Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 117 of 145
Found at i:38919761 original size:5 final size:5
Alignment explanation
Indices: 38919751--38919776 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38919741 CTCGAAAATT
38919751 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
38919777 CGAATGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:38921219 original size:90 final size:90
Alignment explanation
Indices: 38921023--38921225 Score: 241
Period size: 90 Copynumber: 2.2 Consensus size: 90
38921013 GTTGTGGGTA
* * ***
38921023 AACCACAAAAATTGCAGGTTAATACACTGTTAGATGGTTGTGAATACACTAACATAATTACAGAT
1 AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
38921088 TAAAGCTGCCAGATAATGGATGGGCG
66 TAAAGCTGCCAGATAAT-GATGGGCG
** * * *
38921114 AACCACCAGTGTTGCAGGTTAATACGCTACCAGATGGTTTTGAATACAC-AACATAATTGCAGA-
1 AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
*
38921177 TAATAGCTGCCAGATAAT-ATGTGGATG
66 TAA-AGCTGCCAGATAATGATG-GG-CG
*
38921204 AACCACCAGAATTGCAGATTAA
1 AACCACCAGAATTGCAGGTTAA
38921226 GAATCTGCCA
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 3 0.03
89 5 0.05
90 47 0.49
91 40 0.42
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (90 bp):
AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
TAAAGCTGCCAGATAATGATGGGCG
Found at i:38937056 original size:6 final size:6
Alignment explanation
Indices: 38937045--38937070 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38937035 TAGTTTGAAC
38937045 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
38937071 ATAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:38937186 original size:17 final size:17
Alignment explanation
Indices: 38937155--38937193 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
38937145 ATGATTAGTT
38937155 TAATT-AAGATTGAACA
1 TAATTAAAGATTGAACA
*
38937171 TAATTAAAGGTTGAACA
1 TAATTAAAGATTGAACA
38937188 TAATTA
1 TAATTA
38937194 TTATTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (17 bp):
TAATTAAAGATTGAACA
Found at i:38937196 original size:20 final size:20
Alignment explanation
Indices: 38937173--38937235 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
38937163 ATTGAACATA
38937173 ATTAAAGGTTGAACATAATT
1 ATTAAAGGTTGAACATAATT
* *
38937193 ATTATTA-TTTG-A-ATAATAT
1 ATTA-AAGGTTGAACATAAT-T
38937212 CAATTAAAGGTTGAACATAATT
1 --ATTAAAGGTTGAACATAATT
38937234 AT
1 AT
38937236 ATATTAGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 5 0.16
19 2 0.06
20 10 0.31
21 8 0.25
22 2 0.06
23 5 0.16
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (20 bp):
ATTAAAGGTTGAACATAATT
Found at i:38937591 original size:12 final size:12
Alignment explanation
Indices: 38937574--38937598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38937564 AATATGTTTT
38937574 CATAATTTTAAC
1 CATAATTTTAAC
38937586 CATAATTTTAAC
1 CATAATTTTAAC
38937598 C
1 C
38937599 CAGATAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (12 bp):
CATAATTTTAAC
Found at i:38942395 original size:34 final size:34
Alignment explanation
Indices: 38942334--38942398 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
38942324 GGTTGTTAAT
**
38942334 AGTTCGATACAGTGGCAAATGTTATGCTTATGAC
1 AGTTCGATACAGTGGCAAATGGCATGCTTATGAC
*
38942368 AGTTCGTTACAGTGGCCAAA-GGCATGCTTAT
1 AGTTCGATACAGTGG-CAAATGGCATGCTTAT
38942399 CATGCGTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (34 bp):
AGTTCGATACAGTGGCAAATGGCATGCTTATGAC
Found at i:38944384 original size:13 final size:13
Alignment explanation
Indices: 38944366--38944390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38944356 CTAAATCATA
38944366 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
38944379 ATTTTAGTAAAA
1 ATTTTAGTAAAA
38944391 CCTTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:38948071 original size:133 final size:133
Alignment explanation
Indices: 38947827--38948076 Score: 371
Period size: 133 Copynumber: 1.9 Consensus size: 133
38947817 CTAGGGAGAT
* * *
38947827 AAGATCTGTAATCTTCAATCTATTCCGCTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
1 AAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
* * *
38947892 CTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTCTATGCAGGAA
66 CTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGACCTGCTCCACTGTCTATGCAGGAA
38947957 GAC
131 GAC
*
38947960 AAGATCTGCAATCTTTAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACTGGCTTCAATGT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGT
* *
38948024 ACTCCACTGTAACCACGGGGAGGTAAAA-TCTGCCATCCTT-GACCTGCTCCACT
65 ACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCAT-CTTCGACCTGCTCCACT
38948077 ACTGCTTAGG
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
132 3 0.03
133 99 0.94
134 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (133 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTA
CTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGACCTGCTCCACTGTCTATGCAGGAA
GAC
Found at i:38948184 original size:50 final size:50
Alignment explanation
Indices: 38948104--38948476 Score: 266
Period size: 50 Copynumber: 7.5 Consensus size: 50
38948094 AATCTGTTAT
* * * ** * *
38948104 CTTCAATTTGTTCAACTGCAATGTTGGGGAAACCAGATCCACCGTCGTAG
1 CTTCAATCTGTTCCACTGCACTGTCAGGGAAACCAGATCCGCCGTTGTAG
* * *** *
38948154 CTTCAATCTGTTCCACCGTACTGTCAGGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACTGTCAGGGAAACCAGATCCGCCGTTGTAG
* * ** * * * * *
38948204 CTTCAACCTTTTTAATTGCAATATTAGGGAAACCAGATCTGCCGTTGTAG
1 CTTCAATCTGTTCCACTGCACTGTCAGGGAAACCAGATCCGCCGTTGTAG
* ***
38948254 CTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTAG
1 CTTCAATCTGTTCCACTGCACTGTC-AGGGAAACCAGATCCGCCGTTGTAG
** * * * *
38948304 CTTCAATCT-TTTTAGTTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCCA-CTGCACTGTCAGGGAAACCAGATCCGCCGTTGTAG
* * *** *
38948354 CTTCAATCTGTTCCACTACACTG-CTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCCACTGCACTGTC-AGGGAAACCAGATCCGCCGTTGTAG
* ** * * * * * *
38948404 CTTCAATCTTTTTAATTGAAATATCAGGGAAACCAGATCCACCGTCGTAG
1 CTTCAATCTGTTCCACTGCACTGTCAGGGAAACCAGATCCGCCGTTGTAG
*
38948454 CTTCAATCTGTTCCACTGTACTG
1 CTTCAATCTGTTCCACTGCACTG
38948477 CTAAGGAAGT
Statistics
Matches: 232, Mismatches: 85, Indels: 12
0.71 0.26 0.04
Matches are distributed among these distances:
49 4 0.02
50 223 0.96
51 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCCACTGCACTGTCAGGGAAACCAGATCCGCCGTTGTAG
Found at i:38948236 original size:100 final size:100
Alignment explanation
Indices: 38948130--38948535 Score: 625
Period size: 100 Copynumber: 4.1 Consensus size: 100
38948120 TGCAATGTTG
* * *
38948130 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACCGTACTG-TCAGGGAAGTAAGATCC
1 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAGATCC
* *
38948194 GCCGTTGTGGCTTCAACCTTTTTAATTGCAATATTA
65 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
** *
38948230 GGGAAACCAGATCTGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
* *
38948295 CCGTTGTAGCTTCAATCTTTTTAGTTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
* *
38948330 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
*
38948395 CCGTTGTGGCTTCAATCTTTTTAATTGAAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
*
38948430 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
* * * *
38948495 CCGCTGTGGCTTTAATCTTTTTTATTTCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
*
38948530 AGGAAA
1 GGGAAA
38948536 ATGCTCCACT
Statistics
Matches: 280, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 279 1.00
101 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
Found at i:38948714 original size:44 final size:44
Alignment explanation
Indices: 38948537--38949682 Score: 224
Period size: 44 Copynumber: 25.6 Consensus size: 44
38948527 TCAAGGAAAA
* * * **
38948537 TGCTCCACTGCAACTTTAGGGAGATAAAGTTTGTTGCTTCAACC
1 TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
* **
38948581 CGCTTCGCTA-TGACGCAACTTCAGAG-G-T-AAGATTTGCTATCTTCAGTC
1 TGC-TC-C-ACT---GCAACTTCAGAGAGATAAAG-TTTGCTAT-TTCAACC
* * *
38948629 TGCTCTACTGCAACTTCA-AGAAGAT-AAGACTTG-TATCTTCAACT
1 TGCTCCACTGCAACTTCAGAG-AGATAAAG-TTTGCTAT-TTCAACC
* * *
38948673 TG-TCCCACTGCAACTTCATAGGGATAATGTTTGCTATTTCAACC
1 TGCT-CCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
* * * *
38948717 TGCTCTACTGCAACTTCAGAGAGATAAAGTTTG--ATAT-GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
* * * * *
38948758 TGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTAT-CTATAGCTTTAATCC
1 TGCTCCACTGCAACTTCAGAGAGAT-A-A--AGTT-TGCTAT---TTCAA-CC
* * * *
38948810 -GTTCCACTGCAACTTCA-AG-GAAATAAGATTTGCTATCTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATA-AAG-TTTGCTAT-TTCAACC
* ** * * *
38948854 TACTTTACTGCAACTTCAGGGAGATAACA-CTTG-TATCTTCAACT
1 TGCTCCACTGCAACTTCAGAGAGATAA-AGTTTGCTAT-TTCAACC
* * * *
38948898 TGCCCCACTGCAACTTCATG-GGGATAAGGTTTGCTACTTT-AACA
1 TGCTCCACTGCAACTTCA-GAGAGATAAAGTTTGCTA-TTTCAACC
* * * *
38948942 TGCTCTACTGCAACTTCAGAGAGATAAAGTTTG--ATAT-GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
* * * * *
38948983 TGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTAT-CTATAGCTTTAATCC
1 TGCTCCACTGCAACTTCAGAGAGAT-A-A--AGTT-TGCTAT---TTCAA-CC
* * * *
38949035 -GTTCCACTGCAACTTCA-AG-GAAATAAGATTTGCTATCTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATA-AAG-TTTGCTAT-TTCAACC
* ** * * *
38949079 TACTTTACTGCAACTTCAGGGAGATAACA-CTTG-TATCTTCAACT
1 TGCTCCACTGCAACTTCAGAGAGATAA-AGTTTGCTAT-TTCAACC
* * * *
38949123 TGCCCCACTGCAACTTCATG-GGGATAAGGTTTGCTACTTT-AACA
1 TGCTCCACTGCAACTTCA-GAGAGATAAAGTTTGCTA-TTTCAACC
* * * *
38949167 TGCTCTACTGCAACTTCAGAGAGATAAAGTTTG--ATAT-GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
* * * * *
38949208 TGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTAT-CTATAGCTTTAATCC
1 TGCTCCACTGCAACTTCAGAGAGAT-A-A--AGTT-TGCTAT---TTCAA-CC
* * * *
38949260 -GTTCCACTGCAACTTCA-AG-GAAATAAGATTTGCTATCTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATA-AAG-TTTGCTAT-TTCAACC
* ** * * *
38949304 TACTTTACTGCAACTTCAGGGAGATAACA-CTTG-TATCTTCAACT
1 TGCTCCACTGCAACTTCAGAGAGATAA-AGTTTGCTAT-TTCAACC
* * * *
38949348 TGCCCCACTGCAACTTCATG-GGGATAAGGTTTGCTACTTT-AACA
1 TGCTCCACTGCAACTTCA-GAGAGATAAAGTTTGCTA-TTTCAACC
* * * *
38949392 TGCTCTACTGCAACTTCAGAGAGATAAAGTTTG--ATAT-GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
* * * * *
38949433 TGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTAT-CTATAGCTTTAATCC
1 TGCTCCACTGCAACTTCAGAGAGAT-A-A--AGTT-TGCTAT---TTCAA-CC
* * * *
38949485 -GTTCCACTGCAACTTCA-AG-GAAATAAGATTTGCTATCTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATA-AAG-TTTGCTAT-TTCAACC
* ** * * *
38949529 TACTTTACTGCAACTTCAGGGAGATAACA-CTTG-TATCTTCAACT
1 TGCTCCACTGCAACTTCAGAGAGATAA-AGTTTGCTAT-TTCAACC
* * * *
38949573 TGCCCCACTGCAACTTCATG-GGGATAAGGTTTGCTACTTT-AACA
1 TGCTCCACTGCAACTTCA-GAGAGATAAAGTTTGCTA-TTTCAACC
* * * *
38949617 TGCTCTACTGCAACTTCAGAGAGATAAAGTTTG--ATAT-GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
*
38949658 TGCTCTACTGCAACTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGAGAGAT
38949683 GAGATCTGTT
Statistics
Matches: 807, Mismatches: 186, Indels: 221
0.66 0.15 0.18
Matches are distributed among these distances:
41 131 0.16
42 13 0.02
43 18 0.02
44 313 0.39
45 139 0.17
46 30 0.04
47 57 0.07
48 16 0.02
49 18 0.02
50 12 0.01
51 56 0.07
52 4 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGAGAGATAAAGTTTGCTATTTCAACC
Found at i:38948999 original size:225 final size:225
Alignment explanation
Indices: 38948608--38949759 Score: 2117
Period size: 225 Copynumber: 5.1 Consensus size: 225
38948598 ACTTCAGAGG
* * * * * * *
38948608 TAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACT
1 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
* * * *
38948673 TGTCCCACTGCAACTTCATAGGGATAATGTTTGCTA-TTTCAACCTGCTCTACTGCAACTTCAGA
66 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTT-AACATGCTCTACTGCAACTTCAGA
38948737 GAGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGC
130 GAGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGC
38948802 TTTAATCCGTTCCACTGCAACTTCAAGGAAA
195 TTTAATCCGTTCCACTGCAACTTCAAGGAAA
38948833 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
1 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
38948898 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
66 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
38948963 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
131 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
38949028 TTAATCCGTTCCACTGCAACTTCAAGGAAA
196 TTAATCCGTTCCACTGCAACTTCAAGGAAA
38949058 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
1 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
38949123 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
66 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
38949188 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
131 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
38949253 TTAATCCGTTCCACTGCAACTTCAAGGAAA
196 TTAATCCGTTCCACTGCAACTTCAAGGAAA
38949283 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
1 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
38949348 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
66 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
38949413 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
131 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
38949478 TTAATCCGTTCCACTGCAACTTCAAGGAAA
196 TTAATCCGTTCCACTGCAACTTCAAGGAAA
38949508 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
1 TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
38949573 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
66 TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
* * *
38949638 AGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTTATTTATAGCT
131 AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
* * * *
38949703 TTAATCTGTTCCACTGCAATTTTAGGGAAA
196 TTAATCCGTTCCACTGCAACTTCAAGGAAA
*
38949733 TAAGATTTGCTATCTTTAATCTGCTTT
1 TAAGATTTGCTATCTTTAATCTACTTT
38949760 GCTGTAAACT
Statistics
Matches: 907, Mismatches: 19, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
225 904 1.00
226 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (225 bp):
TAAGATTTGCTATCTTTAATCTACTTTACTGCAACTTCAGGGAGATAACACTTGTATCTTCAACT
TGCCCCACTGCAACTTCATGGGGATAAGGTTTGCTACTTTAACATGCTCTACTGCAACTTCAGAG
AGATAAAGTTTGATATGATCTGCTCTACTGTAACTTTAGAGAGATGAGATCTGTTATCTATAGCT
TTAATCCGTTCCACTGCAACTTCAAGGAAA
Found at i:38949944 original size:89 final size:89
Alignment explanation
Indices: 38949771--38950361 Score: 616
Period size: 89 Copynumber: 6.6 Consensus size: 89
38949761 CTGTAAACTA
* * * * * *
38949771 TGGTGTCTTCGATCTGCTTTGCTGTTAATACAAGAAGGCAAGATCTGCTATCTTTAGTTTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * * *
38949836 GCT-ACA-AACCCAGGGAGGCAAGAC
66 ACTGTCAGTA--CAGGAAGGCAAGGC
* * ** * * * * *
38949860 TGGTGTCTTCGATCTTCTTCGCAATCAGTACAAGAAGGCAATATCTGTTATCTTCAATCTACTTC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
38949925 ACTGTCATTACAGGAAGGCAAGGC
66 ACTGTCAGTACAGGAAGGCAAGGC
38949949 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
38950014 GCTG-CA-AACCTAGGGAGGCAAGGC
66 ACTGTCAGTA-C-AGGAAGGCAAGGC
* * * * * *
38950038 TGGTGTCTTCGATCTGCTTCGTTGTCAGTAC-AGAAAGGCAATATTTGTTATCTTCAGTCTGCTT
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAG-AAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
38950102 CACTGTTAGTACAGGAAGGCAAGGC
65 CACTGTCAGTACAGGAAGGCAAGGC
* * * *
38950127 TGGTGCCTTCGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATTTACTATCTTTAGTCTGCTC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAA-GAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
38950192 CGCTGTCAGTACAGGAAGGCAAGGC
65 CACTGTCAGTACAGGAAGGCAAGGC
* * * * * * *
38950217 TAGTGCCTTCGATCTGCTTCGCTGTCAGTATAGGAAAGTAAGATTTGTTATCTTCAGTCTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
38950282 ACTGTCAGTACAGAAAGGTAAGGT
66 ACTGTCAGTACAGGAAGGCAAGGC
* * * * ** *
38950306 TGTTGTCTTCGATCTACTTCACTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTCA
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCA
38950362 CTGATTTGTT
Statistics
Matches: 420, Mismatches: 73, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
87 1 0.00
88 5 0.01
89 329 0.78
90 82 0.20
91 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (89 bp):
TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
ACTGTCAGTACAGGAAGGCAAGGC
Found at i:38950078 original size:178 final size:177
Alignment explanation
Indices: 38949771--38950361 Score: 747
Period size: 178 Copynumber: 3.3 Consensus size: 177
38949761 CTGTAAACTA
* * * * * *
38949771 TGGTGTCTTCGATCTGCTTTGCTGTTAATACAAGAAGGCAAGATCTGCTATCTTTAGTTTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * **
38949836 GCTACAAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCAATCAGTACA-AGAAGGCA
66 GCTGCAAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGA-AAGGCA
* * * *
38949900 ATATCTGTTATCTTCAATCTACTTCACTGTCATTACAGGAAGGCAAGGC
129 ATATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
38949949 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
38950014 GCTGCAAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAA
66 GCTGCAAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAA
*
38950079 TATTTGTTATCTTCAGTCTGCTTCACTGTTAGTACAGGAAGGCAAGGC
130 TATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
* * * *
38950127 TGGTGCCTTCGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATTTACTATCTTTAGTCTGCTC
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAA-GAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* * * * *
38950192 CGCTGTCAGTA-CAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCAGTATAGGAAA-G
65 CGCTG-CA-AACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA-GAAAGG
* * * * * *
38950255 TAAGATTTGTTATCTTCAGTCTGCTCCACTGTCAGTACAGAAAGGTAAGGT
127 CAATATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
* * * * ** *
38950306 TGTTGTCTTCGATCTACTTCACTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTCA
1 TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCA
38950362 CTGATTTGTT
Statistics
Matches: 362, Mismatches: 45, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
177 2 0.01
178 208 0.57
179 144 0.40
180 7 0.02
181 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (177 bp):
TGGTGCCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGCAAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAT
ATTTGTTATCTTCAGTCTGCTTCACTGTCAGTACAGGAAGGCAAGGC
Found at i:38950252 original size:44 final size:44
Alignment explanation
Indices: 38949846--38950347 Score: 323
Period size: 44 Copynumber: 11.3 Consensus size: 44
38949836 GCTACAAACC
* * * **
38949846 CAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCAATCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* ** * * * * * *
38949890 CAAGAAGGCAATATCTGTTATCTTCAATCTACTTCACTGTCATTA
1 CAGGAAGGCAA-GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
*
38949935 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* * * * * *
38949979 CAAGAAGGCAAGATCTGCTATCTTC-AGTCTGCTCCGCTG-CA-AA
1 CAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* *
38950022 CCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTA
1 -C-AGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* *** * * * *
38950068 CAGAAAGGCAATATTTGTTATCTTC-AGTCTGCTTCACTGTTAGTA
1 CAGGAAGGCAA-GGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* *
38950113 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTATCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
** ** * * *
38950157 CAAGGAAGGCAAGATTTACTATCTT-TAGTCTGCTCCGCTGTCAGTA
1 C-AGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* *
38950203 CAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* * * ** * * * *
38950247 TAGGAAAGTAAGATTTGTTATCTTC-AGTCTGCTCCACTGTCAGTA
1 CAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTA
* * * * * * *
38950292 CAGAAAGGTAAGGTTGTTGTCTTCGATCTACTTCACTGTCAGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
*
38950336 TAGGAAGGCAAG
1 CAGGAAGGCAAG
38950348 ATCTGCTATC
Statistics
Matches: 345, Mismatches: 95, Indels: 36
0.72 0.20 0.08
Matches are distributed among these distances:
43 1 0.00
44 166 0.48
45 155 0.45
46 23 0.07
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
Found at i:38950315 original size:268 final size:267
Alignment explanation
Indices: 38949846--38950361 Score: 649
Period size: 268 Copynumber: 1.9 Consensus size: 267
38949836 GCTACAAACC
* * * * **
38949846 CAGGGAGGCAAGACTGGTGTCTTCGATCTTCTTCGCAATCAGTACAAGAAGGCAATATCTGTTAT
1 CAGGAAGGCAAGACTGGTGCCTTCGATCTGCTTCGCAATCAGTACAAGAAGGCAAGATCTACTAT
* * *
38949911 CTTCAATCTACTTCACTGTCATTACAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTGTCA
66 CTTCAATCTACTCCACTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCA
* * **
38949976 GTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACCTAGGGAGGCAAGGCTGG
131 GTACAAGAAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAACCTAGAAAGGCAAGGCTGG
* ** * * *
38950041 TGTCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAATATTTGTTATCTTCAGTCTGCTTCACT
196 TGTCTTCGATCTACTTCACTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTTCACT
38950106 GTTAGTA
261 GTTAGTA
* * *
38950113 CAGGAAGGCAAGGCTGGTGCCTTCGATCTGCTTCGCTATCAGTACAAGGAAGGCAAGATTTACTA
1 CAGGAAGGCAAGACTGGTGCCTTCGATCTGCTTCGCAATCAGTACAA-GAAGGCAAGATCTACTA
* * * *
38950178 TCTTTAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTC
65 TCTTCAATCTACTCCACTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTC
* * * * * * * *
38950243 AGTATAGGAAAGTAAGATTTGTTATCTTCAGTCTGCTCCACTGTCAGTA-C-AGAAAGGTAAGGT
130 AGTACAAGAAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTG-CA-AACCTAGAAAGGCAAGGC
* ** *
38950306 TGTTGTCTTCGATCTACTTCACTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTCA
193 TGGTGTCTTCGATCTACTTCACTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCA
38950362 CTGATTTGTT
Statistics
Matches: 208, Mismatches: 38, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
267 42 0.20
268 162 0.78
269 3 0.01
270 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (267 bp):
CAGGAAGGCAAGACTGGTGCCTTCGATCTGCTTCGCAATCAGTACAAGAAGGCAAGATCTACTAT
CTTCAATCTACTCCACTGTCAGTACAGGAAGGCAAGGCTAGTGCCTTCGATCTGCTTCGCTGTCA
GTACAAGAAAGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAAACCTAGAAAGGCAAGGCTGG
TGTCTTCGATCTACTTCACTGTCAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTTCACT
GTTAGTA
Found at i:38951617 original size:8 final size:7
Alignment explanation
Indices: 38951597--38951652 Score: 62
Period size: 7 Copynumber: 7.7 Consensus size: 7
38951587 TTAGCCTCTC
38951597 CATTTTT
1 CATTTTT
38951604 -ACTTTTT
1 CA-TTTTT
38951611 CATTTTT
1 CATTTTT
38951618 CA-TTTT
1 CATTTTT
38951624 CATCTTTT
1 CAT-TTTT
38951632 CATTTTTTT
1 CA--TTTTT
38951641 CATTTTT
1 CATTTTT
38951648 CATTT
1 CATTT
38951653 CGCCATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
6 7 0.16
7 22 0.51
8 7 0.16
9 6 0.14
10 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:38952586 original size:22 final size:22
Alignment explanation
Indices: 38952558--38952602 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
38952548 GGTTTGGCAG
38952558 AAAAATCCAAAAGAATGAAAGA
1 AAAAATCCAAAAGAATGAAAGA
**
38952580 AAAAATCGTAAAGAATGAAAGA
1 AAAAATCCAAAAGAATGAAAGA
38952602 A
1 A
38952603 CATTTGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAATCCAAAAGAATGAAAGA
Found at i:38960534 original size:79 final size:79
Alignment explanation
Indices: 38960403--38960555 Score: 288
Period size: 79 Copynumber: 1.9 Consensus size: 79
38960393 TCTTCTCAAA
*
38960403 GCCTATAAATATGCATCACTTATGGATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
1 GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
38960468 ACTCATTATATTTT
66 ACTCATTATATTTT
*
38960482 GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTTTGAGTGCTTGTGCTACATTTT
1 GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
38960547 ACTCATTAT
66 ACTCATTAT
38960556 TTGCTTGTGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (79 bp):
GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
ACTCATTATATTTT
Found at i:38960901 original size:18 final size:18
Alignment explanation
Indices: 38960858--38960894 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38960848 TAAAATGCTT
*
38960858 TTTCAA-TATTTTTATTA
1 TTTCAATTAATTTTATTA
38960875 TTTCAATTAATTTTATTA
1 TTTCAATTAATTTTATTA
38960893 TT
1 TT
38960895 CGAATTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCAATTAATTTTATTA
Found at i:38966173 original size:14 final size:16
Alignment explanation
Indices: 38966133--38966175 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
38966123 TAAAAATAAC
38966133 ATAAAATTTATAATAT
1 ATAAAATTTATAATAT
*
38966149 ATAACATTTATAATA-
1 ATAAAATTTATAATAT
38966164 A-AAAATTTATAA
1 ATAAAATTTATAA
38966176 ATTATCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
16 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATTTATAATAT
Found at i:38967103 original size:53 final size:54
Alignment explanation
Indices: 38967027--38967281 Score: 235
Period size: 53 Copynumber: 4.8 Consensus size: 54
38967017 GCACAATAAT
* *
38967027 AATTGTTTGAAAACACGTAAATTTGTGAAACACGAGAATTTTTTGAAAACATGAA
1 AATT-TTTGAAAACACGAAAATTTGTGAAACACGAGAATTTTTTGAAAACACGAA
*
38967082 AATTTTTG-AAACACGAAAATTTTTGAAACAC-AGGAATTTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAAAATTTGTGAAACACGA-GAATTTTTTGAAAACACGAA
* * * *
38967135 AATTTTTG-AAACACAGGAAATTT-TGAAAATACGA-AGA-GTTTTG-AAACACCG-G
1 AATTTTTGAAAACAC-GAAAATTTGTG-AAACACGAGA-ATTTTTTGAAAACA-CGAA
* * * * *
38967187 AATTTTTGAAAACACGAAGATTTTTGAAACAC--GATTTTTTTAAAAACAAGAA
1 AATTTTTGAAAACACGAAAATTTGTGAAACACGAGAATTTTTTGAAAACACGAA
* * *
38967239 AATTTGTGAAAACACGAAGATTTGTGAAAACACG-GATTTTTTT
1 AATTTTTGAAAACACGAAAATTTGTG-AAACACGAGAATTTTTT
38967282 TTGAAACACG
Statistics
Matches: 169, Mismatches: 17, Indels: 29
0.79 0.08 0.13
Matches are distributed among these distances:
51 6 0.04
52 54 0.32
53 78 0.46
54 26 0.15
55 5 0.03
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (54 bp):
AATTTTTGAAAACACGAAAATTTGTGAAACACGAGAATTTTTTGAAAACACGAA
Found at i:38967123 original size:35 final size:35
Alignment explanation
Indices: 38967046--38967272 Score: 214
Period size: 35 Copynumber: 6.5 Consensus size: 35
38967036 AAAACACGTA
* * *
38967046 AATTTGTG-AAACACGAGAATTTTTTGAAA-ACATGAA
1 AATTTTTGAAAACACGA-AAATTTTTGAAACACA-G-G
38967082 AATTTTTG-AAACACGAAAATTTTTGAAACACAGG
1 AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
38967116 AATTTTTTGAAAACACGAAAATTTTTGAAACACAGG
1 AA-TTTTTGAAAACACGAAAATTTTTGAAACACAGG
* * * * *
38967152 AAATTTTGAAAATACGAAGAGTTTTGAAACACCGG
1 AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
*
38967187 AATTTTTGAAAACACGAAGATTTTTGAAACAC--G
1 AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
* * * * *
38967220 ATTTTTTTAAAAACAAGAAAATTTGTGAAA-ACACGA
1 A-ATTTTTGAAAACACGAAAATTTTTGAAACACA-GG
*
38967256 AGATTTGTGAAAACACG
1 A-ATTTTTGAAAACACG
38967273 GATTTTTTTT
Statistics
Matches: 162, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
33 4 0.02
34 25 0.15
35 75 0.46
36 58 0.36
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (35 bp):
AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
Found at i:38967271 original size:18 final size:17
Alignment explanation
Indices: 38967027--38967272 Score: 205
Period size: 18 Copynumber: 13.9 Consensus size: 17
38967017 GCACAATAAT
38967027 AATTGTTTGAAAACACGTA
1 AATT-TTTGAAAACACG-A
*
38967046 AATTTGTG-AAACACGA
1 AATTTTTGAAAACACGA
*
38967062 GAATTTTTTGAAAACATGAA
1 -AA-TTTTTGAAAACACG-A
38967082 AATTTTTG-AAACACGAA
1 AATTTTTGAAAACACG-A
*
38967099 AATTTTTGAAACACAGGA
1 AATTTTTGAAA-ACACGA
*
38967117 ATTTTTTGAAAACACGAA
1 AATTTTTGAAAACACG-A
*
38967135 AATTTTTGAAACACAGGA
1 AATTTTTGAAA-ACACGA
*
38967153 AA-TTTTGAAAATACGA
1 AATTTTTGAAAACACGA
* *
38967169 AGAGTTTTG-AAACACCGG
1 A-ATTTTTGAAAACA-CGA
38967187 AATTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
38967204 AGATTTTTG-AAACACGA
1 A-ATTTTTGAAAACACGA
** * *
38967221 TTTTTTTAAAAACAAGAA
1 AATTTTTGAAAACACG-A
*
38967239 AATTTGTGAAAACACGA
1 AATTTTTGAAAACACGA
*
38967256 AGATTTGTGAAAACACG
1 A-ATTTTTGAAAACACG
38967273 GATTTTTTTT
Statistics
Matches: 187, Mismatches: 24, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
16 11 0.06
17 67 0.36
18 88 0.47
19 20 0.11
20 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (17 bp):
AATTTTTGAAAACACGA
Found at i:38967454 original size:19 final size:20
Alignment explanation
Indices: 38967418--38967455 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38967408 CGTGATTCTA
38967418 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAGAATTTTTT
*
38967438 TTAAAACATGA-AATTTTT
1 TTAAAACACGAGAATTTTT
38967456 GAATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTTT
Found at i:38967807 original size:27 final size:26
Alignment explanation
Indices: 38967769--38967830 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
38967759 CTTGGGCCCC
*
38967769 TTTTTCTTTCTTCTTTTTTATTTTTTA
1 TTTTT-TTTCTTCTTTTTTATTTCTTA
* *
38967796 TTTTTTTCTCTTCTTTTTTCTTTCTTC
1 TTTTTTT-TCTTCTTTTTTATTTCTTA
38967823 TTTTTTTT
1 TTTTTTTT
38967831 GGGCCTGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTTCTTCTTTTTTATTTCTTA
Found at i:38967819 original size:16 final size:15
Alignment explanation
Indices: 38967769--38967830 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 15
38967759 CTTGGGCCCC
*
38967769 TTTTTCTTTCTTC-T
1 TTTTTTTTTCTTCTT
* *
38967783 TTTTTATTT-TT-TA
1 TTTTTTTTTCTTCTT
*
38967796 TTTTTTTCTCTTC-T
1 TTTTTTTTTCTTCTT
*
38967810 TTTTTCTTTCTTCTT
1 TTTTTTTTTCTTCTT
38967825 TTTTTT
1 TTTTTT
38967831 GGGCCTGCTG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTCTTCTT
Found at i:38968095 original size:5 final size:5
Alignment explanation
Indices: 38968085--38968134 Score: 55
Period size: 5 Copynumber: 9.2 Consensus size: 5
38968075 CTGGCCTGCT
*
38968085 GGGTC GGGTC GGTGGTC GGGTGC GGGTC GGAGGC GGGTC GGGTC GGGTC
1 GGGTC GGGTC -G-GGTC GGGT-C GGGTC GG-GTC GGGTC GGGTC GGGTC
38968134 G
1 G
38968135 ACTCAATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 24 0.62
6 11 0.28
7 4 0.10
ACGTcount: A:0.02, C:0.18, G:0.62, T:0.18
Consensus pattern (5 bp):
GGGTC
Found at i:38968114 original size:11 final size:10
Alignment explanation
Indices: 38968085--38968134 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
38968075 CTGGCCTGCT
38968085 GGGTCGGGTC
1 GGGTCGGGTC
38968095 GGTGGTCGGGTGC
1 -G-GGTCGGGT-C
*
38968108 GGGTCGGAGGC
1 GGGTCGG-GTC
38968119 GGGTCGGGTC
1 GGGTCGGGTC
38968129 GGGTCG
1 GGGTCG
38968135 ACTCAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 8 0.24
11 15 0.44
12 10 0.29
13 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.62, T:0.18
Consensus pattern (10 bp):
GGGTCGGGTC
Found at i:38968399 original size:22 final size:23
Alignment explanation
Indices: 38968369--38968421 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
38968359 TTTTTTTCTT
*
38968369 TTTGGTTGCTATTTTTTTGTTGA
1 TTTGCTTGCTATTTTTTTGTTGA
* *
38968392 TTT-CTTGCTTTTTTTTTGTTGC
1 TTTGCTTGCTATTTTTTTGTTGA
38968414 TTTGCTTG
1 TTTGCTTG
38968422 TTTGGGTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.04, C:0.09, G:0.19, T:0.68
Consensus pattern (23 bp):
TTTGCTTGCTATTTTTTTGTTGA
Found at i:38969001 original size:30 final size:30
Alignment explanation
Indices: 38968915--38969015 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
38968905 AATACGGGCC
* * * *
38968915 AAAATGTAATTTCTAGAAAGTTTAAGGGCTT
1 AAAATATAATTTTTAAAAAGTTT-AGGGGTT
*
38968946 -GAATATAA--TTTACAAAA-TATTAGGGGTT
1 AAAATATAATTTTTA-AAAAGT-TTAGGGGTT
*
38968974 AAAATATAATTTTTAAAAAGTTTAGGGGCT
1 AAAATATAATTTTTAAAAAGTTTAGGGGTT
*
38969004 AAAATGTAATTT
1 AAAATATAATTT
38969016 CTATTTTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
28 10 0.18
29 12 0.21
30 29 0.52
31 5 0.09
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (30 bp):
AAAATATAATTTTTAAAAAGTTTAGGGGTT
Found at i:38969014 original size:59 final size:57
Alignment explanation
Indices: 38968881--38969015 Score: 135
Period size: 59 Copynumber: 2.3 Consensus size: 57
38968871 CAAAACTTCT
* * * *
38968881 GGGGCAAAAATGTAATTTTATAAAAATACGGGCCAAAATGTAATTTCTAGAAAGTTTA
1 GGGGCTAAAATGTAA-TTTACAAAAATACGGGCCAAAATATAATTTCTAAAAAGTTTA
* ** * * ** *
38968939 AGGGCTTGAATATAATTTACAAAATATTAGGGGTTAAAATATAATTTTTAAAAAGTTTA
1 GGGGCTAAAATGTAATTTACAAAA-A-TACGGGCCAAAATATAATTTCTAAAAAGTTTA
38968998 GGGGCTAAAATGTAATTT
1 GGGGCTAAAATGTAATTT
38969016 CTATTTTTTG
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
57 8 0.14
58 11 0.19
59 40 0.68
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (57 bp):
GGGGCTAAAATGTAATTTACAAAAATACGGGCCAAAATATAATTTCTAAAAAGTTTA
Found at i:38969492 original size:74 final size:77
Alignment explanation
Indices: 38969426--38970150 Score: 935
Period size: 76 Copynumber: 9.6 Consensus size: 77
38969416 CCCGAAACTG
* * * * **
38969426 AACTGACCTCTCGGATTATGAGTTGA-TTTTTGAAAAA-A-AAATTGAAAAATACATCGGTGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
38969488 GACCCGAGGCTC
66 GACCCGAGGCTC
* * * * * *
38969500 AACTCACCTCTCGTATTATGTGTTGA-TTTTTGAAAAAAAATAGAAATT-AAAGATGCCTCGGCA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTG---AAAAACAGAAATTGAAAAATACCTCGGCA
38969563 TGTGACCCGAGGCTC
63 TGTGACCCGAGGCTC
* * * * *
38969578 AACTCACCTCTCGCAAAATGAGTTGA-TTTTTAAAAAACAGAAATT-AAAGATACCTTGGTATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
* *
38969641 AATCCGAGGCTC
66 GACCCGAGGCTC
* * * * *
38969653 AACTCACCTCTCGCAATATAAGTTGATTTTTTAAAAAATAGAAATT-AAAGATACCTCGGTATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
38969717 GACCCGAGGCTC
66 GACCCGAGGCTC
*
38969729 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTG-AAAATACCTCAGC--GT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
38969791 GACCCGAGGCTC
66 GACCCGAGGCTC
*
38969803 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTG-AAAATACCT--TCAGTG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCA-TG
*
38969865 TGA-CCGAGGCTG
65 TGACCCGAGGCTC
* * *
38969877 AACTCACCTCTCGCAATATGAGTTGATTTTTT-AGAAACATAAATTGAAAAATACCTCGGCGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
38969941 GACCCGAGGCTC
66 GACCCGAGGCTC
* * * *
38969953 AACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACATAAATTAAAAAATACCTCGGCATAT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
38970017 GACCCGAGGCTC
66 GACCCGAGGCTC
* * * *
38970029 AACTCACATCTTGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAGAATACCTCGGCATG
1 AACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATG
38970094 TGACCCGAGGCTC
65 TGACCCGAGGCTC
*
38970107 AACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAAACAGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
38970151 AAGAAATGGT
Statistics
Matches: 579, Mismatches: 55, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
72 1 0.00
73 12 0.02
74 148 0.26
75 75 0.13
76 195 0.34
77 22 0.04
78 121 0.21
79 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (77 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCGGCATGT
GACCCGAGGCTC
Found at i:38972820 original size:541 final size:542
Alignment explanation
Indices: 38971787--38972869 Score: 2159
Period size: 541 Copynumber: 2.0 Consensus size: 542
38971777 AAGTGGCTTC
38971787 TACTCATTTTGTGAAGTAGTCTATAACCACAAAGATGAAACGATGTCCATTAGAAGCCTTCGGGG
1 TACTCATTTTGTGAAGTAGTCTATAACCACAAAGATGAAACGATGTCCATTAGAAGCCTTCGGGG
38971852 AAATTGGCCCTATAACATCCATGCCCCACATAGAAAAAGGCCATGGCGAAGTCATGACATGAAGG
66 AAATTGGCCCTATAACATCCATGCCCCACATAGAAAAAGGCCATGGCGAAGTCATGACATGAAGG
38971917 GGCGAATGAGCTGCATGAATTTTATCACCGTAAATTTGACATTTATGGCACTTTCGTGCGTAGCT
131 GGCGAATGAGCTGCATGAATTTTATCACCGTAAATTTGACATTTATGGCACTTTCGTGCGTAGCT
38971982 AATGCAACCCCTTTCCATTGTCAGCCAGTAATAACCAAGTCTCATAATCTGCCTGGCCATAGTGA
196 AATGCAACCCCTTTCCATTGTCAGCCAGTAATAACCAAGTCTCATAATCTGCCTGGCCATAGTGA
38972047 AACCACTGGCATGCGTTCCACAAATTCCTTCATGAACCTCTTCAAGTATCTTTCTGGCTTCAACA
261 AACCACTGGCATGCGTTCCACAAATTCCTTCATGAACCTCTTCAAGTATCTTTCTGGCTTCAACA
38972112 GCGTCCACGCATCTCAGGAGCACTTGATCTTTTCCTCTTTTGTATAGAATATCCCCGTCAAGAAA
326 GCGTCCACGCATCTCAGGAGCACTTGATCTTTTCCTCTTTTGTATAGAATATCCCCGTCAAGAAA
38972177 AAATCCAATCGCTATTCTCCTTATTGTTATTTTGTCATTCTCATTTGCTTGCTCGGGGTACCCTT
391 AAATCCAATCGCTATTCTCCTTATTGTTATTTTGTCATTCTCATTTGCTTGCTCGGGGTACCCTT
38972242 GATTCTTGATGTACTCTAAGATATCATGAAACCATGGTCGTCCATCTGACTCCTCCTCAATGGTA
456 GATTCTTGATGTACTCTAAGATATCATGAAACCATGGTCGTCCATCTGACTCCTCCTCAATGGTA
38972307 AAACAGTGTGCGGGGGTCTCAT
521 AAACAGTGTGCGGGGGTCTCAT
38972329 TACTCATTTT-TGAAGTAGTCTATAACCACAAAGATGAAACGATGTCCATTAGAAGCCTTCGGGG
1 TACTCATTTTGTGAAGTAGTCTATAACCACAAAGATGAAACGATGTCCATTAGAAGCCTTCGGGG
38972393 AAATTGGCCCTATAACATCCATGCCCCACATAGAAAAAGGCCATGGCGAAGTCATGACATGAAGG
66 AAATTGGCCCTATAACATCCATGCCCCACATAGAAAAAGGCCATGGCGAAGTCATGACATGAAGG
38972458 GGCGAATGAGCTGCATGAATTTTATCACCGTAAATTTGACATTTATGGCACTTTCGTGCGTAGCT
131 GGCGAATGAGCTGCATGAATTTTATCACCGTAAATTTGACATTTATGGCACTTTCGTGCGTAGCT
38972523 AATGCAACCCCTTTCCATTGTCAGCCAGTAATAACCAAGTCTCATAATCTGCCTGGCCATAGTGA
196 AATGCAACCCCTTTCCATTGTCAGCCAGTAATAACCAAGTCTCATAATCTGCCTGGCCATAGTGA
38972588 AACCACTGGCATGCGTTCCACAAATTCCTTCATGAACCTCTTCAAGTATCTTTCTGGCTTCAACA
261 AACCACTGGCATGCGTTCCACAAATTCCTTCATGAACCTCTTCAAGTATCTTTCTGGCTTCAACA
38972653 GCGTCCACGCATCTCAGGAGCACTTGATCTTTTCCTCTTTTGTATAGAATATCCCCGTCAAGAAA
326 GCGTCCACGCATCTCAGGAGCACTTGATCTTTTCCTCTTTTGTATAGAATATCCCCGTCAAGAAA
38972718 AAATCCAATCGCTATTCTCCTTATTGTTATTTTGTCATTCTCATTTGCTTGCTCGGGGTACCCTT
391 AAATCCAATCGCTATTCTCCTTATTGTTATTTTGTCATTCTCATTTGCTTGCTCGGGGTACCCTT
38972783 GATTCTTGATGTACTCTAAGATATCATGAAACCATGGTCGTCCATCTGACTCCTCCTCAATGGTA
456 GATTCTTGATGTACTCTAAGATATCATGAAACCATGGTCGTCCATCTGACTCCTCCTCAATGGTA
38972848 AAACAGTGTGCGGGGGTCTCAT
521 AAACAGTGTGCGGGGGTCTCAT
38972870 ATATGCCCAT
Statistics
Matches: 541, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
541 531 0.98
542 10 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (542 bp):
TACTCATTTTGTGAAGTAGTCTATAACCACAAAGATGAAACGATGTCCATTAGAAGCCTTCGGGG
AAATTGGCCCTATAACATCCATGCCCCACATAGAAAAAGGCCATGGCGAAGTCATGACATGAAGG
GGCGAATGAGCTGCATGAATTTTATCACCGTAAATTTGACATTTATGGCACTTTCGTGCGTAGCT
AATGCAACCCCTTTCCATTGTCAGCCAGTAATAACCAAGTCTCATAATCTGCCTGGCCATAGTGA
AACCACTGGCATGCGTTCCACAAATTCCTTCATGAACCTCTTCAAGTATCTTTCTGGCTTCAACA
GCGTCCACGCATCTCAGGAGCACTTGATCTTTTCCTCTTTTGTATAGAATATCCCCGTCAAGAAA
AAATCCAATCGCTATTCTCCTTATTGTTATTTTGTCATTCTCATTTGCTTGCTCGGGGTACCCTT
GATTCTTGATGTACTCTAAGATATCATGAAACCATGGTCGTCCATCTGACTCCTCCTCAATGGTA
AAACAGTGTGCGGGGGTCTCAT
Found at i:38982581 original size:53 final size:53
Alignment explanation
Indices: 38982499--38982731 Score: 233
Period size: 53 Copynumber: 4.4 Consensus size: 53
38982489 GCACAATAAT
* * *
38982499 AATTGTTTGAAAACACGTAAATTTGTGAAACACGAGAATTTTTTGAAAACGCGAA
1 AATT-TTTGAAAACACGAAAATTTTTGAAACACGA-AATTTTTTGAAAACACGAA
* * *
38982554 AATTTTTG-AAACACAAAAATTTTTGAAACATAGGAATTTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACA-CGAAATTTTTTGAAAACACGAA
* * *
38982607 AATTTTTG-AAACACCGAAAA-TTTTGAAAACACGAAGA-GTTTTG-AAACACCAG
1 AATTTTTGAAAACA-CGAAAATTTTTG-AAACACGAA-ATTTTTTGAAAACACGAA
* * ** * *
38982659 AATTTTTGAAAACACGAAGATTTTTGAAGCACGATTTTTTTTAAAAACAAGAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACACGAAATTTTTTGAAAACACGAA
*
38982712 AATTTGTGAAAACACGAAAA
1 AATTTTTGAAAACACGAAAA
38982732 AAAACGAAGA
Statistics
Matches: 147, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
52 31 0.21
53 96 0.65
54 16 0.11
55 4 0.03
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (53 bp):
AATTTTTGAAAACACGAAAATTTTTGAAACACGAAATTTTTTGAAAACACGAA
Found at i:38982700 original size:35 final size:34
Alignment explanation
Indices: 38982499--38982730 Score: 189
Period size: 35 Copynumber: 6.5 Consensus size: 34
38982489 GCACAATAAT
*
38982499 AATTGTTTGAAAACACGTAAATTTGTG-AAACACGAGA
1 AATT-TTTG-AAACACG-AAATTTTTGAAAACACGA-A
* * *
38982536 ATTTTTTGAAAACGCGAAAATTTTTG-AAACACAAA
1 AATTTTTG-AAACACG-AAATTTTTGAAAACACGAA
* *
38982571 AATTTTTGAAACATAGGAATTTTTTGAAAACACGAA
1 AATTTTTGAAAC--ACGAAATTTTTGAAAACACGAA
*
38982607 AATTTTTGAAACACCGAAAATTTTGAAAACACGAA
1 AATTTTTGAAACA-CGAAATTTTTGAAAACACGAA
* * *
38982642 GAGTTTTGAAACACCAGAATTTTTGAAAACACGAA
1 AATTTTTGAAACACGA-AATTTTTGAAAACACGAA
* * ** * *
38982677 GATTTTTGAAGCACGATTTTTTTTAAAAACAAGAA
1 AATTTTTGAAACACGA-AATTTTTGAAAACACGAA
*
38982712 AATTTGTGAAAACACGAAA
1 AATTTTTG-AAACACGAAA
38982731 AAAAACGAAG
Statistics
Matches: 159, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
34 7 0.04
35 95 0.60
36 54 0.34
37 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (34 bp):
AATTTTTGAAACACGAAATTTTTGAAAACACGAA
Found at i:38982725 original size:18 final size:18
Alignment explanation
Indices: 38982499--38982731 Score: 201
Period size: 18 Copynumber: 13.1 Consensus size: 18
38982489 GCACAATAAT
*
38982499 AATTGTTTGAAAACACGTA
1 AATT-TTTGAAAACACGAA
*
38982518 AATTTGTG-AAACACGAGA
1 AATTTTTGAAAACACGA-A
* *
38982536 ATTTTTTGAAAACGCGAA
1 AATTTTTGAAAACACGAA
*
38982554 AATTTTTG-AAACACAAA
1 AATTTTTGAAAACACGAA
* *
38982571 AATTTTTG-AAACATAGGA
1 AATTTTTGAAAACA-CGAA
*
38982589 ATTTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
38982607 AATTTTTG-AAACACCGAA
1 AATTTTTGAAAACA-CGAA
38982625 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* * * *
38982642 GAGTTTTG-AAACACCAG
1 AATTTTTGAAAACACGAA
38982659 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* * *
38982677 GATTTTTG-AAGCACGAT
1 AATTTTTGAAAACACGAA
** * *
38982694 TTTTTTTAAAAACAAGAA
1 AATTTTTGAAAACACGAA
*
38982712 AATTTGTGAAAACACGAA
1 AATTTTTGAAAACACGAA
38982730 AA
1 AA
38982732 AAAACGAAGA
Statistics
Matches: 169, Mismatches: 36, Indels: 19
0.75 0.16 0.08
Matches are distributed among these distances:
17 67 0.40
18 86 0.51
19 16 0.09
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:38982782 original size:18 final size:19
Alignment explanation
Indices: 38982748--38982783 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38982738 AAGATTTGTG
*
38982748 AAAACATGGATTTTTTTTT
1 AAAACATGGAATTTTTTTT
38982767 AAAACAT-GAATTTTTTT
1 AAAACATGGAATTTTTTT
38982784 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (19 bp):
AAAACATGGAATTTTTTTT
Found at i:38982924 original size:19 final size:19
Alignment explanation
Indices: 38982900--38982937 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38982890 CGTGATTCTA
38982900 TTAAAACACGAAAATTTTT
1 TTAAAACACGAAAATTTTT
38982919 TTAAAACACGAAAATTTTT
1 TTAAAACACGAAAATTTTT
38982938 GAATATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
TTAAAACACGAAAATTTTT
Found at i:38983286 original size:11 final size:11
Alignment explanation
Indices: 38983265--38983320 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 11
38983255 TTGGGCCTCT
38983265 TTTTCTTTCTTC
1 TTTT-TTTCTTC
*
38983277 TTTTTTTCTTT
1 TTTTTTTCTTC
38983288 TTTTTTCTCTTC
1 TTTTTT-TCTTC
38983300 TTTTTTCTTTCTTC
1 --TTTT-TTTCTTC
38983314 TTTTTTT
1 TTTTTTT
38983321 TCTGGCCTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 15 0.39
12 12 0.32
14 9 0.24
15 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:38983290 original size:10 final size:10
Alignment explanation
Indices: 38983262--38983309 Score: 60
Period size: 10 Copynumber: 4.5 Consensus size: 10
38983252 GACTTGGGCC
*
38983262 TCTTTTTCTT
1 TCTTTTTTTT
38983272 TCTTCTTTTTT
1 TCTT-TTTTTT
38983283 TCTTTTTTTT
1 TCTTTTTTTT
38983293 TCTCTTCTTTTT
1 TCT-TT-TTTTT
38983305 TCTTT
1 TCTTT
38983310 CTTCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
10 13 0.38
11 13 0.38
12 8 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:38983298 original size:23 final size:21
Alignment explanation
Indices: 38983264--38983316 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
38983254 CTTGGGCCTC
38983264 TTTTTCTTTCTTCTTTTTTTCT
1 TTTTTCTTTCTTC-TTTTTTCT
*
38983286 TTTTTTTTCTCTTCTTTTTTCT
1 TTTTTCTT-TCTTCTTTTTTCT
*
38983308 TTCTTCTTT
1 TTTTTCTTT
38983317 TTTTTCTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 21 0.78
23 5 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTCTTCTTTTTTCT
Found at i:38983300 original size:26 final size:26
Alignment explanation
Indices: 38983264--38983320 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
38983254 CTTGGGCCTC
38983264 TTTTTCTTTCTTCTTTT-TTTCTT-TT
1 TTTTTCTTTCTT-TTTTCTTTCTTCTT
38983289 TTTTTCTCTTCTTTTTTCTTTCTTCTT
1 TTTTTCT-TTCTTTTTTCTTTCTTCTT
38983316 TTTTT
1 TTTTT
38983321 TCTGGCCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.38
26 11 0.38
27 7 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTCTTTCTTTTTTCTTTCTTCTT
Found at i:38983320 original size:15 final size:14
Alignment explanation
Indices: 38983264--38983319 Score: 68
Period size: 12 Copynumber: 4.4 Consensus size: 14
38983254 CTTGGGCCTC
38983264 TTTTTCTTTCTTC-
1 TTTTTCTTTCTTCT
38983277 -TTTT-TTTCTT-T
1 TTTTTCTTTCTTCT
*
38983288 TTTTT-TCTCTTCT
1 TTTTTCTTTCTTCT
38983301 TTTTTCTTTCTTCT
1 TTTTTCTTTCTTCT
38983315 TTTTT
1 TTTTT
38983320 TTCTGGCCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 6 0.16
12 13 0.35
13 6 0.16
14 12 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTCTTCT
Found at i:38983726 original size:18 final size:17
Alignment explanation
Indices: 38983703--38983756 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
38983693 TTTTTTCTTC
38983703 TTTTTCTTCTCTTTTTT
1 TTTTTCTTCTCTTTTTT
38983720 TTCTTTC--C-CTTTTTT
1 TT-TTTCTTCTCTTTTTT
*
38983735 CTTTTCTTCTCTTTTTT
1 TTTTTCTTCTCTTTTTT
38983752 TTTTT
1 TTTTT
38983757 TCCTTTTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 4 0.13
15 8 0.26
16 2 0.06
17 13 0.42
18 4 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTCTCTTTTTT
Found at i:38983740 original size:32 final size:33
Alignment explanation
Indices: 38983695--38983764 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 33
38983685 TTTTTTATTT
38983695 TTTTCTTCTTTTTCTTCTCTTTTTTTTCTTTCCC
1 TTTTCTTCTTTTTCTTCTCTTTTTTTT-TTTCCC
*
38983729 TTTT-TTC-TTTTCTTCTCTTTTTTTTTTTTCC
1 TTTTCTTCTTTTTCTTCTCTTTTTTTTTTTCCC
38983760 TTTTC
1 TTTTC
38983765 CAAACCCTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 9 0.26
32 18 0.53
33 3 0.09
34 4 0.12
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTCTTCTTTTTCTTCTCTTTTTTTTTTTCCC
Found at i:38983757 original size:18 final size:18
Alignment explanation
Indices: 38983703--38983758 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
38983693 TTTTTTCTTC
38983703 TTTTTCTTCTCTTTTTTT
1 TTTTTCTTCTCTTTTTTT
*
38983721 TCTTTC--C-C-TTTTTT
1 TTTTTCTTCTCTTTTTTT
*
38983735 CTTTTCTTCTCTTTTTTT
1 TTTTTCTTCTCTTTTTTT
38983753 TTTTTC
1 TTTTTC
38983759 CTTTTCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTCTCTTTTTTT
Found at i:38984520 original size:29 final size:29
Alignment explanation
Indices: 38984439--38984547 Score: 94
Period size: 30 Copynumber: 3.7 Consensus size: 29
38984429 AGAAAAATAT
*
38984439 GGGCCAAAATGTAATTTCTAGAAAGTTTAG
1 GGGCCAAAATGTAATTTATA-AAAGTTTAG
** *
38984469 GGGCCTGAATGTAATTTACAAAA-TATTAG
1 GGGCCAAAATGTAATTTATAAAAGT-TTAG
* * * *
38984498 GGGTCAAAATGTAATTTTTAAAAAATTTAA
1 GGGCCAAAATGTAATTTAT-AAAAGTTTAG
* *
38984528 AGGCTAAAATGTAATTTATA
1 GGGCCAAAATGTAATTTATA
38984548 TTTTTTGCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
28 1 0.02
29 22 0.35
30 38 0.61
31 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.33
Consensus pattern (29 bp):
GGGCCAAAATGTAATTTATAAAAGTTTAG
Found at i:38985786 original size:8 final size:8
Alignment explanation
Indices: 38985773--38985802 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
38985763 ACAAATTTAA
38985773 AAAATTCT
1 AAAATTCT
38985781 AAAATTCT
1 AAAATTCT
*
38985789 AAAATTCC
1 AAAATTCT
38985797 AAAATT
1 AAAATT
38985803 GAAAGTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTCT
Found at i:38989748 original size:11 final size:11
Alignment explanation
Indices: 38989732--38989758 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38989722 TTTACTTTAT
38989732 TTATTTTATTA
1 TTATTTTATTA
38989743 TTATTTTATTA
1 TTATTTTATTA
38989754 TTATT
1 TTATT
38989759 AAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:38996169 original size:18 final size:18
Alignment explanation
Indices: 38996129--38996172 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
38996119 AATTTTTATG
**
38996129 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
38996147 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
38996165 CTTGGGTT
1 ATTGGGTT
38996173 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:38998568 original size:33 final size:29
Alignment explanation
Indices: 38998516--38998578 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 29
38998506 TCTAACTTAG
*
38998516 ATAAAAAAAAATAAATTCAAACCCCTAAT
1 ATAAAAAAAAATAAATTCAAACCCCAAAT
38998545 ATAAAAAAAAATTGACAATTTCAAACCCCAAAT
1 ATAAAAAAAAA-T-A-AA-TTCAAACCCCAAAT
38998578 A
1 A
38998579 ATAATTTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 11 0.38
30 1 0.03
31 1 0.03
32 2 0.07
33 14 0.48
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (29 bp):
ATAAAAAAAAATAAATTCAAACCCCAAAT
Found at i:39002215 original size:11 final size:11
Alignment explanation
Indices: 39002195--39002253 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
39002185 AGATAAATGT
*
39002195 TATTTAATTAA
1 TATTTTATTAA
39002206 TATTTTATTAA
1 TATTTTATTAA
* *
39002217 GATTTTTAGTAA
1 TA-TTTTATTAA
*
39002229 TATTTTATTAT
1 TATTTTATTAA
**
39002240 TAAATTATTAA
1 TATTTTATTAA
39002251 TAT
1 TAT
39002254 AGAAGGGAGG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:39006961 original size:72 final size:72
Alignment explanation
Indices: 39006835--39006975 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 72
39006825 TTAGGTTTAG
* ** * *
39006835 AAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCTAGATCTTTTAAAACT
1 AAAAAGGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
39006900 TGAGAAA
66 TGAGAAA
*
39006907 AAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAAAGGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
39006972 TGAG
66 TGAG
39006976 TTTGAAAGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (72 bp):
AAAAAGGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCGTTTAAAACT
TGAGAAA
Found at i:39007450 original size:35 final size:36
Alignment explanation
Indices: 39007411--39007487 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 36
39007401 AAAGATATAC
* * *
39007411 GTAAATGTATATATATG-TATATATGTATATAAATT
1 GTAAATATATATAAACGATATATATGTATATAAATT
* *
39007446 GTAAA-ATATATAAACGATGTATGTGTATATAAATT
1 GTAAATATATATAAACGATATATATGTATATAAATT
*
39007481 ATAAATA
1 GTAAATA
39007488 AAAACACATG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
34 8 0.24
35 25 0.74
36 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.40
Consensus pattern (36 bp):
GTAAATATATATAAACGATATATATGTATATAAATT
Found at i:39009855 original size:20 final size:21
Alignment explanation
Indices: 39009819--39009857 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39009809 TAGGCGCCAA
39009819 TGAATAAAATAATAATTTTTT
1 TGAATAAAATAATAATTTTTT
39009840 TGAATAAAAT-ATAATTTT
1 TGAATAAAATAATAATTTT
39009858 ATACTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TGAATAAAATAATAATTTTTT
Found at i:39009943 original size:27 final size:27
Alignment explanation
Indices: 39009905--39009980 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
39009895 TAGTATTGGC
* *
39009905 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTACCTGGGAGGCGCCAATGATGGT
39009932 GCCTACCTGGGAGGCGCCAATGATGGT
1 GCCTACCTGGGAGGCGCCAATGATGGT
*
39009959 GCCT-CTCTGAGAGGCGCCAATG
1 GCCTAC-CTGGGAGGCGCCAATG
39009981 CTGTTATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.17, C:0.26, G:0.37, T:0.20
Consensus pattern (27 bp):
GCCTACCTGGGAGGCGCCAATGATGGT
Found at i:39010086 original size:22 final size:23
Alignment explanation
Indices: 39010034--39010086 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
39010024 TTACTCCAGA
*
39010034 AAGAAATAAGAAGGAAGGAAGCAG
1 AAGAAA-AAGAAGGAAGGAAGAAG
39010058 AAG-AAAAGAAGGAAGGAA-AAG
1 AAGAAAAAGAAGGAAGGAAGAAG
39010079 AAGAAAAA
1 AAGAAAAA
39010087 AATGGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 2 0.07
24 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (23 bp):
AAGAAAAAGAAGGAAGGAAGAAG
Found at i:39010648 original size:35 final size:35
Alignment explanation
Indices: 39010601--39010679 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
39010591 ATATGTGGAT
*
39010601 ATATATATG-TATACGAATTGTAAAATATACAAAAA
1 ATATATATGATATACGAATTATAAAATATA-AAAAA
*
39010636 ATATGTATGTATATACGAATTATAAAATAT-AAAAA
1 ATATATATG-ATATACGAATTATAAAATATAAAAAA
*
39010671 CTATATATG
1 ATATATATG
39010680 TAAAAGAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 20 0.53
37 18 0.47
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (35 bp):
ATATATATGATATACGAATTATAAAATATAAAAAA
Found at i:39010680 original size:35 final size:36
Alignment explanation
Indices: 39010599--39010681 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 36
39010589 ATATATGTGG
* * *
39010599 ATATATATATGTATACGAATTGTAAAATATACAAAAA
1 ATATATATGTATATACGAATTATAAAATATA-AAAAA
*
39010636 ATATGTATGTATATACGAATTATAAAATAT-AAAAA
1 ATATATATGTATATACGAATTATAAAATATAAAAAA
*
39010671 CTATATATGTA
1 ATATATATGTA
39010682 AAAGAGGAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 14 0.35
37 26 0.65
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (36 bp):
ATATATATGTATATACGAATTATAAAATATAAAAAA
Found at i:39012786 original size:20 final size:21
Alignment explanation
Indices: 39012750--39012788 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39012740 TAGGCGCCAA
39012750 TGAATAAAATAATAATTTTTT
1 TGAATAAAATAATAATTTTTT
39012771 TGAATAAAAT-ATAATTTT
1 TGAATAAAATAATAATTTT
39012789 ATACTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TGAATAAAATAATAATTTTTT
Found at i:39012874 original size:27 final size:27
Alignment explanation
Indices: 39012836--39012947 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 27
39012826 TAGTATTGAC
39012836 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
* *
39012863 GCCTATCTGGGAGGAGCCATTATTGGTGCCATACTGA
1 GCCTATCTGGGAGGCGCCA--A-TGGTG-------GT
* *
39012900 GACTATTTGGGA-GCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
39012926 GCCTATCTGGGAGGCGCCAATG
1 GCCTATCTGGGAGGCGCCAATG
39012948 TGATTTTTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
26 11 0.17
27 27 0.41
29 1 0.02
30 5 0.08
33 5 0.08
34 1 0.02
36 5 0.08
37 11 0.17
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:39024446 original size:38 final size:38
Alignment explanation
Indices: 39024392--39024465 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
39024382 TCAAAAACCC
39024392 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
*
39024430 AAACTTTTAATGAAATGATTTTTAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAA
39024466 ACTTTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
Found at i:39024697 original size:27 final size:26
Alignment explanation
Indices: 39024661--39024788 Score: 155
Period size: 27 Copynumber: 5.1 Consensus size: 26
39024651 ATATCCCCAC
39024661 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
39024688 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
39024710 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
39024737 ATTACAATATTCATAC-AAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
39024760 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
39024786 ATT
1 ATT
39024789 CATACAAAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 20
0.79 0.03 0.18
Matches are distributed among these distances:
22 29 0.33
23 11 0.12
24 2 0.02
25 2 0.02
26 11 0.12
27 33 0.38
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.34
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:39024718 original size:22 final size:22
Alignment explanation
Indices: 39024661--39024803 Score: 93
Period size: 19 Copynumber: 6.2 Consensus size: 22
39024651 ATATCCCCAC
39024661 ATTACAATATTCATAC---AAA
1 ATTACAATATTCATACAAAAAA
39024680 ATTACAATATTACAATATTCATACAAAAAA
1 ATTACAATATT-C-ATA--C--A-AAAA-A
*
39024710 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
39024736 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
* *
39024759 TTTATAATATTCATAC---AAA
1 ATTACAATATTCATACAAAAAA
39024778 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
39024799 ATTAC
1 ATTAC
39024804 TAATCCAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 32
0.72 0.05 0.23
Matches are distributed among these distances:
19 28 0.28
20 1 0.01
21 11 0.11
22 14 0.14
23 3 0.03
24 3 0.03
25 1 0.01
26 6 0.06
27 16 0.16
28 3 0.03
29 3 0.03
30 11 0.11
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:39024738 original size:49 final size:49
Alignment explanation
Indices: 39024608--39024788 Score: 235
Period size: 49 Copynumber: 3.7 Consensus size: 49
39024598 AATTAATTAT
*
39024608 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** *
39024656 -CCCACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
39024704 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
39024753 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAATTACAATATT
39024789 CATACAAAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
45 20 0.18
46 1 0.01
47 18 0.16
48 1 0.01
49 74 0.65
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:39024825 original size:41 final size:44
Alignment explanation
Indices: 39024688--39024825 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 44
39024678 AAATTACAAT
* * * *
39024688 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAAAAATT--TATAAT-ATCCAAAACTATAA
* *
39024736 TATTACAATATTCATACAAAAAATTTATAATATTC-ATAC-A-AA
1 -ATTACAATATTCATACAAAAAATTTATAATATCCAAAACTATAA
39024778 ATTACAATATTCATACAAAAAA-TTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTTA-TAATATCCAAAACTATAA
39024820 A-TACAA
1 ATTACAA
39024826 ATTTAATTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
39 3 0.04
40 7 0.09
41 29 0.37
42 5 0.06
43 1 0.01
44 2 0.03
45 3 0.04
46 4 0.05
48 8 0.10
49 16 0.21
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (44 bp):
ATTACAATATTCATACAAAAAATTTATAATATCCAAAACTATAA
Found at i:39025026 original size:22 final size:21
Alignment explanation
Indices: 39024999--39025266 Score: 192
Period size: 22 Copynumber: 12.2 Consensus size: 21
39024989 TAGATTAGAA
*
39024999 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
39025021 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
39025042 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
39025060 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
39025081 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
39025103 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
39025124 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
39025143 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
39025165 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
39025190 AGTTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
39025214 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTGT-A-A-T-T
39025239 AATTTTGTATGAATATTGTAATT
1 --TTTTGTATGAATATTGTAATT
39025262 ATTTT
1 -TTTT
39025267 ATAATTAATT
Statistics
Matches: 201, Mismatches: 22, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.01
19 30 0.15
20 23 0.11
21 23 0.11
22 64 0.32
23 11 0.05
24 6 0.03
25 6 0.03
26 2 0.01
27 33 0.16
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:39025070 original size:19 final size:19
Alignment explanation
Indices: 39025023--39025079 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
39025013 TTTAAATTTT
* *
39025023 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
39025043 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
39025062 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
39025080 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:39025148 original size:19 final size:19
Alignment explanation
Indices: 39025124--39025184 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
39025114 ATTAGTAATT
39025124 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
39025143 TTTTGTATGAATATTATAAA
1 TTTTGTATGAATATTGT-AA
39025163 TTTTTTGTATGAATATTGTAA
1 --TTTTGTATGAATATTGTAA
39025184 T
1 T
39025185 ATTATAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 17 0.46
20 2 0.05
21 2 0.05
22 16 0.43
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:39025165 original size:41 final size:40
Alignment explanation
Indices: 39024999--39025239 Score: 177
Period size: 41 Copynumber: 5.7 Consensus size: 40
39024989 TAGATTAGAA
*
39024999 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
39025042 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
39025081 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
39025124 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
**
39025165 TTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTG------TA-A-TTTTGTATGAATATTATAA-TT
*
39025214 TTTTGTATGAATATTGTAATATTGTA
1 TTTTGTATGAATATTGTAATTTTGTA
39025240 ATTTTGTATG
Statistics
Matches: 161, Mismatches: 15, Indels: 46
0.73 0.07 0.21
Matches are distributed among these distances:
39 22 0.14
40 6 0.04
41 46 0.29
42 34 0.21
43 12 0.07
44 3 0.02
47 2 0.01
48 3 0.02
49 33 0.20
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:39025201 original size:27 final size:25
Alignment explanation
Indices: 39025133--39025265 Score: 143
Period size: 27 Copynumber: 5.3 Consensus size: 25
39025123 TTTTTGTATG
*
39025133 AATATTGTAATTTTGTATGAATATTAT
1 AATATT-T-ATTTTGTATGAATATTGT
39025160 AA-A-TT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
39025182 AATATTATAGTTTTGTATGAATATTG-
1 AATATT-TA-TTTTGTATGAATATTGT
*
39025208 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
39025231 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-T-ATTTTGTATGAATATTGT
39025258 AATTATTT
1 AA-TATTT
39025266 TATAATTAAT
Statistics
Matches: 92, Mismatches: 3, Indels: 22
0.79 0.03 0.19
Matches are distributed among these distances:
22 34 0.37
23 2 0.02
24 6 0.07
25 6 0.07
26 2 0.02
27 38 0.41
28 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (25 bp):
AATATTTATTTTGTATGAATATTGT
Found at i:39025256 original size:49 final size:49
Alignment explanation
Indices: 39025133--39025266 Score: 214
Period size: 49 Copynumber: 2.7 Consensus size: 49
39025123 TTTTTGTATG
* *
39025133 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * *
39025182 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
39025231 AATATTGTAATTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTT
39025267 ATAATTAATT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:39038435 original size:35 final size:35
Alignment explanation
Indices: 39038357--39038427 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
39038347 TTTGTGCCCC
*
39038357 TTTTT-TTTTT-ATTTTAATCTCCCTTCTTCAAAA
1 TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
*
39038390 TTTTTATTTTTAATTTT-ATCTTCCTTCTACAAAA
1 TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
39038424 TTTT
1 TTTT
39038428 ACCTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 5 0.15
34 24 0.71
35 5 0.15
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
Found at i:39041010 original size:4 final size:4
Alignment explanation
Indices: 39041001--39041032 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
39040991 AACATAGATG
39041001 ATAA ATAA ATAA ATAA ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
39041033 ATTAACAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:39041034 original size:12 final size:12
Alignment explanation
Indices: 39041007--39041069 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
39040997 GATGATAAAT
39041007 AAATAAATAA-A
1 AAATAAATAATA
39041018 TAAATAAATAATA
1 -AAATAAATAATA
* *
39041031 AAATTAACAATA
1 AAATAAATAATA
*
39041043 CGAA-AAATAATA
1 -AAATAAATAATA
*
39041055 ATA-AAATAATA
1 AAATAAATAATA
39041066 AAAT
1 AAAT
39041070 TCAAACTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
11 11 0.28
12 26 0.65
13 3 0.08
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:39041363 original size:29 final size:29
Alignment explanation
Indices: 39041312--39041367 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
39041302 ACAAGAATGC
*
39041312 TTGATTTTATTGATTATGATTAGGTTTAG
1 TTGATTTTATTGATTAAGATTAGGTTTAG
* *
39041341 TTGATTTTATTGCTTAAGTTTAGGTTT
1 TTGATTTTATTGATTAAGATTAGGTTT
39041368 TTAGATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.02, G:0.20, T:0.57
Consensus pattern (29 bp):
TTGATTTTATTGATTAAGATTAGGTTTAG
Found at i:39049395 original size:25 final size:26
Alignment explanation
Indices: 39049339--39049395 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
39049329 TTAAGATTTG
* *
39049339 TTTTTAATTATTATTATTTAAATTTT
1 TTTTTAATTATTATTACTTAAATATT
39049365 TGTTTTAATT-TTA-TACTTAAATAATT
1 T-TTTTAATTATTATTACTTAAAT-ATT
39049391 TTTTT
1 TTTTT
39049396 TGCTATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 12 0.44
26 7 0.26
27 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTAATTATTATTACTTAAATATT
Found at i:39049396 original size:26 final size:27
Alignment explanation
Indices: 39049334--39049396 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
39049324 TTAGATTAAG
*
39049334 ATTTGTTTTTAATTATTATTATTTAAAT
1 ATTT-TTTTTAATTATTATTACTTAAAT
39049362 -TTTTGTTTTAATT-TTA-TACTTAAAT
1 ATTTT-TTTTAATTATTATTACTTAAAT
39049387 AATTTTTTTT
1 -ATTTTTTTT
39049397 GCTATTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
25 8 0.26
26 8 0.26
27 15 0.48
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (27 bp):
ATTTTTTTTAATTATTATTACTTAAAT
Found at i:39050153 original size:16 final size:16
Alignment explanation
Indices: 39050132--39050163 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39050122 GTAACCTAAG
39050132 GGAAACAAAAGTGATT
1 GGAAACAAAAGTGATT
39050148 GGAAACAAAAGTGATT
1 GGAAACAAAAGTGATT
39050164 ATTTTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
GGAAACAAAAGTGATT
Found at i:39050300 original size:22 final size:21
Alignment explanation
Indices: 39050275--39050336 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 21
39050265 AATTATAAAT
39050275 TATTGATATTATTTAAATAATA
1 TATT-ATATTATTTAAATAATA
*
39050297 TATTA-A-AATTTAAA-AATTA
1 TATTATATTATTTAAATAA-TA
39050316 TATTATATT-TTTGAAATAATA
1 TATTATATTATTT-AAATAATA
39050337 AAAAAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 5 0.15
21 6 0.18
22 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TATTATATTATTTAAATAATA
Found at i:39050978 original size:21 final size:20
Alignment explanation
Indices: 39050953--39050991 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39050943 TCTAATTTCG
*
39050953 AATTTAATAAATTTTTATTCC
1 AATTT-ATAAAATTTTATTCC
*
39050974 AATTTTTAAAATTTTATT
1 AATTTATAAAATTTTATT
39050992 TGTAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTATAAAATTTTATTCC
Found at i:39054339 original size:21 final size:21
Alignment explanation
Indices: 39054310--39054412 Score: 75
Period size: 21 Copynumber: 4.9 Consensus size: 21
39054300 AGATAAACAG
*
39054310 AAACCCATAAGGGTTGAACGA
1 AAACCCATAAGGGTTAAACGA
* * * *
39054331 AAGCTCATAAGAGCTAAACGA
1 AAACCCATAAGGGTTAAACGA
*
39054352 AAACCCATAAGGGTCAAAC-A
1 AAACCCATAAGGGTTAAACGA
* * * * *
39054372 GAAGCTCAAAAGAGCTT-AACGG
1 -AAACCCATAAG-GGTTAAACGA
39054394 AAACCCATAAGGGTTAAAC
1 AAACCCATAAGGGTTAAAC
39054413 AGAAGCTCAA
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
20 4 0.07
21 52 0.90
22 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAACGA
Found at i:39054356 original size:42 final size:42
Alignment explanation
Indices: 39054284--39054476 Score: 205
Period size: 42 Copynumber: 4.6 Consensus size: 42
39054274 CTGAAGGCTG
* * * *
39054284 AACAGAAGTTCATGAGAGATAAAC-AGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGA-AAACCCATAAGGGTTA
*
39054326 AAC-GAAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTCA
1 AACAG-AAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTA
* * *
39054368 AACAGAAGCTCAAAAGAGCTTAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTA
* * *
39054410 AACAGAAGCTCA-ATAGAGCTAAAC-AGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACGA-AAACCCATAAGGGTTA
* *
39054452 AATAGAAGCTCATGAGAGCTAAACG
1 AACAGAAGCTCATAAGAGCTAAACG
39054477 GAAAGTAAAC
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 124 0.97
43 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGAAAACCCATAAGGGTTA
Found at i:39054434 original size:21 final size:20
Alignment explanation
Indices: 39054367--39054475 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 20
39054357 CATAAGGGTC
*
39054367 AAACAGAAGCTCAAAAGAGCT
1 AAACAGAAGCTC-ATAGAGCT
* * * * * *
39054388 TAACGGAAACCCATAAGGGTT
1 AAACAGAAGCTCAT-AGAGCT
39054409 AAACAGAAGCTCAATAGAGCT
1 AAACAGAAGCTC-ATAGAGCT
* *
39054430 AAACAGAAACTCATATGAGTT
1 AAACAGAAGCTCATA-GAGCT
*
39054451 AAATAGAAGCTCATGAGAGCT
1 AAACAGAAGCTCAT-AGAGCT
39054472 AAAC
1 AAAC
39054476 GGAAAGTAAA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
20 4 0.06
21 58 0.89
22 3 0.05
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (20 bp):
AAACAGAAGCTCATAGAGCT
Found at i:39056043 original size:51 final size:50
Alignment explanation
Indices: 39055926--39056242 Score: 458
Period size: 51 Copynumber: 6.3 Consensus size: 50
39055916 CTTGCGTATG
*
39055926 ATCACTT-ATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGA-CACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
* * *
39055976 ATCACTTGCCATTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGACACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
39056027 ATCACTTGACACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
1 ATCACTTGACACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
* * *
39056078 GTCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGACACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
39056128 ATCACTT-ATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGA-CACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
* * * *
39056179 ATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGGTACCATTT
1 ATCACTTGACACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
*
39056230 ATCACTTGTCACT
1 ATCACTTGACACT
39056243 GATCAAAAGT
Statistics
Matches: 245, Mismatches: 17, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
50 80 0.33
51 165 0.67
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
ATCACTTGACACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
Found at i:39056085 original size:7 final size:7
Alignment explanation
Indices: 39056073--39056097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39056063 CTGAAGCTAC
39056073 CACTTGT
1 CACTTGT
39056080 CACTTGT
1 CACTTGT
39056087 CACTTGT
1 CACTTGT
39056094 CACT
1 CACT
39056098 GATCAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (7 bp):
CACTTGT
Found at i:39056110 original size:152 final size:152
Alignment explanation
Indices: 39055926--39056242 Score: 508
Period size: 152 Copynumber: 2.1 Consensus size: 152
39055916 CTTGCGTATG
* * * * *
39055926 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCATTTG
1 ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTTATCACTTACCACTTG
* * *
39055991 TCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGACACTTGTCACTGATCAGATA
66 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGACACTTGTCACTAATCAGATA
*
39056056 AGTGTAGCTGAAGCTACCACTT
131 AGTGTAGCTAAAGCTACCACTT
* *
39056078 GTCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTG
1 ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTTATCACTTACCACTTG
*
39056143 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTAATCAGATA
66 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGACACTTGTCACTAATCAGATA
* *
39056208 AGTGTAGCTAAAGGTACCATTT
131 AGTGTAGCTAAAGCTACCACTT
39056230 ATCACTTGTCACT
1 ATCACTTGTCACT
39056243 GATCAAAAGT
Statistics
Matches: 150, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (152 bp):
ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTAAGCTACCACTTATCACTTACCACTTG
TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGACACTTGTCACTAATCAGATA
AGTGTAGCTAAAGCTACCACTT
Found at i:39056120 original size:101 final size:101
Alignment explanation
Indices: 39055926--39056242 Score: 494
Period size: 101 Copynumber: 3.1 Consensus size: 101
39055916 CTTGCGTATG
* * *
39055926 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGCCATTTG
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTG
* *
39055991 TCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
66 TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
39056027 ATCACTTGA-CACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTGTCACTTGTCACT
1 ATCACTT-ATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGTCACT
*
39056091 TGTCACTGATCAAATAAGTGTAGCT-AAGCTACCACTT
64 TGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
39056128 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGTCACTT
* * *
39056193 GTCACTAATCAGATAAGTGTAGCTAAAGGTACCATTT
65 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
39056230 ATCACTTGTCACT
1 ATCACTTATCACT
39056243 GATCAAAAGT
Statistics
Matches: 199, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
100 1 0.01
101 129 0.65
102 69 0.35
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTG
TCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:39062104 original size:22 final size:22
Alignment explanation
Indices: 39062058--39062125 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
39062048 GTTAATAATT
*
39062058 AAATAAATATTTTAAAATCTAA
1 AAATAAATATATTAAAATCTAA
* *
39062080 AAATAAATATATTATATTCTTAA
1 AAATAAATATATTAAAATC-TAA
* * *
39062103 AAGTAAAAATA-TAAAAACTAA
1 AAATAAATATATTAAAATCTAA
39062124 AA
1 AA
39062126 TTTAAATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 5 0.14
22 20 0.54
23 12 0.32
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (22 bp):
AAATAAATATATTAAAATCTAA
Found at i:39064142 original size:41 final size:41
Alignment explanation
Indices: 39064083--39064162 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
39064073 CACATGGTCG
* * *
39064083 TGTGGTAGGTCATGTGGGTCACGCAGT-CATGTGGTAGACCA
1 TGTGGTAGGCCATATGGGTCACAC-GTCCATGTGGTAGACCA
*
39064124 TGTGGTAGGCCGTATGGGTCACACGTCCATGTGGTAGAC
1 TGTGGTAGGCCATATGGGTCACACGTCCATGTGGTAGAC
39064163 TGTATAGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (41 bp):
TGTGGTAGGCCATATGGGTCACACGTCCATGTGGTAGACCA
Found at i:39064153 original size:29 final size:29
Alignment explanation
Indices: 39064120--39064198 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
39064110 CATGTGGTAG
*
39064120 ACCATGTGGTAGGCCGTATGGGTCACACG
1 ACCATGTGGTAGGCCGTATGGGTCACACA
* * * *
39064149 TCCATGTGGTAGACTGTATAGGTCACACA
1 ACCATGTGGTAGGCCGTATGGGTCACACA
39064178 ACTC-TGTGGTAGGCCGTATGG
1 AC-CATGTGGTAGGCCGTATGG
39064199 TGGCCCTTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (29 bp):
ACCATGTGGTAGGCCGTATGGGTCACACA
Found at i:39064751 original size:48 final size:46
Alignment explanation
Indices: 39064648--39064761 Score: 126
Period size: 48 Copynumber: 2.5 Consensus size: 46
39064638 TAATCTGCCT
* *
39064648 TATTTGGTGGTTTAACCATATATCTGTTCTGGTAACTTTATTGCGA
1 TATTTGGTGGCTTGACCATATATCTGTTCTGGTAACTTTATTGCGA
* * *
39064694 T-TATAGTGGCTTGACCATCCATATCTGATTCTGGT-AGTTTATTTGC-A
1 TATTTGGTGGCTTGACCAT--ATATCTG-TTCTGGTAACTTTA-TTGCGA
39064741 TATTTGGTGGCTTGACCATAT
1 TATTTGGTGGCTTGACCATAT
39064762 TTATTTGATT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
45 13 0.23
46 3 0.05
47 14 0.25
48 26 0.46
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (46 bp):
TATTTGGTGGCTTGACCATATATCTGTTCTGGTAACTTTATTGCGA
Found at i:39064942 original size:12 final size:12
Alignment explanation
Indices: 39064925--39064954 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39064915 ATGGGGTGGG
*
39064925 ATCTGTTTCTGC
1 ATCTGTGTCTGC
39064937 ATCTGTGTCTGC
1 ATCTGTGTCTGC
39064949 ATCTGT
1 ATCTGT
39064955 ATTTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (12 bp):
ATCTGTGTCTGC
Found at i:39064985 original size:18 final size:18
Alignment explanation
Indices: 39064976--39065010 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
39064966 AATCTTCATT
*
39064976 CGTATCTGAAACTGTATC
1 CGTATCTGAATCTGTATC
39064994 CGTATCTGAATCTGTAT
1 CGTATCTGAATCTGTAT
39065011 ATTATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (18 bp):
CGTATCTGAATCTGTATC
Found at i:39065641 original size:15 final size:15
Alignment explanation
Indices: 39065600--39065646 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
39065590 CATGCATAAC
39065600 TTGCTTTATACTTTAG
1 TTGCTTT-TACTTTAG
* *
39065616 TTAAC-TATACTTTAG
1 TT-GCTTTTACTTTAG
39065631 TTGCTTTTACTTTAG
1 TTGCTTTTACTTTAG
39065646 T
1 T
39065647 ACTTTAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
14 1 0.04
15 20 0.80
16 3 0.12
17 1 0.04
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (15 bp):
TTGCTTTTACTTTAG
Found at i:39066608 original size:23 final size:23
Alignment explanation
Indices: 39066560--39066610 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
39066550 AAGTTTATTA
* * *
39066560 GAAAAATTGTTTGGTTTGGGAGT
1 GAAATATTGTCTGGTTTGGGACT
39066583 GAAATATTGTCTGGATTT-GGACT
1 GAAATATTGTCTGG-TTTGGGACT
39066606 GAAAT
1 GAAAT
39066611 TAGAGTTGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.37
Consensus pattern (23 bp):
GAAATATTGTCTGGTTTGGGACT
Found at i:39067894 original size:29 final size:28
Alignment explanation
Indices: 39067859--39067984 Score: 126
Period size: 29 Copynumber: 4.4 Consensus size: 28
39067849 GTCATATGGT
*
39067859 CATGTGGTAGCTCGTGTGGGTTACACAAC
1 CATGTGGTAGC-CGTGTGGGTCACACAAC
* *
39067888 CGTGTGGTAAGCCGTGTGGGTTACACAAC
1 CATGTGGT-AGCCGTGTGGGTCACACAAC
* * *
39067917 TATATGGTAGCCTGTGTGGGTCACACGAC
1 CATGTGGTAGCC-GTGTGGGTCACACAAC
* * *
39067946 CATATGGTAGACTGTATGGGTCACACAAC
1 CATGTGGTAG-CCGTGTGGGTCACACAAC
*
39067975 AATGTGGTAG
1 CATGTGGTAG
39067985 GTCATATGAC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.05
29 74 0.90
30 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (28 bp):
CATGTGGTAGCCGTGTGGGTCACACAAC
Found at i:39069072 original size:26 final size:25
Alignment explanation
Indices: 39069010--39069092 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 25
39069000 TGGTTCCTGC
* *
39069010 GAGCTTTCTG-TTAATA-GCTCTTCG
1 GAGCTTCCTGATTAA-AGGCTCTTTG
*
39069034 GAGCAT-CTCGATTAAAGGCTCTTTG
1 GAGCTTCCT-GATTAAAGGCTCTTTG
*
39069059 TGAGCTTCCTGATTAATGGCTCTTTG
1 -GAGCTTCCTGATTAAAGGCTCTTTG
39069085 GAGCTTCC
1 GAGCTTCC
39069093 CGATATTGGC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
23 2 0.04
24 7 0.14
25 19 0.38
26 20 0.40
27 2 0.04
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (25 bp):
GAGCTTCCTGATTAAAGGCTCTTTG
Found at i:39069276 original size:25 final size:27
Alignment explanation
Indices: 39069232--39069297 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
39069222 AGCCCGGATA
* *
39069232 AGCTTCCAGTTACATAGCTC-ACA-AG
1 AGCTTCCCGTTATATAGCTCGACAGAG
* *
39069257 AGCTTCCCGTTATATGGCTCGAGAGAG
1 AGCTTCCCGTTATATAGCTCGACAGAG
39069284 AGCTTCCCGATTAT
1 AGCTTCCCG-TTAT
39069298 GTGCTCTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.50
26 2 0.06
27 11 0.32
28 4 0.12
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (27 bp):
AGCTTCCCGTTATATAGCTCGACAGAG
Found at i:39075191 original size:21 final size:22
Alignment explanation
Indices: 39075167--39075210 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
39075157 TAAACATGAT
*
39075167 AATAGCAATAACAATA-TAAAA
1 AATAACAATAACAATAGTAAAA
* *
39075188 AATAATAATAATAATAGTAAAA
1 AATAACAATAACAATAGTAAAA
39075210 A
1 A
39075211 TAATGATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (22 bp):
AATAACAATAACAATAGTAAAA
Found at i:39075950 original size:16 final size:17
Alignment explanation
Indices: 39075919--39075953 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39075909 AAAATAAAGA
39075919 AAAAAACAAAACAAAAC
1 AAAAAACAAAACAAAAC
*
39075936 AAAAAATAAAA-AAAAC
1 AAAAAACAAAACAAAAC
39075952 AA
1 AA
39075954 CCTTTGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAACAAAACAAAAC
Found at i:39076768 original size:129 final size:129
Alignment explanation
Indices: 39076626--39077007 Score: 480
Period size: 129 Copynumber: 3.0 Consensus size: 129
39076616 AAGTCTGATG
* * ** ** *
39076626 CGATCTGCTCTACTACAACTTCAGAGAGAAAAGATCCATCATTTTGATCCGCT-TCACTGCAACT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCT-ACTGCAACT
* * ** *
39076690 TTAGAAAGATAGGATTGATTTCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGATA
65 TCAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATA
* * *
39076755 CGATCTGCTCTACTGCAATTTCAGAGAGATAAGGTCTGTGGTTTTAATCTGCTCTACTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTT
* * * * * * *
39076820 CAGAGAGATAGGATTGTTTTTTTCTGTTTGCCCCACTGTAACTTCAGGGAGATAAGACTGGATG
66 CAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATA
* *
39076884 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCTACTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTT
* ** *
39076949 CAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCA-AGGAGATGAGACT
66 CAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGA-GAGATAAGACT
39077008 TTTCGTTTTC
Statistics
Matches: 215, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
129 214 1.00
130 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (129 bp):
CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTT
CAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATA
Found at i:39076987 original size:44 final size:42
Alignment explanation
Indices: 39076680--39076994 Score: 183
Period size: 44 Copynumber: 7.3 Consensus size: 42
39076670 TGATCCGCTT
* * * *
39076680 CACTGCAACTTTAGAAAGATAGGATTGATTTCTTCAATCTGCTC
1 CACTGCAACTTCAGAGAGATAGGATTG-GTT-TTCAGTCTGCTC
* * *
39076724 CACTGCAACTTCAGAGAGATAAGATTGG-ATAC-GATCTGCTC
1 CACTGCAACTTCAGAGAGATAGGATTGGTTTTCAG-TCTGCTC
* * * *
39076765 TACTGCAATTTCAGAGAGATAAGGTCTGTGGTTTT-AATCTGCTC
1 CACTGCAACTTCAGAGAGAT-AGG-AT-TGGTTTTCAGTCTGCTC
* * * * *
39076809 TACTGCAACTTCAGAGAGATAGGATTGTTTTTTTCTGTTTGCCC
1 CACTGCAACTTCAGAGAGATAGGATTG--GTTTTCAGTCTGCTC
* * * * * * *
39076853 CACTGTAACTTCAGGGAGATAAGACTGG-ATGC-GATCTACTC
1 CACTGCAACTTCAGAGAGATAGGATTGGTTTTCAG-TCTGCTC
* * * **
39076894 TACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT-AATCCACTC
1 CACTGCAACTTCAGAGAGATAGGA--T-TGGTTTTCAGTCTGCTC
* * *
39076938 TACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
1 CACTGCAACTTCAGAGAGATAGGATTGG-TT-TTCAGTCTGCTC
39076982 CACTGCAACTTCA
1 CACTGCAACTTCA
39076995 AGGAGATGAG
Statistics
Matches: 206, Mismatches: 47, Indels: 36
0.71 0.16 0.12
Matches are distributed among these distances:
40 1 0.00
41 59 0.29
42 6 0.03
43 10 0.05
44 128 0.62
45 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
CACTGCAACTTCAGAGAGATAGGATTGGTTTTCAGTCTGCTC
Found at i:39077141 original size:50 final size:50
Alignment explanation
Indices: 39077026--39077866 Score: 590
Period size: 50 Copynumber: 16.8 Consensus size: 50
39077016 TCAATCTGTT
* * * * * ** * *
39077026 CGCCAGGGAAGTAAGATTCACTGTCGTGGCTTCAATCTTTTTTACTGTAA
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * * *
39077076 TGTCGGGAAAATAAGATTTGCCGTTGTAGCTTGAATCTGTTCCACTGCAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * *
39077126 CGCCAGGGAAGTAAGATTCTCTGTTGTGGCTTCAATCTTTTTAATTGCAA
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * * *
39077176 TGTCGGGGAAGCAAGATTCACCGTTGTAGTTTCAATCTGTTCCACTACAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* ** * * * * *
39077226 CGCCAGGGAAGTAAGATTCATCGTTGTGGCTTTAATCTTTTTAATTGCAA
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * *
39077276 TGTCGGGGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCTACTTCAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * *
39077326 CACCTGAGAAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACCGCAA
1 CGCC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
*** * * *
39077377 TATCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * *
39077427 CGCCTGGGAAAGTAAAATTCGCTGTT-TAGCTTCAATATTTTCAACTGCAA
1 CGCC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * *
39077477 TGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAAT-TTGTTCTATTGCAT
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTT-TTCAACTGCAC
* * * * *
39077527 CGCCAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTGAATTGCTA-
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGC-AC
* * * * * *
39077577 TGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * ** * *
39077627 CACCTGGGAAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTCAACTGCAA
1 CGCC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * * * *
39077678 TGTCGGGTAAGCAAGATTCGTCGTTGTAACTTCAATCTGTTCCATTGCAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * *
39077728 CGCCTGAGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAA
1 CGCC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * * * *
39077779 TGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGTAC
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
* * * * *
39077829 CGCCAGGGAAGTAAGAATCACTGTTGTAACTTCAATCT
1 CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
39077867 ATTCTACTAC
Statistics
Matches: 590, Mismatches: 192, Indels: 18
0.74 0.24 0.02
Matches are distributed among these distances:
49 20 0.03
50 437 0.74
51 133 0.23
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
CGCCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC
Found at i:39077200 original size:100 final size:100
Alignment explanation
Indices: 39077026--39077866 Score: 1056
Period size: 100 Copynumber: 8.4 Consensus size: 100
39077016 TCAATCTGTT
* * ** * * **
39077026 CGCCAGGGAAGTAAGATTCACTGTCGTGGCTTCAATCTTTTTTACTGTAATGTCGGGAAAATAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAG
* *
39077091 ATTTGCCGTTGTAGCTTGAATCTGTTCCACTGCAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
39077126 CGCCAGGGAAGTAAGATTCTCTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAG
* * *
39077191 ATTCACCGTTGTAGTTTCAATCTGTTCCACTACAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
39077226 CGCCAGGGAAGTAAGATTCA-TCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAA
1 CGCCAGGGAAGTAAGATTCACT-GTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* * *
39077290 GATTTGCCGTTGTAGCTTCAATCTGTTCTACTTCAC
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * *
39077326 CACCTGAGAAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACCGCAATATCGGGGAAGCAA
1 CGCCAG-GGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
*
39077391 GATTCGCCGTTGTAGCTTCAATCTATTCCACTGCAC
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
39077427 CGCCTGGGAAAGTAAAATTCGCTGTT-TAGCTTCAATATTTTCAACTGCAATGTCGGGGAAGCAA
1 CGCCAGGG-AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* * * *
39077491 GATTCGCCGTTGTAGCTTCAATTTGTTCTATTGCAT
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* ** * * * *
39077527 CGCCAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTGAATTGCTATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAG
*
39077592 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * ** * *
39077627 CACCTGGGAAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGTAAGCAA
1 CGCCAGGG-AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* * *
39077692 GATTCGTCGTTGTAACTTCAATCTGTTCCATTGCAC
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
39077728 CGCCTGAGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
1 CGCCAG-GGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
* * *
39077793 GATTCACCGTTGTAGCTTCAATCTATTCCACTGTAC
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* *
39077829 CGCCAGGGAAGTAAGAATCACTGTTGTAACTTCAATCT
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCT
39077867 ATTCTACTAC
Statistics
Matches: 644, Mismatches: 90, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
99 15 0.02
100 354 0.55
101 273 0.42
102 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAG
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:39077582 original size:301 final size:302
Alignment explanation
Indices: 39077034--39077849 Score: 1177
Period size: 301 Copynumber: 2.7 Consensus size: 302
39077024 TTCGCCAGGG
* * ** * ** *
39077034 AAGTAAGATTCACTGTCGTGGCTTCAATCTTTTTTACTGTAATGTCGGGAAAATAAGATTTGCCG
1 AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGAAAGCAAGATTCGCCG
* * * *
39077099 TTGTAGCTTGAATCTGTTCCACTGCACCGCCAGGG-AAGTAAGATTCTCTGTTGTGGCTTCAATC
66 TTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATC
* * * *
39077163 TTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGTTTCAATCTGTTCCACTACACCG
131 TTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCG
* * * *
39077228 CCAGGGAAGTAAGATTCATCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGAT
196 CCAGGGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGAT
** * *
39077293 TTGCCGTTGTAGCTTCAATCTGTTCTACTTCACCACCTGAGA
261 TCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGAGA
* * *
39077335 AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACCGCAATATCGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGAAAGCAAGATTCGCCG
* * *
39077400 TTGTAGCTTCAATCTATTCCACTGCACCGCCTGGGAAAGTAAAATTCGCTGTT-TAGCTTCAATA
66 TTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATC
* * * * *
39077464 TTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATTTGTTCTATTGCATCG
131 TTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCG
* *
39077529 CCAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTGAATTGCTATGTCGGGGAAGCAAGAT
196 CCAGGGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGAT
*
39077594 TCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGGGA
261 TCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGAGA
** * * *
39077636 AAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGTAAGCAAGATTCGTCG
1 AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGAAAGCAAGATTCGCCG
* * *
39077701 TTGTAACTTCAATCTGTTCCATTGCACCGCCTGAGAAAGTAAGATTCGCTGTTGTAGCTTCAATC
66 TTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATC
* *
39077766 TTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGTACCG
131 TTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCG
*
39077831 CCAGGGAAGTAAGAATCAC
196 CCAGGGAAGTAAGATTCAC
39077850 TGTTGTAACT
Statistics
Matches: 453, Mismatches: 60, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
301 353 0.78
302 100 0.22
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (302 bp):
AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGAAAGCAAGATTCGCCG
TTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATC
TTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCG
CCAGGGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGAT
TCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGAGA
Found at i:39077885 original size:50 final size:49
Alignment explanation
Indices: 39077784--39077887 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 49
39077774 TGCAATGTCG
* * *
39077784 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGTACCGCCA
1 GGGAAGCAAGAATCACCGTTGTAACTTCAATCTATTCCAC-GTACAGCCA
* * *
39077834 GGGAAGTAAGAATCACTGTTGTAACTTCAATCTATTCTAC-TACAGAACCA
1 GGGAAGCAAGAATCACCGTTGTAACTTCAATCTATTCCACGTACAG--CCA
39077884 GGGA
1 GGGA
39077888 TATGAGATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.09
50 42 0.91
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (49 bp):
GGGAAGCAAGAATCACCGTTGTAACTTCAATCTATTCCACGTACAGCCA
Found at i:39078044 original size:132 final size:132
Alignment explanation
Indices: 39077893--39078212 Score: 478
Period size: 132 Copynumber: 2.4 Consensus size: 132
39077883 AGGGATATGA
*
39077893 GATCTACAATCTTCAACCTACTCCACTGTTGCTAAGGGAGATAGGACTAATGGCTTAAATCTACT
1 GATCTACAATCTTCGACCTACTCCACTGTTGCTAAGGGAGATAGGACTAATGGCTTAAATCTACT
* *
39077958 TCCCTACTACCTTAGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTACTTAGGGAGAC
66 TCCCTACTACCTTAGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACAACCTAGGGAGAC
39078023 AG
131 AG
* * ** * * ** * *
39078025 GATCTACAATTTTCGACCTATTCCACTACTGCTTAGAGAGATAGGACTGGTGGTTTAAATCTGCT
1 GATCTACAATCTTCGACCTACTCCACTGTTGCTAAGGGAGATAGGACTAATGGCTTAAATCTACT
* *
39078090 TCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACAACCTAGGGAGAC
66 TCCCTACTACCTTAGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACAACCTAGGGAGAC
39078155 AG
131 AG
* * *
39078157 GATCTACAATCTTCGACCTACTCCACTGTTGCTCAGGGAAATAGGACTAATTGCTT
1 GATCTACAATCTTCGACCTACTCCACTGTTGCTAAGGGAGATAGGACTAATGGCTT
39078213 CACCGATCTG
Statistics
Matches: 162, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
132 162 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
GATCTACAATCTTCGACCTACTCCACTGTTGCTAAGGGAGATAGGACTAATGGCTTAAATCTACT
TCCCTACTACCTTAGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACAACCTAGGGAGAC
AG
Found at i:39078467 original size:24 final size:23
Alignment explanation
Indices: 39078439--39078495 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
39078429 CAGATTGCCC
39078439 CCACTGTAATCTTCAAGGTCCAAT
1 CCACTGTAAT-TTCAAGGTCCAAT
* *
39078463 CCACTGTAA-TTCTATGTCCAAT
1 CCACTGTAATTTCAAGGTCCAAT
39078485 CCACTGTAATT
1 CCACTGTAATT
39078496 GAACCATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 20 0.67
23 1 0.03
24 9 0.30
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (23 bp):
CCACTGTAATTTCAAGGTCCAAT
Found at i:39079435 original size:14 final size:15
Alignment explanation
Indices: 39079411--39079452 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
39079401 GACCTCTCCT
*
39079411 TTTCTTTTTCTTTTC
1 TTTCTTCTTCTTTTC
39079426 -TTCTTCTTC-TTTC
1 TTTCTTCTTCTTTTC
*
39079439 TTTTTTCTTCTTTT
1 TTTCTTCTTCTTTT
39079453 TCCTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTCTTCTTTTC
Found at i:39079437 original size:20 final size:20
Alignment explanation
Indices: 39079412--39079450 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39079402 ACCTCTCCTT
39079412 TTCTTT-TTCTTTTCTTCTTC
1 TTCTTTCTT-TTTTCTTCTTC
39079432 TTCTTTCTTTTTTCTTCTT
1 TTCTTTCTTTTTTCTTCTT
39079451 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTTCTTTTTTCTTCTTC
Found at i:39079446 original size:17 final size:16
Alignment explanation
Indices: 39079412--39079471 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 16
39079402 ACCTCTCCTT
39079412 TTCTTTTTCTTTTCTTC
1 TTCTTTTTCTTTT-TTC
39079429 TTCTTCTTTCTTTTTTC
1 TTCTT-TTTCTTTTTTC
*
39079446 TTCTTTTTCCTTATTT-
1 TTCTTTTT-CTTTTTTC
39079462 TTCTTTTTCT
1 TTCTTTTTCT
39079472 CTCAATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 2 0.05
16 11 0.28
17 19 0.47
18 8 0.20
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTTCTTTTTTC
Found at i:39079462 original size:20 final size:20
Alignment explanation
Indices: 39079421--39079463 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39079411 TTTCTTTTTC
* *
39079421 TTTTCTTCTTCTTCTTTCTT
1 TTTTCTTCTTCTTCCTTATT
*
39079441 TTTTCTTCTTTTTCCTTATT
1 TTTTCTTCTTCTTCCTTATT
39079461 TTT
1 TTT
39079464 CTTTTTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTCTTCTTCCTTATT
Found at i:39088064 original size:5 final size:5
Alignment explanation
Indices: 39088054--39088092 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
39088044 GCCTAAGATG
* *
39088054 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
39088093 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:39093373 original size:2 final size:2
Alignment explanation
Indices: 39093366--39093423 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
39093356 GGAACTCAAG
*
39093366 GA GA GA GA GA GA GA CA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
39093408 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
39093424 ATAGATAATG
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:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:39099542 original size:18 final size:17
Alignment explanation
Indices: 39099509--39099547 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
39099499 TTGTATAAAT
39099509 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
39099527 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
39099544 TGTG
1 TGTG
39099548 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:39099807 original size:23 final size:23
Alignment explanation
Indices: 39099773--39099825 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
39099763 AGTGTTATTG
39099773 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
*
39099796 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
39099819 ATCAGTG
1 ATCAGTG
39099826 TGGCACTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGATAGCTTCGGCTACAT
Found at i:39104166 original size:54 final size:54
Alignment explanation
Indices: 39104099--39104290 Score: 384
Period size: 54 Copynumber: 3.6 Consensus size: 54
39104089 ATCCTTACAG
39104099 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
39104153 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
39104207 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
39104261 CGGGATTACCAGTCCAGGCTAAATCCCCTG
1 CGGGATTACCAGTCCAGGCTAAATCCCCTG
39104291 CAATGACAAT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 138 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
Done.