATCACATATATACATTTTCACATT
1 CATTAGGCCTTATCACATATATACACTTTCACATT
31788031 TATTCAAATA
Statistics
Matches: 400, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
96 312 0.78
98 88 0.22
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCACATTCATCACATTGGC
Found at i:31787780 original size:145 final size:145
Alignment explanation
Indices: 31787514--31788030 Score: 952
Period size: 145 Copynumber: 3.6 Consensus size: 145
31787504 AAATAAAGGT
*
31787514 CATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
31787577 ATATATATACACTTTCACATTCATCACATTAGCCATTCGGCCTTATCACATATATACACTTTCAC
66 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
31787642 ATTCATCACATCGGC
131 ATTCATCACATCGGC
31787657 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
31787722 ATATATATACACTTTCACATTCATCATATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
66 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
*
31787787 ATTCATCACATCGAC
131 ATTCATCACATCGGC
31787802 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
31787867 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
66 ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
31787932 ATTCATCACATCGGC
131 ATTCATCACATCGGC
*
31787947 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
31788012 --ATATATACATTTTCACATT
66 ATATATATACACTTTCACATT
31788031 TATTCAAATA
Statistics
Matches: 364, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
143 33 0.09
145 331 0.91
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (145 bp):
CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
ATTCATCACATCGGC
Found at i:31791091 original size:40 final size:40
Alignment explanation
Indices: 31791008--31791193 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
31790998 TTGAATGATG
* * * *
31791008 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
31791048 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31791088 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31791128 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31791169 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31791194 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31791200 original size:80 final size:79
Alignment explanation
Indices: 31791061--31791226 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
31791051 GGACTAAGAT
* **
31791061 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
31791125 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
31791141 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
31791205 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
31791220 CCGAAGG
1 CCGAAGG
31791227 TATGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:31798942 original size:40 final size:37
Alignment explanation
Indices: 31798885--31799067 Score: 161
Period size: 40 Copynumber: 4.7 Consensus size: 37
31798875 TTGAATGATG
31798885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGT-ACCA-A
* *
31798925 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTACTAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTACCAA
* * * *
31798963 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCAAG-TAC-CAA
* * *
31799002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAG-TACCA-A
* *
31799042 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
31799068 AATGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
37 18 0.14
38 13 0.10
39 17 0.14
40 69 0.55
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (37 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTACCAA
Found at i:31799005 original size:77 final size:81
Alignment explanation
Indices: 31798885--31799067 Score: 225
Period size: 77 Copynumber: 2.3 Consensus size: 81
31798875 TTGAATGATG
*
31798885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCAT
31798948 TTGTGCAAG-TACTA-A
65 TTGTGCAAGTTACTATA
* * * * **
31798963 TCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
*
31799026 TGTGCGAGTTACTATA
66 TGTGCAAGTTACTATA
* *
31799042 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31799068 AATGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
76 1 0.01
77 43 0.48
78 22 0.25
79 9 0.10
80 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
TGTGCAAGTTACTATA
Found at i:31799085 original size:80 final size:76
Alignment explanation
Indices: 31798938--31799100 Score: 184
Period size: 79 Copynumber: 2.1 Consensus size: 76
31798928 GGACTAAGAT
* * **
31798938 CCGAAGGCATTTGTGCAAGTACTAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGAAGGCATTTGTGCAAGTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
31799003 CCGGGTTAAGTC
66 CC-GGTTAAATC
* * *
31799015 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCT
1 CCGAAGGCATTTGTGCAAG-TACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
31799079 ATATCCGGTTAAATT
62 AAATCCGGTTAAATC
31799094 CCGAAGG
1 CCGAAGG
31799101 TATGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 18 0.25
78 5 0.07
79 25 0.35
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCAAGTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGTTAAATC
Found at i:31832412 original size:41 final size:43
Alignment explanation
Indices: 31832367--31832455 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 43
31832357 TTTAAATAAT
*
31832367 ATTTAAGT-TAATATTATT-ATATTTTAATA-ATAATATAAAAA
1 ATTTAAGTGTAAT-TTATTAATATTTTAATATATAAAATAAAAA
* *
31832408 ATTT-ATTGTAATTTATTAATATTTTAATATATAAAATATAAA
1 ATTTAAGTGTAATTTATTAATATTTTAATATATAAAATAAAAA
*
31832450 TTTTAA
1 ATTTAA
31832456 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
40 7 0.17
41 19 0.47
42 13 0.32
43 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (43 bp):
ATTTAAGTGTAATTTATTAATATTTTAATATATAAAATAAAAA
Found at i:31832472 original size:24 final size:24
Alignment explanation
Indices: 31832437--31832490 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
31832427 TATTTTAATA
*
31832437 TATAAA-ATATAAATTTTAAATATT
1 TATAAACA-ATAAATATTAAATATT
* *
31832461 TTTAAACAATAAATATTAATTATT
1 TATAAACAATAAATATTAAATATT
31832485 TATAAA
1 TATAAA
31832491 ATTTAATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAACAATAAATATTAAATATT
Found at i:31840298 original size:13 final size:13
Alignment explanation
Indices: 31840265--31840306 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
31840255 TATATATTAG
*
31840265 CCCAAGTACCCAA
1 CCCAATTACCCAA
31840278 CCC-A--ACCCAA
1 CCCAATTACCCAA
31840288 CCCAATTACCCAA
1 CCCAATTACCCAA
31840301 CCCAAT
1 CCCAAT
31840307 CATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 1 0.04
13 15 0.58
ACGTcount: A:0.38, C:0.50, G:0.02, T:0.10
Consensus pattern (13 bp):
CCCAATTACCCAA
Found at i:31840407 original size:9 final size:9
Alignment explanation
Indices: 31840395--31840436 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
31840385 AATAATTTGT
31840395 TTAATTCGG
1 TTAATTCGG
**
31840404 TTAATTAAG
1 TTAATTCGG
31840413 TTAATTCAGG
1 TTAATTC-GG
31840423 -TAATTCGG
1 TTAATTCGG
31840431 TTAATT
1 TTAATT
31840437 TTATACTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 2 0.07
9 24 0.89
10 1 0.04
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:31856180 original size:22 final size:22
Alignment explanation
Indices: 31856152--31856273 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
31856142 TTCCACATCC
31856152 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
31856174 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
31856198 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
31856221 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
31856245 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31856268 ATCACA
1 ATCACA
31856274 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31856187 original size:47 final size:47
Alignment explanation
Indices: 31856124--31856380 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
31856114 CCCTTCGGGA
* * *
31856124 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
31856171 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
31856218 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
31856265 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
31856312 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
31856361 CTTATCACATATATATACTT
1 CTTATCACATATATACACTT
31856381 GTACATCAAT
Statistics
Matches: 191, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 149 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:31861816 original size:28 final size:28
Alignment explanation
Indices: 31861784--31861839 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
31861774 ATAAGTTGAG
31861784 AAAGACTTTGTTTTGCTCTTTCCATCCA
1 AAAGACTTTGTTTTGCTCTTTCCATCCA
*
31861812 AAAGACTTTGTTTTTCTCTTTCCATCCA
1 AAAGACTTTGTTTTGCTCTTTCCATCCA
31861840 CCACCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.45
Consensus pattern (28 bp):
AAAGACTTTGTTTTGCTCTTTCCATCCA
Found at i:31868913 original size:2 final size:2
Alignment explanation
Indices: 31868903--31868932 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
31868893 TATTAATCTA
31868903 AT AT CAT 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 AT AT A
31868933 ATAAAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31869143 original size:33 final size:35
Alignment explanation
Indices: 31869098--31869168 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
31869088 GCCTCTTCAA
* * * *
31869098 AAATAAAAATTATTTTTTAAGT-TTTTAAAATTTT
1 AAATAAAAATTATATTTTAACTCTCTTAAAATTAT
31869132 AAAT-AAAATTATATTTTAACTCTCTTAAAATTAT
1 AAATAAAAATTATATTTTAACTCTCTTAAAATTAT
31869166 AAA
1 AAA
31869169 AATTTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 15 0.47
34 17 0.53
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (35 bp):
AAATAAAAATTATATTTTAACTCTCTTAAAATTAT
Found at i:31869180 original size:30 final size:31
Alignment explanation
Indices: 31869136--31869210 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 31
31869126 AATTTTAAAT
* *
31869136 AAAATTATATTTTAACTCTCTT-AAAATTATA
1 AAAATTATAATTTAA-TATCTTAAAAATTATA
*
31869167 AAAATT-TAATTTAATATTTTAAAAATTATA
1 AAAATTATAATTTAATATCTTAAAAATTATA
*
31869197 AAATATTAAAATTT
1 AAA-ATTATAATTT
31869211 CATTCGGCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.11
30 19 0.51
31 9 0.24
32 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATTATAATTTAATATCTTAAAAATTATA
Found at i:31869431 original size:31 final size:31
Alignment explanation
Indices: 31869375--31869475 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 31
31869365 CTAGTAGGAT
* * * *
31869375 GCGAAGCTAGCGGAAGTGAAACTAGCAGAAA
1 GCGAAGCTAACGGGATTGAAGCTAGCAGAAA
31869406 GCGAAGCTAACGGGATTGAAGCTAGCA-AGAA
1 GCGAAGCTAACGGGATTGAAGCTAGCAGA-AA
* * * *
31869437 GC-AAAC-AAGTGGGATCGAAGCTAGCGGAAA
1 GCGAAGCTAA-CGGGATTGAAGCTAGCAGAAA
*
31869467 GCAAAGCTA
1 GCGAAGCTA
31869476 GCGAGATCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
29 2 0.04
30 22 0.39
31 31 0.55
32 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.32, T:0.11
Consensus pattern (31 bp):
GCGAAGCTAACGGGATTGAAGCTAGCAGAAA
Found at i:31871496 original size:30 final size:30
Alignment explanation
Indices: 31871456--31871516 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
31871446 GGTTAAGAGA
31871456 ATTTTCTAAGTCATTAACAGGAAGGCATAT
1 ATTTTCTAAGTCATTAACAGGAAGGCATAT
* *
31871486 ATTTTGTAAGTTATTAACAGGAAGGCATAT
1 ATTTTCTAAGTCATTAACAGGAAGGCATAT
31871516 A
1 A
31871517 CTTAGCATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (30 bp):
ATTTTCTAAGTCATTAACAGGAAGGCATAT
Found at i:31873379 original size:38 final size:38
Alignment explanation
Indices: 31873337--31873414 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
31873327 ATGAAAAGAT
31873337 AAGAAAAATGCCAAAAA-AAAACTTAAATTTTTTTTAAA
1 AAGAAAAATGCCAAAAATAAAACTT-AATTTTTTTTAAA
31873375 AAGAAAAATGCCAAAAATAAAACTTAATTTTTTTTAAA
1 AAGAAAAATGCCAAAAATAAAACTTAATTTTTTTTAAA
31873413 AA
1 AA
31873415 TGATAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 32 0.82
39 7 0.18
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (38 bp):
AAGAAAAATGCCAAAAATAAAACTTAATTTTTTTTAAA
Found at i:31879117 original size:42 final size:43
Alignment explanation
Indices: 31878961--31879118 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 43
31878951 TATGTGTTAT
* * *
31878961 CGTGTAAGACAACGTCTGGGATGTTGGCATCGAT-TTGTGACTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATT-TGA-TTA
* * * *
31879005 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTT
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTA
**
31879047 CGTGTAAGACC-CTGTCCGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGATTA
*
31879090 CATGTAAGACCACGTCT-GGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
31879119 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 38 0.41
43 25 0.27
44 29 0.31
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTA
Found at i:31882098 original size:73 final size:73
Alignment explanation
Indices: 31881971--31882113 Score: 232
Period size: 73 Copynumber: 2.0 Consensus size: 73
31881961 TCGACCATGG
** * *
31881971 AGGAAGATAATGACATTGTTGATACCGAAAAATGATTGCCTAAGGGATCGTGCTAGGTACATCTT
1 AGGAAGATAATGACATTGTTGATACCGAAAAACAATTGCCCAAGGGATCATGCTAGGTACATCTT
31882036 CACGCGAT
66 CACGCGAT
* *
31882044 AGGAAGATAATGACATTGTTGATACTGAAAAACAATTGCCCAAGGGGTCATGCTAGGTACATCTT
1 AGGAAGATAATGACATTGTTGATACCGAAAAACAATTGCCCAAGGGATCATGCTAGGTACATCTT
31882109 CACGC
66 CACGC
31882114 CATAATGATG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (73 bp):
AGGAAGATAATGACATTGTTGATACCGAAAAACAATTGCCCAAGGGATCATGCTAGGTACATCTT
CACGCGAT
Found at i:31885245 original size:19 final size:17
Alignment explanation
Indices: 31885197--31885249 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
31885187 TTTTAATATG
*
31885197 TTTTTTATA-AATTTTAA
1 TTTTTT-TAGAATTTTTA
*
31885214 TTTTTTTATAATTTTTA
1 TTTTTTTAGAATTTTTA
31885231 TTTATGTTTAGAATTTTTA
1 TTT-T-TTTAGAATTTTTA
31885250 AAAGTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 2 0.06
17 16 0.52
18 1 0.03
19 12 0.39
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (17 bp):
TTTTTTTAGAATTTTTA
Found at i:31886224 original size:16 final size:17
Alignment explanation
Indices: 31886200--31886235 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
31886190 TCTTTCATTT
31886200 TTTTCACACTTCAATCC
1 TTTTCACACTTCAATCC
31886217 TTTT-ACACTTCAATCC
1 TTTTCACACTTCAATCC
31886233 TTT
1 TTT
31886236 CAATATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTCACACTTCAATCC
Found at i:31886275 original size:11 final size:11
Alignment explanation
Indices: 31886230--31886283 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
31886220 TACACTTCAA
*
31886230 TCCTTTCAATAT
1 TCCTCTCAA-AT
*
31886242 T-CTCTCAAGT
1 TCCTCTCAAAT
*
31886252 TTCTCTCAAAT
1 TCCTCTCAAAT
31886263 TCCTCTCAAAT
1 TCCTCTCAAAT
*
31886274 TCCTTTCAAA
1 TCCTCTCAAA
31886284 GCTCTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 2 0.06
11 33 0.92
12 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (11 bp):
TCCTCTCAAAT
Found at i:31886282 original size:22 final size:21
Alignment explanation
Indices: 31886230--31886283 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
31886220 TACACTTCAA
*
31886230 TCCTTTCAATATTCTCTCAAGT
1 TCCTTTCAA-ATTCTCTCAAAT
* *
31886252 TTCTCTCAAATTCCTCTCAAAT
1 TCCTTTCAAATT-CTCTCAAAT
31886274 TCCTTTCAAA
1 TCCTTTCAAA
31886284 GCTCTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (21 bp):
TCCTTTCAAATTCTCTCAAAT
Found at i:31886343 original size:13 final size:14
Alignment explanation
Indices: 31886318--31886346 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31886308 GCTCTATTTA
31886318 AATTTTTTCTAAAT
1 AATTTTTTCTAAAT
31886332 AATTTTTT-TAAAT
1 AATTTTTTCTAAAT
31886345 AA
1 AA
31886347 AAAAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTTTTCTAAAT
Found at i:31887450 original size:7 final size:7
Alignment explanation
Indices: 31887438--31887463 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31887428 TAGTCGATTC
31887438 GTATTTA
1 GTATTTA
31887445 GTATTTA
1 GTATTTA
31887452 GTATTTA
1 GTATTTA
31887459 GTATT
1 GTATT
31887464 ATGTATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:31888010 original size:30 final size:31
Alignment explanation
Indices: 31887966--31888052 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 31
31887956 GACGCGGGCT
** *
31887966 CATCAACAACGCCCACATAATCACCGGT-CC
1 CATCAACAGTGCCCACACAATCACCGGTACC
* * * *
31887996 GATCAATAGTGCCCATACAATCACC-ATACC
1 CATCAACAGTGCCCACACAATCACCGGTACC
31888026 CATCAACAGTGCCCACACAATCACCGG
1 CATCAACAGTGCCCACACAATCACCGG
31888053 GCCCAGCACT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.34, C:0.39, G:0.11, T:0.15
Consensus pattern (31 bp):
CATCAACAGTGCCCACACAATCACCGGTACC
Found at i:31888659 original size:54 final size:54
Alignment explanation
Indices: 31888577--31888696 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
31888567 TATAGTTTCA
* * * *
31888577 TTTAATAAAATAAAAGTTGTTTTGAATAAAGTAAT-TGTATG-TTACTTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTAAATAAAGCAATAT-TATGAATA-TTTTATATT
* * *
31888631 TTTAATAAAATAGAAGTTCTTTTAAATAAGGCAATATTTTGAATATTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTAAATAAAGCAATATTATGAATATTTTATATT
31888685 TTTAATAAAATA
1 TTTAATAAAATA
31888697 TAAATAATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 54 0.95
55 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.47
Consensus pattern (54 bp):
TTTAATAAAATAAAAGTTCTTTTAAATAAAGCAATATTATGAATATTTTATATT
Found at i:31891885 original size:126 final size:126
Alignment explanation
Indices: 31891722--31892100 Score: 641
Period size: 126 Copynumber: 3.0 Consensus size: 126
31891712 GCCAAATAGG
* * *
31891722 AACTACTGTAGAAAAAAAAGCGTCCATGTGGGAGCTTTTTTTAGTACTTTTGCTAACAGTGCATC
1 AACTACTGTAGAAAAAAAA-CGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* *
31891787 TTGCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* *
31891849 AACTACTGTAGAAAAAAAATGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
31891914 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAACTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* *
31891975 AACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
31892040 CGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
31892101 TACGTCTTCT
Statistics
Matches: 237, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
126 218 0.92
127 19 0.08
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:31891979 original size:15 final size:15
Alignment explanation
Indices: 31891933--31891979 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
31891923 CGTTTTTGAC
*
31891933 ACTATTTGTTCAGAA
1 ACTATTTTTTCAGAA
* *
31891948 AC-ATCTTCTCA-AA
1 ACTATTTTTTCAGAA
31891961 ACTATTTTTTCAGAA
1 ACTATTTTTTCAGAA
31891976 ACTA
1 ACTA
31891980 CTATAGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 8 0.32
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.38
Consensus pattern (15 bp):
ACTATTTTTTCAGAA
Found at i:31892108 original size:28 final size:28
Alignment explanation
Indices: 31892061--31892124 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
31892051 TTTTTGACAC
*
31892061 TATTTGTTCAGAAACATCTTCTCAAAAT
1 TATTTTTTCAGAAACATCTTCTCAAAAT
* * * *
31892089 TATTTTTTCAGATACGTCTTCTCTAATT
1 TATTTTTTCAGAAACATCTTCTCAAAAT
31892117 TATTTTTT
1 TATTTTTT
31892125 TTTGAAACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.52
Consensus pattern (28 bp):
TATTTTTTCAGAAACATCTTCTCAAAAT
Found at i:31893732 original size:39 final size:39
Alignment explanation
Indices: 31893678--31893754 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
31893668 TCCCCAGCTA
31893678 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTTG
1 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTTG
31893717 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTT
1 ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTT
31893755 TGCTTTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (39 bp):
ACCAAAGACTCTGGTGTGATAATTCTCTGAAGATTTTTG
Found at i:31895602 original size:2 final size:2
Alignment explanation
Indices: 31895595--31895652 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
31895585 ATGGTACCTC
*
31895595 CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
31895637 CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA
31895653 TTGCAGTGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31896629 original size:5 final size:5
Alignment explanation
Indices: 31896621--31896657 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
31896611 AAAAATAAAA
31896621 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TT
31896658 CAGGCAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (5 bp):
TTTGG
Found at i:31898046 original size:39 final size:39
Alignment explanation
Indices: 31898003--31898081 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
31897993 TCATATATAC
31898003 TTGTAAATTTTTTGTACAGATTGATTTAATAAAATTCTA
1 TTGTAAATTTTTTGTACAGATTGATTTAATAAAATTCTA
*
31898042 TTGTAATTTTTTTGTACAGATTGATTTAATAAAATTCTA
1 TTGTAAATTTTTTGTACAGATTGATTTAATAAAATTCTA
31898081 T
1 T
31898082 CATTTACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (39 bp):
TTGTAAATTTTTTGTACAGATTGATTTAATAAAATTCTA
Found at i:31903086 original size:20 final size:20
Alignment explanation
Indices: 31903061--31903101 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
31903051 CAAGTGAAAC
31903061 ATAATTTATTCTGAATCAAG
1 ATAATTTATTCTGAATCAAG
*
31903081 ATAATTTATTTTGAATCAAG
1 ATAATTTATTCTGAATCAAG
31903101 A
1 A
31903102 AATAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (20 bp):
ATAATTTATTCTGAATCAAG
Found at i:31904959 original size:21 final size:24
Alignment explanation
Indices: 31904912--31904956 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31904902 ATCTTCACTC
*
31904912 TCTTCTTCTTCCTCCTTCTCCTCT
1 TCTTCTTCTTCCTCCGTCTCCTCT
31904936 TCTTCTTCTTCCT-CGTCTCCT
1 TCTTCTTCTTCCTCCGTCTCCT
31904957 TCTCTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.53
Consensus pattern (24 bp):
TCTTCTTCTTCCTCCGTCTCCTCT
Found at i:31906288 original size:15 final size:15
Alignment explanation
Indices: 31906267--31906301 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31906257 TTTAAAAATA
*
31906267 ATTATTTATATTTAT
1 ATTATTTAGATTTAT
*
31906282 CTTATTTAGATTTAT
1 ATTATTTAGATTTAT
31906297 ATTAT
1 ATTAT
31906302 AAAAAAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTATTTAGATTTAT
Found at i:31906412 original size:21 final size:21
Alignment explanation
Indices: 31906388--31906428 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31906378 CAAACACCAA
31906388 ACCCCAAATCTTAGACCATAC
1 ACCCCAAATCTTAGACCATAC
*
31906409 ACCCTAAATCTTAGACCATA
1 ACCCCAAATCTTAGACCATA
31906429 AACCTACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.22
Consensus pattern (21 bp):
ACCCCAAATCTTAGACCATAC
Found at i:31906851 original size:7 final size:7
Alignment explanation
Indices: 31906825--31906987 Score: 119
Period size: 7 Copynumber: 23.0 Consensus size: 7
31906815 ACCCCTATCC
31906825 CCATAAA
1 CCATAAA
*
31906832 CCTTAAA
1 CCATAAA
**
31906839 TTATAAA
1 CCATAAA
*
31906846 ACATAAA
1 CCATAAA
31906853 CCATAAA
1 CCATAAA
*
31906860 TCATAAA
1 CCATAAA
31906867 CCATAAA
1 CCATAAA
* *
31906874 CCCCTAAC
1 -CCATAAA
* *
31906882 CCCTAAC
1 CCATAAA
*
31906889 CCCTAAA
1 CCATAAA
**
31906896 CTTTAAA
1 CCATAAA
** *
31906903 CCCCAAC
1 CCATAAA
*
31906910 CCTTAAA
1 CCATAAA
31906917 CCATAAA
1 CCATAAA
*
31906924 CCATTAA
1 CCATAAA
31906931 CCATAAA
1 CCATAAA
31906938 CCATAAA
1 CCATAAA
31906945 CCATAAA
1 CCATAAA
*
31906952 CCATAAT
1 CCATAAA
*
31906959 CCCTAAA
1 CCATAAA
*
31906966 CCCATAAT
1 -CCATAAA
31906974 CCATAAA
1 CCATAAA
*
31906981 CCTTAAA
1 CCATAAA
31906988 ATAGTAATTT
Statistics
Matches: 123, Mismatches: 31, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
7 113 0.92
8 10 0.08
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
CCATAAA
Found at i:31907389 original size:40 final size:40
Alignment explanation
Indices: 31907340--31907550 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
31907330 TTTTTTTTTT
* * * *
31907340 GCGGTGTTTTTGATAAAA-CGCCGCTAAAGCTTGATCTATA
1 GCGGCGTTTTTCA-AAAAGCGCCGCTAATGCTCGATCTATA
*
31907380 GCGGCGTTTTTCAAAAAGCGCCACTAATTG-TCGA-CTTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAA-TGCTCGATC-TATA
* * *
31907420 GCGGCGTTTTTTAAAAAGCGCTGATAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
31907460 GCGGCGTTTTTCTAAAAGCGCCACTAATGCTCGATCGATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
31907500 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
31907540 GTGGCTTTTTT
1 GCGGCGTTTTT
31907551 TTATCCAAAC
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 7 0.05
40 137 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:31908223 original size:57 final size:58
Alignment explanation
Indices: 31908125--31908242 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
31908115 AACAAAATGG
* *
31908125 TGAAAATGGAGAAATGTGAAACATTTTGAAATGATTATGG-TTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTTGAAATGAATATGGTTTTTC-CCAAAATGAAAA
* * *
31908183 TGAAAGTGGAGAAAT-AGAATCA-TTTGTAAATGAATGTGGTTTTTCCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTTG-AAATGAATATGGTTTTTCCCAAAATGAAAA
31908240 TGA
1 TGA
31908243 CTTGGAAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 4 0.08
57 30 0.57
58 19 0.36
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTTGAAATGAATATGGTTTTTCCCAAAATGAAAA
Found at i:31914368 original size:93 final size:93
Alignment explanation
Indices: 31914255--31914426 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31914245 CGCCCATAAG
* * *
31914255 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCA
31914320 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
31914348 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCA
*
31914413 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
31914427 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCCGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:31914423 original size:46 final size:46
Alignment explanation
Indices: 31914248--31914423 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
31914238 TGTAACCCGC
* *
31914248 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
31914294 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
31914344 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
31914387 CCATAAGTGAACTCCGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
31914424 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:31930004 original size:7 final size:7
Alignment explanation
Indices: 31929992--31930029 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
31929982 AACACTACCT
31929992 CATATCA
1 CATATCA
31929999 CATATCA
1 CATATCA
31930006 CATATCA
1 CATATCA
31930013 CATATCA
1 CATATCA
31930020 CATATCA
1 CATATCA
31930027 CAT
1 CAT
31930030 GTTGATCGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
CATATCA
Found at i:31930202 original size:45 final size:45
Alignment explanation
Indices: 31930152--31930242 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
31930142 CCAAAAAACG
*
31930152 TGTCACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
**
31930197 TGTCACATATGTCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
31930242 T
1 T
31930243 CACATAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:31930240 original size:21 final size:21
Alignment explanation
Indices: 31930171--31930246 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
31930161 CATCATGAAC
*
31930171 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
31930192 TCAGATGTCACATATGTC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
31930216 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
31930237 TCAGATCACA
1 TCAGACCACA
31930247 TAATTCCTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.47
22 4 0.10
23 3 0.08
24 10 0.25
25 2 0.05
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:31934690 original size:9 final size:10
Alignment explanation
Indices: 31934675--31934731 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
31934665 TGATACGTGG
31934675 GACATGATAT
1 GACATGATAT
31934685 -ACATGAT-T
1 GACATGATAT
*
31934693 GATATGATAT
1 GACATGATAT
31934703 GCACATGATAT
1 G-ACATGATAT
*
31934714 G-TATGATAT
1 GACATGATAT
31934723 GCACATGAT
1 G-ACATGAT
31934732 GTGTATGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
8 1 0.03
9 21 0.55
10 2 0.05
11 14 0.37
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (10 bp):
GACATGATAT
Found at i:31934752 original size:20 final size:20
Alignment explanation
Indices: 31934685--31934752 Score: 102
Period size: 20 Copynumber: 3.4 Consensus size: 20
31934675 GACATGATAT
31934685 ACATGAT-TGATATGATATGC
1 ACATGATGTG-TATGATATGC
*
31934705 ACATGATATGTATGATATGC
1 ACATGATGTGTATGATATGC
*
31934725 ACATGATGTGTATGAAATGC
1 ACATGATGTGTATGATATGC
31934745 ACATGATG
1 ACATGATG
31934753 AATTCATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (20 bp):
ACATGATGTGTATGATATGC
Found at i:31934881 original size:52 final size:50
Alignment explanation
Indices: 31934801--31934936 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 50
31934791 AAGGAAGTGC
* *
31934801 AAAAGGGCTTCTGCCCCAGTTTAGTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
31934853 AAAAGGGCTTATGCCCCTGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
31934904 AAAAGGGCTTTGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTTGCCCCAGTTTATTGAAAAG-GGCT
31934937 AGGCCTCTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.12
50 7 0.09
51 24 0.31
52 33 0.42
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:31934899 original size:25 final size:26
Alignment explanation
Indices: 31934801--31934923 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
31934791 AAGGAAGTGC
* *
31934801 AAAAGGGCTTCTGCCCCAGTTTAGTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
31934827 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
31934853 AAAAGGGCTTATGCCCCTGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
31934879 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
31934904 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
31934924 ATTAAAAGAG
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 32 0.37
26 54 0.63
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:31940428 original size:40 final size:40
Alignment explanation
Indices: 31940236--31940421 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
31940226 TTGAATGATG
* * * * *
31940236 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
31940276 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31940316 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
31940356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31940397 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
31940422 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31940428 original size:80 final size:79
Alignment explanation
Indices: 31940289--31940454 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
31940279 GGACTAAGAT
* * **
31940289 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
31940353 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
31940369 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
31940433 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
31940448 CCGAAGG
1 CCGAAGG
31940455 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:31945918 original size:9 final size:10
Alignment explanation
Indices: 31945906--31945962 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
31945896 TACGTGGGAT
31945906 ATGATAT-AC
1 ATGATATGAC
*
31945915 ATGAT-TGAT
1 ATGATATGAC
31945924 ATGATATGCAC
1 ATGATATG-AC
*
31945935 ATGATATG-T
1 ATGATATGAC
31945944 ATGATATGCAC
1 ATGATATG-AC
31945955 ATGATATG
1 ATGATATG
31945963 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:31945938 original size:20 final size:20
Alignment explanation
Indices: 31945905--31945979 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
31945895 ATACGTGGGA
31945905 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
31945922 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
31945943 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
31945963 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
31945980 GAATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:31945940 original size:11 final size:11
Alignment explanation
Indices: 31945924--31945979 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
31945914 CATGATTGAT
31945924 ATGATATGCAC
1 ATGATATGCAC
*
31945935 ATGATATG--T
1 ATGATATGCAC
31945944 ATGATATGCAC
1 ATGATATGCAC
*
31945955 ATGATATG--T
1 ATGATATGCAC
*
31945964 ATGAAATGCAC
1 ATGATATGCAC
31945975 ATGAT
1 ATGAT
31945980 GAATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:31946059 original size:26 final size:26
Alignment explanation
Indices: 31946030--31946088 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
31946020 AGGAAGTGCG
**
31946030 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTACCGA
31946056 AAAGGGCTTATGCCCCAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTACCGA
31946082 AAAGGGC
1 AAAGGGC
31946089 ATAAGCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (26 bp):
AAAGGGCTTATGCCCCAGTTTACCGA
Found at i:31946180 original size:26 final size:26
Alignment explanation
Indices: 31946151--31946285 Score: 181
Period size: 25 Copynumber: 5.3 Consensus size: 26
31946141 GAGGAAGTGC
31946151 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
31946177 AAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
31946202 AAAAGGGCTTATGCCCCTGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
31946228 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
31946253 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
31946276 AAAAGAGGCT
1 AAAAG-GGCT
31946286 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 53 0.55
26 32 0.33
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:31946192 original size:122 final size:121
Alignment explanation
Indices: 31945975--31946209 Score: 443
Period size: 122 Copynumber: 1.9 Consensus size: 121
31945965 TGAAATGCAC
*
31945975 ATGATGAATTCATAAATGAATTGGGTTGGGTTTTTATATGGATGGAGGAAGTGCGAAAGGGCTTA
1 ATGATGAATTCATAAATGAATTGGGTTGGGTTTTTATATGGATGGAGGAAGTGCAAAAGGGCTTA
31946040 TGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCATAAGCAT
66 TGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCGAAAAGGGCATAAGCAT
*
31946097 ATGATGAATTCATAAATGCATTGGGTTGGGTTTTTATATGGATGGAGGAAGTGCAAAAGGGCTTA
1 ATGATGAATTCATAAATGAATTGGGTTGGGTTTTTATATGGATGGAGGAAGTGCAAAAGGGCTTA
31946162 TGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCGAAAAGGGC
66 TGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCGAAAAGGGC
31946210 TTATGCCCCT
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
121 20 0.18
122 91 0.82
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (121 bp):
ATGATGAATTCATAAATGAATTGGGTTGGGTTTTTATATGGATGGAGGAAGTGCAAAAGGGCTTA
TGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCGAAAAGGGCATAAGCAT
Found at i:31946227 original size:51 final size:51
Alignment explanation
Indices: 31946151--31946285 Score: 215
Period size: 51 Copynumber: 2.7 Consensus size: 51
31946141 GAGGAAGTGC
31946151 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
31946202 AAAAGGGCTTATGCCCCTGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
31946253 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
31946286 AGGCCTCCAG
Statistics
Matches: 80, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 9 0.11
51 57 0.71
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:31954981 original size:20 final size:20
Alignment explanation
Indices: 31954956--31954997 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31954946 CATAATGAAC
31954956 ATAACCTTGCATTTTATCAA
1 ATAACCTTGCATTTTATCAA
31954976 ATAACCTTGCATTTTATCAA
1 ATAACCTTGCATTTTATCAA
31954996 AT
1 AT
31954998 CTCTTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAACCTTGCATTTTATCAA
Found at i:31957750 original size:27 final size:27
Alignment explanation
Indices: 31957719--31957896 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
31957709 TGAATTGTAC
*
31957719 AGCACTAAGTGTGCGATTTGACTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31957746 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31957772 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31957800 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31957828 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31957855 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31957882 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31957897 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31957833 original size:82 final size:81
Alignment explanation
Indices: 31957720--31957875 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31957710 GAATTGTACA
* *
31957720 GCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31957784 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
31957801 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31957866 TGCGAGTTGA
65 TGCGAATTGA
31957876 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31957887 original size:82 final size:81
Alignment explanation
Indices: 31957716--31957896 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
31957706 GATTGAATTG
* *
31957716 TACAGCACTAAGTGTGCGATTTGACTACGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31957781 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
31957797 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31957861 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31957879 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31957897 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31962919 original size:31 final size:31
Alignment explanation
Indices: 31962881--31962944 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
31962871 CCTTTTCATA
31962881 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
31962912 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
31962943 TT
1 TT
31962945 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:31963244 original size:25 final size:24
Alignment explanation
Indices: 31963138--31963258 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
31963128 GCTTTATCAT
*
31963138 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
31963163 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
31963186 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
31963210 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
31963235 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
31963259 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 18 0.20
24 41 0.46
25 31 0.34
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:31963252 original size:49 final size:48
Alignment explanation
Indices: 31963129--31963258 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
31963119 AGCATAGCTG
*
31963129 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCC
*
31963180 CTTT-TAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCC
31963228 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATCATAACTGGGGCATAAGCCCTTTTA
31963259 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 22 0.30
48 21 0.29
49 25 0.34
50 1 0.01
51 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCC
Found at i:31963332 original size:20 final size:20
Alignment explanation
Indices: 31963307--31963373 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
31963297 TTACGAATAC
31963307 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31963327 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * * *
31963347 GTCATATACATACCATACAT
1 ATCATGTGCATATCATACAT
*
31963367 ACCATGT
1 ATCATGT
31963374 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31968409 original size:36 final size:36
Alignment explanation
Indices: 31968362--31968434 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
31968352 CTTTCGAGAG
31968362 TAAGAGCAACTGACTCTAGGTTGATTAATTGAAATT
1 TAAGAGCAACTGACTCTAGGTTGATTAATTGAAATT
*
31968398 TAAGAGCAACTGACTCTAGGTTGATTAATTGGAATT
1 TAAGAGCAACTGACTCTAGGTTGATTAATTGAAATT
31968434 T
1 T
31968435 CTTTCTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (36 bp):
TAAGAGCAACTGACTCTAGGTTGATTAATTGAAATT
Found at i:31970888 original size:16 final size:16
Alignment explanation
Indices: 31970853--31970908 Score: 62
Period size: 15 Copynumber: 3.5 Consensus size: 16
31970843 TAGTAAAGTT
*
31970853 CAAAAAAAAACAAATAA
1 CAAAAAAATA-AAATAA
31970870 CAAGAAAAATAAAAT-A
1 CAA-AAAAATAAAATAA
31970886 CAAAAAAATAAAA-AA
1 CAAAAAAATAAAATAA
*
31970901 TAAAAAAA
1 CAAAAAAA
31970909 ACATAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 18 0.51
16 4 0.11
17 7 0.20
18 6 0.17
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (16 bp):
CAAAAAAATAAAATAA
Found at i:31970890 original size:33 final size:33
Alignment explanation
Indices: 31970853--31970917 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
31970843 TAGTAAAGTT
*
31970853 CAAAAAAA-AACAAATAACAAGAAAA-ATAAAATA
1 CAAAAAAATAAAAAATAA-AA-AAAACATAAAATA
31970886 CAAAAAAATAAAAAATAAAAAAAACATAAAAT
1 CAAAAAAATAAAAAATAAAAAAAACATAAAAT
31970918 CTAAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.14
33 17 0.59
34 8 0.28
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.11
Consensus pattern (33 bp):
CAAAAAAATAAAAAATAAAAAAAACATAAAATA
Found at i:31970900 original size:17 final size:17
Alignment explanation
Indices: 31970853--31970916 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
31970843 TAGTAAAGTT
*
31970853 CAAAAAAA-AACAAATAA
1 CAAAAAAATAAAAAAT-A
31970870 CAAGAAAAAT--AAAATA
1 CAA-AAAAATAAAAAATA
31970886 CAAAAAAATAAAAAATA
1 CAAAAAAATAAAAAATA
*
31970903 AAAAAAACATAAAA
1 CAAAAAA-ATAAAA
31970917 TCTAAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 6 0.15
16 4 0.10
17 19 0.47
18 11 0.28
ACGTcount: A:0.81, C:0.08, G:0.02, T:0.09
Consensus pattern (17 bp):
CAAAAAAATAAAAAATA
Found at i:31970914 original size:11 final size:10
Alignment explanation
Indices: 31970857--31970916 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 10
31970847 AAAGTTCAAA
31970857 AAAAAACAAAT
1 AAAAAA-AAAT
31970868 AACAAGAAAAAT
1 AA-AA-AAAAAT
31970880 AAAATACAAAA-
1 AAAA-A-AAAAT
31970891 AAATAAAAAAT
1 AAA-AAAAAAT
31970902 AAAAAAAACAT
1 AAAAAAAA-AT
31970913 AAAA
1 AAAA
31970917 TCTAAATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
10 9 0.21
11 18 0.43
12 13 0.31
13 2 0.05
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.10
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:31970916 original size:16 final size:15
Alignment explanation
Indices: 31970854--31970917 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 15
31970844 AGTAAAGTTC
*
31970854 AAAAAAAAA-CAAAT
1 AAAAAAAAATAAAAT
31970868 AACAAGAAAAATAAAAT
1 AA-AA-AAAAATAAAAT
*
31970885 ACAAAAAAATAAAAAAT
1 A-AAAAAAA-ATAAAAT
31970902 AAAAAAAACATAAAAT
1 AAAAAAAA-ATAAAAT
31970918 CTAAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
16 22 0.54
17 14 0.34
18 1 0.02
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (15 bp):
AAAAAAAAATAAAAT
Found at i:31974796 original size:22 final size:22
Alignment explanation
Indices: 31974743--31974798 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 22
31974733 CACGTTCACT
*
31974743 TTTAAGCATATATCACATTACA
1 TTTAAGCATATATCACATAACA
*
31974765 --T-A-TATA-ATCACATAACA
1 TTTAAGCATATATCACATAACA
31974782 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
31974799 ATTTAGAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 10
0.67 0.08 0.26
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 2 0.08
20 2 0.08
21 3 0.12
22 6 0.23
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (22 bp):
TTTAAGCATATATCACATAACA
Found at i:31976532 original size:22 final size:22
Alignment explanation
Indices: 31976501--31976579 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
31976491 TACAGGATCA
31976501 CACTTTAGTGCCTCTGTACTTG
1 CACTTTAGTGCCTCTGTACTTG
* *
31976523 CATTTTAGTGCCTTTGTACTTG
1 CACTTTAGTGCCTCTGTACTTG
* *
31976545 TACTTTAGTGCCTCTGTATTTG
1 CACTTTAGTGCCTCTGTACTTG
**
31976567 CACTACAGTGCCT
1 CACTTTAGTGCCT
31976580 TTACTAGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (22 bp):
CACTTTAGTGCCTCTGTACTTG
Done.