Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 28 of 322
Found at i:8325276 original size:95 final size:93
Alignment explanation
Indices: 8325163--8325393 Score: 354
Period size: 96 Copynumber: 2.5 Consensus size: 93
8325153 GAAAAATACG
*
8325163 TAAATTAAAATGAAAAGAAAGATAATTTAAATGAAATAAAAAAATTAAAGTAAAATGGAAAGAAA
1 TAAATTTAAATGAAAAGAAAGATAATTTAAATGAAATAAAAAAATTAAAGTAAAATGGAAAGAAA
* * *
8325228 GATAATTTAAATGAAATGAGTAAAGAAAT
66 AATAATTTAAATGAAATAAG-AAAAAAAT
* * *
8325257 TAAATTTAAATAGAAAAGAAAGATAATTTAAATGACATGAAAAAAATTAAATTAAAATGGAAATA
1 TAAATTTAAAT-GAAAAGAAAGATAATTTAAATGAAAT-AAAAAAATTAAAGTAAAATGGAAAGA
8325322 AAAATAATTTAAATGAAATAAGAAAAAAAT
64 AAAATAATTTAAATGAAATAAGAAAAAAAT
* *
8325352 TAAATTTAAATGAAAAAAAAGATAATTTAAATGAAATGAAAA
1 TAAATTTAAATGAAAAGAAAGATAATTTAAATGAAATAAAAA
8325394 TAATAAAAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
93 4 0.03
94 34 0.27
95 43 0.34
96 44 0.35
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (93 bp):
TAAATTTAAATGAAAAGAAAGATAATTTAAATGAAATAAAAAAATTAAAGTAAAATGGAAAGAAA
AATAATTTAAATGAAATAAGAAAAAAAT
Found at i:8325771 original size:19 final size:19
Alignment explanation
Indices: 8325747--8325796 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
8325737 CTTGTGATTA
8325747 ATATGAAAAAAAAAATTGT
1 ATATGAAAAAAAAAATTGT
*
8325766 ATATGAAGAAAAAAAATTTT
1 ATATGAA-AAAAAAAATTGT
8325786 A-ATGGAAAAAA
1 ATAT-GAAAAAA
8325797 TTACTAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (19 bp):
ATATGAAAAAAAAAATTGT
Found at i:8325990 original size:6 final size:5
Alignment explanation
Indices: 8325970--8326021 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
8325960 ATAATAATTT
* *
8325970 AAATG AAATAG AAATG TAAATG AAATG GAATGG AAATGG AAATT AAATG
1 AAATG AAAT-G AAATG -AAATG AAATG AAAT-G AAAT-G AAATG AAATG
8326019 AAA
1 AAA
8326022 AAAAAGTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 20 0.50
6 20 0.50
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:8325994 original size:11 final size:10
Alignment explanation
Indices: 8325970--8326021 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
8325960 ATAATAATTT
8325970 AAATGAAATAG
1 AAATGAAAT-G
8325981 AAATGTAAATG
1 AAATG-AAATG
*
8325992 AAATGGAATGG
1 AAATGAAAT-G
*
8326003 AAATGGAAATT
1 AAAT-GAAATG
8326014 AAATGAAA
1 AAATGAAA
8326022 AAAAAGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 7 0.20
11 20 0.57
12 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
AAATGAAATG
Found at i:8326005 original size:22 final size:22
Alignment explanation
Indices: 8325970--8326021 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
8325960 ATAATAATTT
*
8325970 AAATGAAATAGAAATGTAAATG
1 AAATGAAATAGAAATGGAAATG
* * *
8325992 AAATGGAATGGAAATGGAAATT
1 AAATGAAATAGAAATGGAAATG
8326014 AAATGAAA
1 AAATGAAA
8326022 AAAAAGTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (22 bp):
AAATGAAATAGAAATGGAAATG
Found at i:8329557 original size:20 final size:20
Alignment explanation
Indices: 8329534--8329583 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
8329524 TTTTTCATTT
8329534 CATTTAAATTATTTTTTCTC
1 CATTTAAATTATTTTTTCTC
8329554 CATTTAAATTATTTTTTCTC
1 CATTTAAATTATTTTTTCTC
*
8329574 AATTTAAATT
1 CATTTAAATT
8329584 TAATCTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (20 bp):
CATTTAAATTATTTTTTCTC
Found at i:8331904 original size:18 final size:18
Alignment explanation
Indices: 8331881--8331917 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8331871 AAGAATTCAC
8331881 AATGTTAGTAGATGTGAA
1 AATGTTAGTAGATGTGAA
8331899 AATGTTAGTAGATGTGAA
1 AATGTTAGTAGATGTGAA
8331917 A
1 A
8331918 TTCACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (18 bp):
AATGTTAGTAGATGTGAA
Found at i:8331947 original size:30 final size:30
Alignment explanation
Indices: 8331913--8331973 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
8331903 TTAGTAGATG
8331913 TGAAATTCACTTTTTCTACAGTAATTCTTT
1 TGAAATTCACTTTTTCTACAGTAATTCTTT
* *
8331943 TGAAATTCACTTTTTTTACAGTAATTGTTT
1 TGAAATTCACTTTTTCTACAGTAATTCTTT
8331973 T
1 T
8331974 ACTTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.52
Consensus pattern (30 bp):
TGAAATTCACTTTTTCTACAGTAATTCTTT
Found at i:8337684 original size:17 final size:17
Alignment explanation
Indices: 8337664--8337696 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8337654 TTCTTTTGTT
*
8337664 TTTTCTTTATTTATTTA
1 TTTTATTTATTTATTTA
8337681 TTTTATTTATTTATTT
1 TTTTATTTATTTATTT
8337697 TGTTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTATTTA
Found at i:8337687 original size:13 final size:13
Alignment explanation
Indices: 8337669--8337697 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8337659 TTGTTTTTTC
8337669 TTTATTTATTTAT
1 TTTATTTATTTAT
8337682 TTTATTTATTTAT
1 TTTATTTATTTAT
8337695 TTT
1 TTT
8337698 GTTTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:8337728 original size:14 final size:15
Alignment explanation
Indices: 8337701--8337733 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8337691 TTATTTTGTT
8337701 TTATAATATTTTAAA
1 TTATAATATTTTAAA
8337716 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
8337730 TTAT
1 TTAT
8337734 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:8338176 original size:17 final size:17
Alignment explanation
Indices: 8338154--8338196 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8338144 GCAACAGTAA
8338154 AAAAAAAATTGAAAAAG
1 AAAAAAAATTGAAAAAG
* * *
8338171 AAAAAACACTGAAAACG
1 AAAAAAAATTGAAAAAG
8338188 AAAAAAAAT
1 AAAAAAAAT
8338197 AAAAAAAAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAAAATTGAAAAAG
Found at i:8348270 original size:27 final size:25
Alignment explanation
Indices: 8348221--8348288 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
8348211 TACGTGTGGG
*
8348221 AAATATATATTTAAAATACTTAATA
1 AAATATATATTTAAAATAATTAATA
*
8348246 AAATATATGATTTGAAATTAATTAATCA
1 AAATATAT-ATTT-AAAATAATTAAT-A
* *
8348274 TAATA-ATATATAAAA
1 AAATATATATTTAAAA
8348289 AATGTATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 11 0.31
26 7 0.20
27 12 0.34
28 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (25 bp):
AAATATATATTTAAAATAATTAATA
Found at i:8365113 original size:46 final size:46
Alignment explanation
Indices: 8365040--8365312 Score: 368
Period size: 46 Copynumber: 5.9 Consensus size: 46
8365030 TTTCTGAAAT
*
8365040 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATCATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* *
8365086 AAAATCTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
8365132 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
** * *
8365178 GAAATGTGTAAGACCATGGTTGAAAGATACCATGAAAACATGACAGG
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-C
** * *
8365225 GAAATGAATAAGACGATGGTTGAAAGATACCATGGCAACATGACA-
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
* * * * * *
8365270 GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCATCATG
1 G-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
8365313 TCGAAGATAA
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 163 0.80
47 40 0.20
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAC
Found at i:8370438 original size:62 final size:62
Alignment explanation
Indices: 8370372--8370555 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
8370362 CACGTATCTC
*
8370372 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
*
8370434 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* * *
8370496 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACG
8370556 TCGAGTTTAG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (62 bp):
TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:8371821 original size:11 final size:11
Alignment explanation
Indices: 8371798--8371847 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
8371788 GGCCAAAAAA
8371798 AAAAGAACAAAT
1 AAAA-AACAAAT
*
8371810 AAAAACCAAAT
1 AAAAAACAAAT
8371821 AAAAAACAAA-
1 AAAAAACAAAT
8371831 AGCAAAAACAAA-
1 A--AAAAACAAAT
8371843 AAAAA
1 AAAAA
8371848 CTCTACCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 5 0.15
11 15 0.44
12 14 0.41
ACGTcount: A:0.80, C:0.12, G:0.04, T:0.04
Consensus pattern (11 bp):
AAAAAACAAAT
Found at i:8372276 original size:6 final size:6
Alignment explanation
Indices: 8372267--8372317 Score: 50
Period size: 6 Copynumber: 7.8 Consensus size: 6
8372257 AAAAAAAACG
8372267 AAAAGA AAAATGAA AAAATGAA AAAAGA AAATA-A AAAAGA AAAAGA AAAAG
1 AAAAGA AAAA-G-A AAAA-G-A AAAAGA AAA-AGA AAAAGA AAAAGA AAAAG
8372318 GAGAGGCCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 1 0.02
6 24 0.59
7 3 0.07
8 13 0.32
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (6 bp):
AAAAGA
Found at i:8372281 original size:12 final size:13
Alignment explanation
Indices: 8372267--8372316 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
8372257 AAAAAAAACG
*
8372267 AAAAGAAAAATGAA
1 AAAAGAAAAAAG-A
8372281 AAAATGAAAAAAG-
1 AAAA-GAAAAAAGA
*
8372294 AAAATAAAAAAGA
1 AAAAGAAAAAAGA
8372307 AAAAGAAAAA
1 AAAAGAAAAA
8372317 GGAGAGGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 13 0.42
14 4 0.13
15 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:8373400 original size:44 final size:45
Alignment explanation
Indices: 8373352--8373809 Score: 219
Period size: 44 Copynumber: 10.4 Consensus size: 45
8373342 GTATTGGCGT
*
8373352 GAAGTAGATCAAAGATAACAGGTC-CGATCTTCCTATATTGGTAG-
1 GAAGTAGATCAAAGATAACAGATCTCG-TCTTCCTATATTGGTAGC
* * * * *
8373396 GAAGTGGATCAAAGAT-ATAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCAAAGATAACAGATCTCGTCTTCCTATATTGGTAGC
* * * * * *
8373440 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCAAAGATAA-CAGATCTCGTCTTCCTATATTGGTAGC
* * * *
8373484 GAAGTAGATCGAAGGTAGCAGATC-CTATCTTCCTATATTGGTAG-
1 GAAGTAGATCAAAGATAACAGATCTC-GTCTTCCTATATTGGTAGC
* * * * *
8373528 GAAGTGGATCGAAA-AT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATC-AAAGATAACAGATCTCGTCTTCCTATATTGGTAGC
*** * * * * *
8373572 GAAGTAGATTGCAGA-AAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCAAAGATAA-CAGATCTCGTCTTCCTATATTGGTAGC
* * *
8373616 GAAGTAGATCGAAGGTAGCAGATC-CGGTCTTCCTATATTGGTAG-
1 GAAGTAGATCAAAGATAACAGATCTC-GTCTTCCTATATTGGTAGC
* ** * * * * * *
8373660 GAAGTGGATTGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGATAACAGATCTCGTCTTCCTATATTGGTAGC
* ** * * * *
8373704 GAAGTAGATCGAAGA-AAGCAGATCTTATCTTCATGTATTGGCA-T
1 GAAGTAGATCAAAGATAA-CAGATCTCGTCTTCCTATATTGGTAGC
* ** * * * * *
8373748 GAAGTAGATCGAAGATTGCAAATCTTGTCTCCCTGTATTTGGCAGC
1 GAAGTAGATCAAAGATAACAGATCTCGTCTTCCTATA-TTGGTAGC
*
8373794 GAAGCAGATCAAAGAT
1 GAAGTAGATCAAAGAT
8373810 GGCAGATTTT
Statistics
Matches: 316, Mismatches: 75, Indels: 44
0.73 0.17 0.10
Matches are distributed among these distances:
43 65 0.21
44 168 0.53
45 69 0.22
46 14 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCAAAGATAACAGATCTCGTCTTCCTATATTGGTAGC
Found at i:8373471 original size:88 final size:89
Alignment explanation
Indices: 8373379--8373777 Score: 396
Period size: 88 Copynumber: 4.5 Consensus size: 89
8373369 ACAGGTCCGA
* * *
8373379 TCTTCCTATATTGGTAGGAAGTGGATCAAAGATA-TAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAA
8373443 GTAGATCGAAGAAAGCAGATCTTG
66 GTAGATCGAAGAAAGCAGATCTTG
* * * * * * * *
8373467 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GA
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGA
* *
8373530 AGTGGATCGAA-AATGCAGATCTTG
65 AGTAGATCGAAGAAAGCAGATCTTG
* * * * * *** * *
8373554 TCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGA
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGA
** **
8373618 AGTAGATCGAAGGTAGCAGATCCGG
65 AGTAGATCGAAGAAAGCAGATCTTG
* * * *
8373643 TCTTCCTATATTGGTAGGAAGTGGATTGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAA
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAA
*
8373707 GTAGATCGAAGAAAGCAGATCTTA
66 GTAGATCGAAGAAAGCAGATCTTG
* * * * * *
8373731 TCTTCATGTATTGGCATGAAGTAGATCGAAGATTGCAAATCTTGTCT
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTGTCT
8373778 CCCTGTATTT
Statistics
Matches: 246, Mismatches: 58, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
87 45 0.18
88 145 0.59
89 56 0.23
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (89 bp):
TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAA
GTAGATCGAAGAAAGCAGATCTTG
Found at i:8373559 original size:132 final size:132
Alignment explanation
Indices: 8373322--8373761 Score: 711
Period size: 132 Copynumber: 3.3 Consensus size: 132
8373312 TGAAGTCATT
* * * * *
8373322 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCGATCTTCCTA
**
8373387 TATTGGTAGGAAGTGGATC-AAAGATATAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
66 TATTGGTAGGAAGTGGATCGAAA-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
8373451 AAG
130 AAG
*
8373454 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCGATCTTCCTA
* *
8373519 TATTGGTAGGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGC
66 TATTGGTAGGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
8373584 AG
131 AG
*
8373586 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCGGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCGATCTTCCTA
* ** *
8373651 TATTGGTAGGAAGTGGATTGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
8373716 AG
131 AG
* *
8373718 AAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
8373762 ATTGCAAATC
Statistics
Matches: 287, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 284 0.99
133 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCGATCTTCCTA
TATTGGTAGGAAGTGGATCGAAAATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:8373826 original size:46 final size:46
Alignment explanation
Indices: 8373776--8374096 Score: 167
Period size: 46 Copynumber: 7.2 Consensus size: 46
8373766 CAAATCTTGT
* *
8373776 CTCCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGCGAAGTAGATTAAAGATGGCAGATTTTAC
*** * * * ** ** * * *
8373822 CTCCCTG-A--CCACAGTGGAGTACATTAAAGCCGATA-ACTCTAT
1 CTCCCTGTATTTGGCAGCGAAGTAGATTAAAGATGGCAGATTTTAC
* * * * *
8373864 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAG-CGAAGTAGATTAAAGATGGCAGATTTTAC
* * *
8373910 CTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGCGAAGTAGATTAAAGATGGCAGATTTTAC
*** * * * * ** ** * * *
8373956 CTCCCTG-A--CCACAGTGGAGTACATTGAAGCCGATA-ACTCTAT
1 CTCCCTGTATTTGGCAGCGAAGTAGATTAAAGATGGCAGATTTTAC
* * *
8373998 CTCCCTGTATTTGGCAGTGGAA-TAGATTAAAGATTGCAGATCTTAC
1 CTCCCTGTATTTGGCAG-CGAAGTAGATTAAAGATGGCAGATTTTAC
* * *
8374044 CTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGCGAAGTAGATTAAAGATGGCAGATTTTAC
8374090 CTCCCTG
1 CTCCCTG
8374097 ACCACAGTGG
Statistics
Matches: 183, Mismatches: 80, Indels: 24
0.64 0.28 0.08
Matches are distributed among these distances:
42 22 0.12
43 31 0.17
45 32 0.17
46 98 0.54
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGCGAAGTAGATTAAAGATGGCAGATTTTAC
Found at i:8373992 original size:134 final size:134
Alignment explanation
Indices: 8373737--8374165 Score: 738
Period size: 134 Copynumber: 3.2 Consensus size: 134
8373727 CTTATCTTCA
* * * *
8373737 TGTA-TTGGCA-T-GAAGTAGATCGAAGATTGCAAATCTTGTCTCCCTGTATTTGGCAGCGAAGC
1 TGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
8373799 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTAT
65 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTAT
8373864 CTCCC
130 CTCCC
8373869 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
*
8373934 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATC
66 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTATC
8373999 TCCC
131 TCCC
* *
8374003 TGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
8374068 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTATC
66 GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTATC
*
8374133 TCTC
131 TCCC
* *
8374137 TGCATTTGGCAGTAGAATAGATTGAAGAT
1 TGTATTTGGCAGTGGAATAGATTGAAGAT
8374166 CAAAGATGGC
Statistics
Matches: 282, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
132 4 0.01
133 6 0.02
134 269 0.95
135 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (134 bp):
TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
GATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTATC
TCCC
Found at i:8374175 original size:95 final size:95
Alignment explanation
Indices: 8374067--8374260 Score: 320
Period size: 95 Copynumber: 2.0 Consensus size: 95
8374057 GCAGCGAAGC
8374067 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACA-GTGGAGTACATTAAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACATG-GGAGTACATTAAAGCCGATAACTCTA
8374131 TCT-CTCTGCATTTGGCAGTAGAATAGATTGA
65 TCTCCT-TGCATTTGGCAGTAGAATAGATTGA
* *
8374162 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACATGGGAGTACATTAAAGCCGATAACTCTAT
* *
8374227 CTCCTTGTATTTGGCAGTGGAATAGATTGA
66 CTCCTTGCATTTGGCAGTAGAATAGATTGA
8374257 AGAT
1 AGAT
8374261 TGCAGATCTT
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
95 90 0.97
96 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACATGGGAGTACATTAAAGCCGATAACTCTAT
CTCCTTGCATTTGGCAGTAGAATAGATTGA
Found at i:8374189 original size:229 final size:229
Alignment explanation
Indices: 8373933--8374363 Score: 720
Period size: 229 Copynumber: 1.9 Consensus size: 229
8373923 GCAGCGAAGC
8373933 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACA-GTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACATG-GGAGTACATTGAAGCCGATAACTCTA
8373997 TCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGC
65 TCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGC
* *
8374062 GAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAAC
130 AAAGCAGATCAAAGATGGAAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAAC
8374127 TCTATCTCTCTGCATTTGGCAGTAGAATAGATTGA
195 TCTATCTCTCTGCATTTGGCAGTAGAATAGATTGA
*
8374162 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACATGGGAGTACATTGAAGCCGATAACTCTAT
* * *
8374227 CTCCTTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
66 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCA
* * ** * * **
8374292 AAGCAGATCGAAGATGGAAGATTTTACCTCCTTGATTACAGTGGAGTACATTGAAGCTGATAGTT
131 AAGCAGATCAAAGATGGAAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACT
8374357 CTATCTC
196 CTATCTC
8374364 CCGGGGCAAG
Statistics
Matches: 187, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
229 186 0.99
230 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACATGGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCA
AAGCAGATCAAAGATGGAAGATTTTACCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACT
CTATCTCTCTGCATTTGGCAGTAGAATAGATTGA
Found at i:8374421 original size:44 final size:44
Alignment explanation
Indices: 8374373--8374815 Score: 436
Period size: 44 Copynumber: 10.1 Consensus size: 44
8374363 CCCGGGGCAA
* * * *
8374373 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * * * *
8374417 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * * * *
8374460 CGAAGTAGATCGCAA-AAAACAGATCTTGTCTTCATGTATTGG-CG
1 -GAAGTAGATCG-AAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * *
8374504 TGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * *
8374549 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * *
8374592 CGAAGTAGATC-ACAGAAAGCAGATCTTGTCTTCATGTATTGGT-G
1 -GAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * * *
8374636 TGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG
1 -GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * *
8374681 GAAGTGGATCCAAGAT-GCAGATCTTGTCTTCCCATATTGGT-G
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * *
8374723 GAAGTAGATCGAAGAAAGCAGATCTTGTATTCATATATTGGT-G
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
* * *
8374766 TGAAATAGATCGAAGATAGCAGATCCTGCCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
8374811 GAAGT
1 GAAGT
8374816 GGATTGAAAA
Statistics
Matches: 321, Mismatches: 65, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
42 14 0.04
43 89 0.28
44 171 0.53
45 47 0.15
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG
Found at i:8374615 original size:132 final size:132
Alignment explanation
Indices: 8374373--8374819 Score: 711
Period size: 132 Copynumber: 3.4 Consensus size: 132
8374363 CCCGGGGCAA
* * * *
8374373 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAAGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* * * *
8374438 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAAAAAACAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGT
8374503 GT
131 GT
*
8374505 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
8374570 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGT
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGT
8374635 GT
131 GT
* * *
8374637 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* *
8374702 TCTTGTCTTCCCATATTGGT-G-GAAGTAGATCGA-AGAAAGCAGATCTTGTATTCATATATTGG
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATC-ACAGAAAGCAGATCTTGTCTTCATGTATTGG
8374764 TGT
130 TGT
* **
8374767 GAAATAGATCGAAGATAGCAGATCCTGCCTTCCTATATTGGTAGGAAGTGGAT
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGAT
8374820 TGAAAAACAG
Statistics
Matches: 296, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
130 88 0.30
131 2 0.01
132 206 0.70
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGT
GT
Found at i:8375016 original size:40 final size:40
Alignment explanation
Indices: 8374972--8375123 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
8374962 AGATTACAGA
* *
8374972 TCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAAG
* * * *
8375012 TCTTATCTCCCTAAGCAGTAGCGGAG-AGGA-AGAAACCACAG
1 TCTTATCTCCCTAAGTAGTAGTGGAGCA-GATCG-CACCA-AG
* *
8375053 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAG
1 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAAG
*
8375094 TCTTATCTCCCTAAATAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
8375124 CTAAAAACAC
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
39 2 0.02
40 57 0.61
41 4 0.04
42 29 0.31
43 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAAG
Found at i:8375114 original size:82 final size:82
Alignment explanation
Indices: 8374967--8375119 Score: 243
Period size: 82 Copynumber: 1.9 Consensus size: 82
8374957 ATTGAAGATT
* * *
8374967 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCACACCAAGTCTTATCTCCCTAAACAGTA
8375032 GCGGAGAGGAAGAAACC
66 GCGGAGAGGAAGAAACC
* * *
8375049 ACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAGTCTTATCTCCCTAAATAGTA
1 ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCACACCAAGTCTTATCTCCCTAAACAGTA
*
8375114 GTGGAG
66 GCGGAG
8375120 CAGACTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (82 bp):
ACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGATCACACCAAGTCTTATCTCCCTAAACAGTA
GCGGAGAGGAAGAAACC
Found at i:8383134 original size:104 final size:105
Alignment explanation
Indices: 8382970--8383161 Score: 278
Period size: 104 Copynumber: 1.8 Consensus size: 105
8382960 TTTGTATTCT
* *
8382970 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTG---AATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
*
8383035 ATCCGTTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
63 ATCCATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
** * *
8383078 AGCAAAATTTGCTATCTTG-ATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTTGTC
1 AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
*
8383142 CATTTTGATAATCTTTTTCA
66 CATTGTGATAATCTTTTTCA
8383162 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
104 57 0.75
108 19 0.25
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.47
Consensus pattern (105 bp):
AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
CATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
Found at i:8384045 original size:40 final size:40
Alignment explanation
Indices: 8383982--8384294 Score: 294
Period size: 40 Copynumber: 7.7 Consensus size: 40
8383972 NNNNNNNNNN
* * * *
8383982 GTCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAA
1 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACCAA
* *
8384022 GTCTCATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACA
1 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAACCA-A
* *
8384063 GATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCAA
1 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACCAA
**
8384104 GTCTTATCTCCCTAAGCAGTAACGGAG-AGGA-CGAAACCACA
1 GTCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCG-AACCA-A
* * *
8384145 GATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAA
1 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACCAA
* * * *
8384186 GTCTTATCTCCTTAAGCAGTAGCGGGGCAGA-AGAAACCACA
1 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AACCA-A
* *
8384227 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-ACACCCA
1 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ACCAA
* **
8384268 GTCTTATCTTCCTAAATAGTAGTGGAG
1 GTCTTATCTCCCTAAGCAGTAGTGGAG
8384295 TAGACTAAAA
Statistics
Matches: 224, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
39 5 0.02
40 113 0.50
41 13 0.06
42 89 0.40
43 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (40 bp):
GTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACCAA
Found at i:8384120 original size:82 final size:82
Alignment explanation
Indices: 8383983--8384314 Score: 427
Period size: 82 Copynumber: 4.0 Consensus size: 82
8383973 NNNNNNNNNG
* * * *
8383983 TCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCAAGTCTTATCTCCCTAAGCAGTAGCGGA
8384048 GCAGACAAAACCACAGA
66 GCAGACAAAACCACAGA
*
8384065 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCAAGTCTTATCTCCCTAAGCAGTAACGGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCAAGTCTTATCTCCCTAAGCAGTAGCGGA
*
8384130 G-AGGACGAAACCACAGA
66 GCA-GACAAAACCACAGA
* * *
8384147 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCTTAAGCAGTAGCGGG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCAAGTCTTATCTCCCTAAGCAGTAGCGGA
8384212 GCAGA-AGAAACCACAGA
66 GCAGACA-AAACCACAGA
* * * * * ** *
8384229 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-ACACCCAGTCTTATCTTCCTAAATAGTAGTGG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGA-ATCAAGTCTTATCTCCCTAAGCAGTAGCGG
* * *
8384293 AGTAGACTAAAAACACAAA
65 AGCAGAC-AAAACCACAGA
8384312 TCT
1 TCT
8384315 CATCCCCATG
Statistics
Matches: 219, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
81 1 0.00
82 205 0.94
83 12 0.05
84 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCAAGTCTTATCTCCCTAAGCAGTAGCGGA
GCAGACAAAACCACAGA
Found at i:8384254 original size:164 final size:164
Alignment explanation
Indices: 8383983--8384282 Score: 478
Period size: 164 Copynumber: 1.8 Consensus size: 164
8383973 NNNNNNNNNG
* *
8383983 TCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGCGGA
*
8384048 GCAGACAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGA-ATCAAGTCTTATC
66 GCAGACAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC-ACACCAAGTCTTATC
8384112 TCCCTAAGCAGTAACGGAGAGGACGAAACCACAGA
130 TCCCTAAGCAGTAACGGAGAGGACGAAACCACAGA
* * *
8384147 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCTTAAGCAGTAGCGGG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGCGGA
* * *
8384212 GCAGA-AGAAACCACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAGTCTTATC
66 GCAGACA-AAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACACCAAGTCTTATC
*
8384276 TTCCTAA
130 TCCCTAA
8384283 ATAGTAGTGG
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
163 2 0.02
164 122 0.98
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (164 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGCGGA
GCAGACAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCACACCAAGTCTTATCT
CCCTAAGCAGTAACGGAGAGGACGAAACCACAGA
Found at i:8386067 original size:12 final size:12
Alignment explanation
Indices: 8386052--8386076 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8386042 AATATTTTTA
8386052 TATACATATTAT
1 TATACATATTAT
8386064 TATACATATTAT
1 TATACATATTAT
8386076 T
1 T
8386077 CTCATTGAGT
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:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TATACATATTAT
Found at i:8389121 original size:9 final size:9
Alignment explanation
Indices: 8389107--8389183 Score: 95
Period size: 9 Copynumber: 8.6 Consensus size: 9
8389097 ATAAGTATAA
8389107 AATTAACCG
1 AATTAACCG
8389116 AATTAACCG
1 AATTAACCG
*
8389125 AATTAATCG
1 AATTAACCG
8389134 AATTAACCG
1 AATTAACCG
8389143 AATT-ACACG
1 AATTAAC-CG
8389152 AATT-ACACG
1 AATTAAC-CG
*
8389161 AATTAATCG
1 AATTAACCG
*
8389170 AATTAACAG
1 AATTAACCG
8389179 AATTA
1 AATTA
8389184 TTTGTATAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 2 0.03
9 58 0.95
10 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:8389215 original size:5 final size:6
Alignment explanation
Indices: 8389200--8389240 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
8389190 TAAATTATAT
*
8389200 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
8389241 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:8389290 original size:18 final size:18
Alignment explanation
Indices: 8389267--8389301 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8389257 TTTTTATGAT
8389267 TGGGTTGGGTAATTGGGG
1 TGGGTTGGGTAATTGGGG
*
8389285 TGGGTTGGGTACTTGGG
1 TGGGTTGGGTAATTGGG
8389302 TTAATATATA
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:0.09, C:0.03, G:0.54, T:0.34
Consensus pattern (18 bp):
TGGGTTGGGTAATTGGGG
Found at i:8397176 original size:16 final size:17
Alignment explanation
Indices: 8397155--8397186 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8397145 AAATATGCAA
8397155 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
8397171 TCACATAACTTCATAT
1 TCACATAACTTCATAT
8397187 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:8397413 original size:43 final size:43
Alignment explanation
Indices: 8397347--8397517 Score: 210
Period size: 43 Copynumber: 4.0 Consensus size: 43
8397337 GACTCGTACA
*
8397347 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
8397390 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * *
8397431 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATA-TCG
*
8397474 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
8397517 A
1 A
8397518 AAATCCTATG
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
41 28 0.25
42 16 0.15
43 61 0.55
44 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:8397488 original size:84 final size:84
Alignment explanation
Indices: 8397347--8397504 Score: 232
Period size: 84 Copynumber: 1.9 Consensus size: 84
8397337 GACTCGTACA
* * *
8397347 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAC-GTGG
8397411 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
*
8397431 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACGTG
8397494 GTCTTACACGA
64 GTCTTACACGA
8397505 TAACATATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 2 0.03
84 63 0.94
85 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:8399873 original size:24 final size:24
Alignment explanation
Indices: 8399837--8399885 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
8399827 CGATTGAAAC
8399837 TAACCTTGCTGTGCCAAGTTCAAA
1 TAACCTTGCTGTGCCAAGTTCAAA
*
8399861 TAACCTTGTTGTGCCAAGTTCAAA
1 TAACCTTGCTGTGCCAAGTTCAAA
8399885 T
1 T
8399886 CTTTCTCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (24 bp):
TAACCTTGCTGTGCCAAGTTCAAA
Found at i:8405769 original size:19 final size:19
Alignment explanation
Indices: 8405745--8405782 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8405735 TGAAAAAGAG
*
8405745 TTACATTGAAACATCAAAC
1 TTACATCGAAACATCAAAC
8405764 TTACATCGAAACATCAAAC
1 TTACATCGAAACATCAAAC
8405783 AACATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (19 bp):
TTACATCGAAACATCAAAC
Found at i:8406044 original size:136 final size:136
Alignment explanation
Indices: 8405800--8406077 Score: 502
Period size: 136 Copynumber: 2.0 Consensus size: 136
8405790 ATACCCTAGG
* *
8405800 ATAGAGGTGTAGAGCCAAAGAAATGCACAAACACCTGAAGCAAGACCAATCCTTGTCTCAGGGAA
1 ATAGAGGTGTAGAGCCAAAGAAATGCACAAACACCTGAAGCAAGACAAATCCTTGTCTCAAGGAA
* *
8405865 ACTTTGCTCATCAACTAGAGAAGTAATAGATTTAACAGTTTCCAATGAGCATAATGTAGGTGTCG
66 ACTTTGCTCATCAACTAGAGAAGCAATAGATTTAACAGTTTCCAATGAGCATAATATAGGTGTCG
8405930 AAGAAA
131 AAGAAA
8405936 ATAGAGGTGTAGAGCCAAAGAAATGCACAAACACCTGAAGCAAGACAAATCCTTGTCTCAAGGAA
1 ATAGAGGTGTAGAGCCAAAGAAATGCACAAACACCTGAAGCAAGACAAATCCTTGTCTCAAGGAA
* *
8406001 ACTTTGCTCATCAACTAGAGCAGCAATCGATTTAACAGTTTCCAATGAGCATAATATAGGTGTCG
66 ACTTTGCTCATCAACTAGAGAAGCAATAGATTTAACAGTTTCCAATGAGCATAATATAGGTGTCG
8406066 AAGAAA
131 AAGAAA
8406072 ATAGAG
1 ATAGAG
8406078 AACCCAAGTG
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (136 bp):
ATAGAGGTGTAGAGCCAAAGAAATGCACAAACACCTGAAGCAAGACAAATCCTTGTCTCAAGGAA
ACTTTGCTCATCAACTAGAGAAGCAATAGATTTAACAGTTTCCAATGAGCATAATATAGGTGTCG
AAGAAA
Found at i:8408478 original size:24 final size:24
Alignment explanation
Indices: 8408433--8408479 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8408423 AAAAAAACTA
* *
8408433 AACCCTGAAAACCTGAAAACAAAG
1 AACCCTCAAAACATGAAAACAAAG
8408457 AACCCTCAAAACAT-AAACACAAA
1 AACCCTCAAAACATGAAA-ACAAA
8408480 ATTCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.57, C:0.28, G:0.06, T:0.09
Consensus pattern (24 bp):
AACCCTCAAAACATGAAAACAAAG
Found at i:8414728 original size:48 final size:47
Alignment explanation
Indices: 8414676--8414903 Score: 195
Period size: 48 Copynumber: 4.7 Consensus size: 47
8414666 TACAACAGCT
* *
8414676 AGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCTG-GACATGGCATCGGCATCAATATGAGAGCC
* * * ** * *** * *
8414724 AGTGTAAAACCATATTTGGAACATAACATTGGCATTGTTAAGAGAGCT
1 AGTGTAAGACCATGTCTGG-ACATGGCATCGGCATCAATATGAGAGCC
* *
8414772 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCATCAATATGAGAGCC
* * * * * * * *
8414820 AGTGTAAGACCATGTTTGGTACATGGCATTGACATTATTACGAGAACT
1 AGTGTAAGACCATGTCTGG-ACATGGCATCGGCATCAATATGAGAGCC
*
8414868 AGTGTAAGACCATGTCTGGGACATGGCATCGACATC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCATC
8414904 TTACCTTTTT
Statistics
Matches: 137, Mismatches: 39, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
47 3 0.02
48 130 0.95
49 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGACATGGCATCGGCATCAATATGAGAGCC
Found at i:8414781 original size:96 final size:96
Alignment explanation
Indices: 8414617--8414898 Score: 413
Period size: 96 Copynumber: 2.9 Consensus size: 96
8414607 ACGCTGGGGT
* * * * *
8414617 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACGTAACATCGGGACTGTTACA-ACAGCTAGTGT
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTA-AGAGAGCTAGTGT
*
8414681 AAGACCATGTCTGAGACATGGCATCGGCCTCA
65 AAGACCATGTCTGGGACATGGCATCGGCCTCA
* *
8414713 ATATGTGAGCCAGTGTAAAACCATATTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
8414778 AGACCATGTCTGGGACATGGCATCGGCCTCA
66 AGACCATGTCTGGGACATGGCATCGGCCTCA
* ** * * * *
8414809 ATATGTGAGCCAGTGTAAGACCATGTTTGGTACATGGCATTGACATTATTACGAGAACTAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
8414874 AGACCATGTCTGGGACATGGCATCG
66 AGACCATGTCTGGGACATGGCATCG
8414899 ACATCTTACC
Statistics
Matches: 168, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
95 1 0.01
96 167 0.99
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (96 bp):
ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
AGACCATGTCTGGGACATGGCATCGGCCTCA
Found at i:8417563 original size:48 final size:47
Alignment explanation
Indices: 8417511--8417738 Score: 195
Period size: 48 Copynumber: 4.7 Consensus size: 47
8417501 TACAACAGCT
* *
8417511 AGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCTG-GACATGGCATCGGCATCAATATGAGAGCC
* * * ** * *** * *
8417559 AGTGTAAAACCATATTTGGAACATAACATTGGCATTGTTAAGAGAGCT
1 AGTGTAAGACCATGTCTGG-ACATGGCATCGGCATCAATATGAGAGCC
* *
8417607 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCATCAATATGAGAGCC
* * * * * * * *
8417655 AGTGTAAGACCATGTTTGGTACATGGCATTGACATTATTACGAGAACT
1 AGTGTAAGACCATGTCTGG-ACATGGCATCGGCATCAATATGAGAGCC
*
8417703 AGTGTAAGACCATGTCTGGGACATGGCATCGACATC
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCATC
8417739 TTACCTTTTT
Statistics
Matches: 137, Mismatches: 39, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
47 3 0.02
48 130 0.95
49 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGACATGGCATCGGCATCAATATGAGAGCC
Found at i:8417616 original size:96 final size:96
Alignment explanation
Indices: 8417452--8417733 Score: 413
Period size: 96 Copynumber: 2.9 Consensus size: 96
8417442 ACGCTGGGGT
* * * * *
8417452 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACGTAACATCGGGACTGTTACA-ACAGCTAGTGT
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTA-AGAGAGCTAGTGT
*
8417516 AAGACCATGTCTGAGACATGGCATCGGCCTCA
65 AAGACCATGTCTGGGACATGGCATCGGCCTCA
* *
8417548 ATATGTGAGCCAGTGTAAAACCATATTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
8417613 AGACCATGTCTGGGACATGGCATCGGCCTCA
66 AGACCATGTCTGGGACATGGCATCGGCCTCA
* ** * * * *
8417644 ATATGTGAGCCAGTGTAAGACCATGTTTGGTACATGGCATTGACATTATTACGAGAACTAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
8417709 AGACCATGTCTGGGACATGGCATCG
66 AGACCATGTCTGGGACATGGCATCG
8417734 ACATCTTACC
Statistics
Matches: 168, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
95 1 0.01
96 167 0.99
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (96 bp):
ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATAACATTGGCATTGTTAAGAGAGCTAGTGTA
AGACCATGTCTGGGACATGGCATCGGCCTCA
Found at i:8419886 original size:17 final size:17
Alignment explanation
Indices: 8419866--8419900 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8419856 TATATACATA
8419866 CATTTATCTTATTT-TAT
1 CATTTATC-TATTTATAT
8419883 CATTTATCTATTTATAT
1 CATTTATCTATTTATAT
8419900 C
1 C
8419901 CTTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (17 bp):
CATTTATCTATTTATAT
Found at i:8419963 original size:12 final size:11
Alignment explanation
Indices: 8419935--8419970 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8419925 GTTTATTTAT
*
8419935 TTATTTTATTA
1 TTATATTATTA
8419946 TTATATTATTA
1 TTATATTATTA
8419957 TTAATATTATTA
1 TT-ATATTATTA
8419969 TT
1 TT
8419971 CTTAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATATTATTA
Found at i:8429531 original size:21 final size:22
Alignment explanation
Indices: 8429505--8429551 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
8429495 CTCTGCTCAA
*
8429505 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
8429526 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
8429548 ACTC
1 ACTC
8429552 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:8445919 original size:42 final size:41
Alignment explanation
Indices: 8445858--8446018 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 41
8445848 TAGGGTTATG
8445858 TGTGATTTCTTGTAAGACCATATCTGGGATATGGCATCAATA
1 TGTGATTTC-TGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
8445900 TTTGATTTCGCGTAAGACCATGTCTGGGACATGGCATCAATA
1 TGTGATTTC-TGTAAGACCATATCTGGGATATGGCATCAATA
* * * * *
8445942 CGAGATATCAGTAAGACCATAGT-TGGGCTATCGGCATCGATATA
1 TGTGATTTCTGTAAGACCATA-TCTGGGATAT-GGCATC-A-ATA
**
8445986 TGTGATCCCATGTAAGACCATATCTGGGATATG
1 TGTGATTTC-TGTAAGACCATATCTGGGATATG
8446019 ACATTGACGT
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
41 16 0.17
42 49 0.52
43 1 0.01
44 10 0.11
45 18 0.19
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (41 bp):
TGTGATTTCTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:8447064 original size:42 final size:43
Alignment explanation
Indices: 8446974--8447064 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 43
8446964 CTTCGTTTTC
** *
8446974 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATAA
* *
8447017 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-A
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATAA
8447058 TCGATGC
1 TCGATGC
8447065 TCCTTGATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 2 0.05
42 39 0.93
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (43 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATAA
Found at i:8454853 original size:14 final size:14
Alignment explanation
Indices: 8454834--8454877 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
8454824 CTTTCATTAC
8454834 TTGATTTTTCATAA
1 TTGATTTTTCATAA
*
8454848 TTGATTTTTCAATAT
1 TTGATTTTTC-ATAA
*
8454863 TTAATTTTTCA-AA
1 TTGATTTTTCATAA
8454876 TT
1 TT
8454878 ACCAAAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 3 0.12
14 11 0.42
15 12 0.46
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (14 bp):
TTGATTTTTCATAA
Found at i:8457848 original size:30 final size:30
Alignment explanation
Indices: 8457812--8457877 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
8457802 CCATGTTATA
*
8457812 ACCCATCTGACCACCCA-TTGGACCCATGTG
1 ACCCATCTGACCACCCATTTGG-CCCATCTG
8457842 ACCCATCTGACCACCCATTTGGCCCATCTG
1 ACCCATCTGACCACCCATTTGGCCCATCTG
*
8457872 CCCCAT
1 ACCCAT
8457878 ATTCTTACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.21, C:0.44, G:0.14, T:0.21
Consensus pattern (30 bp):
ACCCATCTGACCACCCATTTGGCCCATCTG
Found at i:8458510 original size:12 final size:12
Alignment explanation
Indices: 8458493--8458574 Score: 103
Period size: 12 Copynumber: 6.8 Consensus size: 12
8458483 GACCAAATTC
8458493 CTCATCATCAAA
1 CTCATCATCAAA
**
8458505 CTCATCATC-TT
1 CTCATCATCAAA
8458516 CATCATCATCAAA
1 C-TCATCATCAAA
8458529 CTCATCATCAAA
1 CTCATCATCAAA
* *
8458541 TTCATCATCGAA
1 CTCATCATCAAA
8458553 CTCATCATCAAA
1 CTCATCATCAAA
*
8458565 ATCATCATCA
1 CTCATCATCA
8458575 CTTCCATCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
11 1 0.02
12 57 0.97
13 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.01, T:0.29
Consensus pattern (12 bp):
CTCATCATCAAA
Found at i:8458718 original size:6 final size:6
Alignment explanation
Indices: 8458710--8458739 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8458700 GTTATTCCCA
*
8458710 CCACCA CCACCC CCACCC CCACCC CCACCC
1 CCACCC CCACCC CCACCC CCACCC CCACCC
8458740 TTTGGGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.80, G:0.00, T:0.00
Consensus pattern (6 bp):
CCACCC
Found at i:8471113 original size:21 final size:21
Alignment explanation
Indices: 8471089--8471128 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8471079 CTGAACTTAA
8471089 CTCTTAAACCTAAAACTCTGC
1 CTCTTAAACCTAAAACTCTGC
* * *
8471110 CTCTTGAACTTGAAACTCT
1 CTCTTAAACCTAAAACTCT
8471129 AAATCTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (21 bp):
CTCTTAAACCTAAAACTCTGC
Found at i:8471531 original size:16 final size:16
Alignment explanation
Indices: 8471505--8471557 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
8471495 CATATTTTTG
*
8471505 AATAT-TTTTAATGTA
1 AATATATTTTAATATA
8471520 AACTA-ATTTTAATATA
1 AA-TATATTTTAATATA
*
8471536 AATATATTTTAAAATA
1 AATATATTTTAATATA
8471552 AATATA
1 AATATA
8471558 ACCAAAGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
AATATATTTTAATATA
Found at i:8477454 original size:8 final size:8
Alignment explanation
Indices: 8477443--8477467 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8477433 AAAAAAAACC
8477443 TTTGCCGA
1 TTTGCCGA
8477451 TTTGCCGA
1 TTTGCCGA
8477459 TTTGCCGA
1 TTTGCCGA
8477467 T
1 T
8477468 GAATGTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (8 bp):
TTTGCCGA
Found at i:8479322 original size:13 final size:14
Alignment explanation
Indices: 8479297--8479327 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8479287 ACATCTAATT
8479297 AATTAATTTTTAAA
1 AATTAATTTTTAAA
*
8479311 AATTAATTTTAAAA
1 AATTAATTTTTAAA
8479325 AAT
1 AAT
8479328 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAATTTTTAAA
Found at i:8481885 original size:20 final size:20
Alignment explanation
Indices: 8481849--8481905 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
8481839 AACCATGAAA
*
8481849 TATAAAAATA-TAA-AATAT
1 TATAAAAATATTAATAATAC
8481867 TATAAAAA-ATTAATTAATAC
1 TATAAAAATATTAA-TAATAC
8481887 TATAAAAATATTAATAATA
1 TATAAAAATATTAATAATA
8481906 AAATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 1 0.03
18 11 0.32
20 17 0.50
21 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TATAAAAATATTAATAATAC
Found at i:8486603 original size:17 final size:18
Alignment explanation
Indices: 8486581--8486614 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8486571 TTGTTTTGGT
8486581 TAATT-AGAGTTCTAGTA
1 TAATTAAGAGTTCTAGTA
*
8486598 TAATTAAGAGTTTTAGT
1 TAATTAAGAGTTCTAGT
8486615 TAGATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (18 bp):
TAATTAAGAGTTCTAGTA
Found at i:8489678 original size:13 final size:13
Alignment explanation
Indices: 8489660--8489684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8489650 TAGTTTGACA
8489660 TTTAATTATTATT
1 TTTAATTATTATT
8489673 TTTAATTATTAT
1 TTTAATTATTAT
8489685 GGTAAATTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:8492536 original size:11 final size:12
Alignment explanation
Indices: 8492515--8492540 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8492505 ATTTTGAAAG
8492515 GTAATTTTTTTA
1 GTAATTTTTTTA
8492527 GTAATTTTTTTA
1 GTAATTTTTTTA
8492539 GT
1 GT
8492541 GTTTATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (12 bp):
GTAATTTTTTTA
Found at i:8492638 original size:12 final size:12
Alignment explanation
Indices: 8492623--8492682 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
8492613 AAAGGTAAAT
*
8492623 TTATTTTTGTAG
1 TTATTTTTGTAA
*
8492635 TTATTTAT-TAA
1 TTATTTTTGTAA
8492646 TTATTTTTGTAA
1 TTATTTTTGTAA
*
8492658 TTAATTTTTAGTAC
1 TT-ATTTTT-GTAA
8492672 TTATTATTTGT
1 TTATT-TTTGT
8492683 TTTATTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.22
12 12 0.30
13 11 0.28
14 8 0.20
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (12 bp):
TTATTTTTGTAA
Found at i:8500141 original size:86 final size:86
Alignment explanation
Indices: 8499996--8500167 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
8499986 TTCATATATA
8499996 CCCATGCTTTTTATTAGTGAAGGAATGAATGGGTGGTCCAAAGCTGTTTTTGACACAATTTTTTT
1 CCCATGCTTTTTATTAGTGAAGGAATGAATGGGTGGTCCAAAGCTGTTTTTGACACAATTTTTTT
8500061 CCAAAATACAGGTAGATTATT
66 CCAAAATACAGGTAGATTATT
8500082 CCCATGCTTTTTATTAGTGAAGGAATGAATGGGTGGTCCAAAGCTGTTTTTGACACAATTTTTTT
1 CCCATGCTTTTTATTAGTGAAGGAATGAATGGGTGGTCCAAAGCTGTTTTTGACACAATTTTTTT
8500147 CCAAAATACAGGTAGATTATT
66 CCAAAATACAGGTAGATTATT
8500168 AGCAAATGAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (86 bp):
CCCATGCTTTTTATTAGTGAAGGAATGAATGGGTGGTCCAAAGCTGTTTTTGACACAATTTTTTT
CCAAAATACAGGTAGATTATT
Found at i:8505922 original size:28 final size:32
Alignment explanation
Indices: 8505862--8505923 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 32
8505852 ATGATTTCTA
* *
8505862 TTAATTATTTTTTTGAACATTTTGAATTTTAT
1 TTAATTATTTTTATGAACATTTTGAATATTAT
8505894 TTAA-TATTTTTAT-AA-ATTTT-AATATTAT
1 TTAATTATTTTTATGAACATTTTGAATATTAT
8505922 TT
1 TT
8505924 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.32
29 5 0.18
30 2 0.07
31 8 0.29
32 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (32 bp):
TTAATTATTTTTATGAACATTTTGAATATTAT
Found at i:8505930 original size:20 final size:18
Alignment explanation
Indices: 8505893--8505932 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
8505883 TTGAATTTTA
*
8505893 TTTAATATTTTTATAAAT
1 TTTAATATTTTTAAAAAT
8505911 TTTAATATTATTTTAAAAAT
1 TTTAATA-T-TTTTAAAAAT
8505931 TT
1 TT
8505933 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTTAAAAAT
Found at i:8510591 original size:23 final size:24
Alignment explanation
Indices: 8510551--8510595 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8510541 TGATTATGCC
8510551 AATGCAGTACTTTTTAGAAAACAT
1 AATGCAGTACTTTTTAGAAAACAT
*
8510575 AATGCAG-ATTTTTTAGAAAAC
1 AATGCAGTACTTTTTAGAAAAC
8510596 TTCCTACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (24 bp):
AATGCAGTACTTTTTAGAAAACAT
Found at i:8511292 original size:17 final size:17
Alignment explanation
Indices: 8511270--8511314 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
8511260 TTCAAAAAAA
*
8511270 TGGCCCATACACCCGTG
1 TGGCCCACACACCCGTG
*
8511287 TGGCCCACACACTCGTG
1 TGGCCCACACACCCGTG
*
8511304 TTGCCCACACA
1 TGGCCCACACA
8511315 GCCCAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.20, C:0.42, G:0.20, T:0.18
Consensus pattern (17 bp):
TGGCCCACACACCCGTG
Found at i:8512568 original size:25 final size:23
Alignment explanation
Indices: 8512546--8512597 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
8512536 ACCACATATT
8512546 TATAACAACTAAATATAATCATA
1 TATAACAACTAAATATAATCATA
*
8512569 TATAACTACTAAATAT-AT-ATA
1 TATAACAACTAAATATAATCATA
8512590 TATAACAA
1 TATAACAA
8512598 AAACAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 10 0.37
22 2 0.07
23 15 0.56
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAACAACTAAATATAATCATA
Found at i:8514125 original size:29 final size:29
Alignment explanation
Indices: 8514092--8514155 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
8514082 TGGTAGATTG
*
8514092 AAAGATTGAAGATTTGAAGTTGGGTGGAT
1 AAAGATTGAAGATTTGAAGTTGGCTGGAT
*
8514121 AAAGATTGAAGATTTGAATTTGGCTGGAT
1 AAAGATTGAAGATTTGAAGTTGGCTGGAT
8514150 AAAGAT
1 AAAGAT
8514156 CAAATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.30, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGATTTGAAGTTGGCTGGAT
Found at i:8516205 original size:36 final size:37
Alignment explanation
Indices: 8516186--8516277 Score: 152
Period size: 36 Copynumber: 2.5 Consensus size: 37
8516176 GTAATATTGT
8516186 TGCTGGTATATTGTTGCTTA-TGTTGGTATACATGGC
1 TGCTGGTATATTGTTGCTTATTGTTGGTATACATGGC
8516222 TGCTGGTATATTGTTGCTTA-TGTTGGTATACATGGC
1 TGCTGGTATATTGTTGCTTATTGTTGGTATACATGGC
* *
8516258 TACTTGTATATTGTTGCTTA
1 TGCTGGTATATTGTTGCTTA
8516278 ACATATGTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.17, C:0.11, G:0.25, T:0.47
Consensus pattern (37 bp):
TGCTGGTATATTGTTGCTTATTGTTGGTATACATGGC
Found at i:8516214 original size:20 final size:20
Alignment explanation
Indices: 8516189--8516251 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
8516179 ATATTGTTGC
8516189 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
* *
8516209 TGGTATACATG--GC---TGC
1 TGGTATA-TTGTTGCTTATGT
8516225 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
8516245 TGGTATA
1 TGGTATA
8516252 CATGGCTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
15 2 0.06
16 9 0.27
17 2 0.06
19 2 0.06
20 16 0.48
21 2 0.06
ACGTcount: A:0.17, C:0.08, G:0.27, T:0.48
Consensus pattern (20 bp):
TGGTATATTGTTGCTTATGT
Found at i:8517404 original size:20 final size:20
Alignment explanation
Indices: 8517381--8517440 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
8517371 AATACTACAT
8517381 AAATATGTACATATATATTA
1 AAATATGTACATATATATTA
** *
8517401 AAATAAATACATAATGATAGTA
1 AAATATGTACAT-AT-ATATTA
8517423 AAAGTATGTACATA-ATAT
1 AAA-TATGTACATATATAT
8517441 AGTGTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 9 0.29
23 7 0.23
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATATGTACATATATATTA
Found at i:8517435 original size:23 final size:21
Alignment explanation
Indices: 8517381--8517443 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
8517371 AATACTACAT
*
8517381 AAATATGTACAT-ATATATTA
1 AAATATGTACATAATATAGTA
**
8517401 AAATAAATACATAATGATAGTA
1 AAATATGTACATAAT-ATAGTA
8517423 AAAGTATGTACATAATATAGT
1 AAA-TATGTACATAATATAGT
8517444 GTTGAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 13 0.37
23 10 0.29
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
AAATATGTACATAATATAGTA
Found at i:8517476 original size:25 final size:24
Alignment explanation
Indices: 8517391--8517476 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
8517381 AAATATGTAC
8517391 ATATA-TATTAAAATAAATACATA
1 ATATAGTATTAAAATAAATACATA
* **
8517414 ATGATAGTA--AAAGTATGTACATA
1 AT-ATAGTATTAAAATAAATACATA
* *
8517437 ATATAGTGTTGAAAATACATACATA
1 ATATAGTATT-AAAATAAATACATA
8517462 ATATAGCTATTAAAA
1 ATATAG-TATTAAAA
8517477 ATATATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 5 0.10
23 15 0.31
24 3 0.06
25 23 0.47
26 3 0.06
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (24 bp):
ATATAGTATTAAAATAAATACATA
Found at i:8517581 original size:24 final size:25
Alignment explanation
Indices: 8517549--8517612 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
8517539 CATATATAAA
*
8517549 AATACAATATTAAAAA-G-ATATAT
1 AATATAATATTAAAAATGCATATAT
*
8517572 -ATACGTAATATAAAAAATGCATATAT
1 AATA--TAATATTAAAAATGCATATAT
8517598 AATATAATATTAAAA
1 AATATAATATTAAAA
8517613 TATTTACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 3 0.09
24 10 0.30
25 11 0.33
26 6 0.18
27 3 0.09
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
AATATAATATTAAAAATGCATATAT
Found at i:8517705 original size:23 final size:23
Alignment explanation
Indices: 8517679--8517744 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
8517669 CAATATTACA
*
8517679 TAAACATATACCTATATATAT-AT
1 TAAACATATA-CTACATATATAAT
*
8517702 TAAAGATATA-TACATATATAAT
1 TAAACATATACTACATATATAAT
*
8517724 AAAACATATACTA-ATAT-TAAT
1 TAAACATATACTACATATATAAT
8517745 AATAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 12 0.32
22 14 0.38
23 11 0.30
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAACATATACTACATATATAAT
Found at i:8517720 original size:21 final size:20
Alignment explanation
Indices: 8517694--8517743 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8517684 ATATACCTAT
*
8517694 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
8517715 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
8517735 -TA-ATATTAA
1 ATATATATTAA
8517744 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:8517746 original size:21 final size:23
Alignment explanation
Indices: 8517670--8517740 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
8517660 ACCTATTAAC
8517670 AATAT-TACAT-AAACATATACCT
1 AATATATACATAAAACATATA-CT
* * *
8517692 -ATATATATATTAAAGATATA-T
1 AATATATACATAAAACATATACT
8517713 ACATATATA-ATAAAACATATACT
1 A-ATATATACATAAAACATATACT
8517736 AATAT
1 AATAT
8517741 TAATAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 5 0.12
22 18 0.45
23 17 0.43
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (23 bp):
AATATATACATAAAACATATACT
Found at i:8517831 original size:23 final size:23
Alignment explanation
Indices: 8517765--8517856 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 23
8517755 AGGATAATAT
* *
8517765 AAAAATATATATGAAATAGTATAA
1 AAAAATATACATGATATA-TATAA
* *
8517789 AAAAATATA-ACTAATAATATTTAA
1 AAAAATATACA-TGAT-ATATATAA
*
8517813 AAAAATATACATGATATATATAT
1 AAAAATATACATGATATATATAA
*
8517836 AAACATATACGAT-ATATATAT
1 AAAAATATAC-ATGATATATAT
8517857 TAGAAATGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
23 24 0.42
24 29 0.51
25 4 0.07
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAATATACATGATATATATAA
Found at i:8517857 original size:48 final size:48
Alignment explanation
Indices: 8517765--8517857 Score: 109
Period size: 48 Copynumber: 1.9 Consensus size: 48
8517755 AGGATAATAT
* *
8517765 AAAAATATATATGAAATAGTATAAAAAAATATAACTAATAATATTTAA
1 AAAAATATACATGAAATAGTATAAAAAAATATAACGAATAATATTTAA
* * *
8517813 AAAAATATACATGATATA-TATATAAACATAT-ACGATATATATATT
1 AAAAATATACATGAAATAGTATAAAAAAATATAACGA-ATA-ATATT
8517858 AGAAATGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
46 3 0.08
47 14 0.37
48 21 0.55
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (48 bp):
AAAAATATACATGAAATAGTATAAAAAAATATAACGAATAATATTTAA
Found at i:8518001 original size:3 final size:3
Alignment explanation
Indices: 8517993--8518156 Score: 57
Period size: 3 Copynumber: 52.3 Consensus size: 3
8517983 ATATATGTAT
* * * *
8517993 ATA ATA ATA ATA ATA ATAA ATA GTA ATA ATG TTA ATG ATA A-A AGTA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * *
8518039 A-A GATA AGA ATA A-A GATA GTA ATA ACA GTA ATG GTA ACGTA AATA
1 ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A--TA -ATA
* * * * *
8518084 ATA ATA ATA ATA ATA ATA ATC AT- GTAA ATA ACA ATG ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
*
8518129 ATG ATA ATGA ATAA ATAA ATA ATA ATA A
1 ATA ATA AT-A AT-A AT-A ATA ATA ATA A
8518157 CTGTGACAAT
Statistics
Matches: 116, Mismatches: 32, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
2 5 0.04
3 88 0.76
4 20 0.17
5 2 0.02
6 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:8518819 original size:119 final size:117
Alignment explanation
Indices: 8518602--8518834 Score: 412
Period size: 119 Copynumber: 2.0 Consensus size: 117
8518592 CTGAACTTCT
*
8518602 GACCCAAAACGACGCCGTTTTATGTTTCTATAAAAACTGAGTTTTTTTTTAAAATTTTATTTCTC
1 GACCCAAAACGACGCCGTTTTATGTTTCTATAAAAACTGAGTTTTTTTTTAAAATTTCATTTCTC
* *
8518667 CTCTGCTTTTAAAAAAAACATTTCTGCCTCTCTTCCTCTTTGCAGAGGTTCA
66 CTCTACTTTTAAAAAAAACATTTCTGCCTCTCTTCCTCTCTGCAGAGGTTCA
*
8518719 GACCCAAAACGACGCCGTTTTATGTTTCTATAAAAGCTGAGTTTTTTTTTTAAAAATTTCATTTC
1 GACCCAAAACGACGCCGTTTTATGTTTCTATAAAAACTGAG-TTTTTTTTT-AAAATTTCATTTC
8518784 TCCTCTACTTTTAAAAAAAACATTTCTGCCTCTCTTCCTCTCTGCAGAGGT
64 TCCTCTACTTTTAAAAAAAACATTTCTGCCTCTCTTCCTCTCTGCAGAGGT
8518835 CTCTACACCG
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 40 0.36
118 9 0.08
119 61 0.55
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (117 bp):
GACCCAAAACGACGCCGTTTTATGTTTCTATAAAAACTGAGTTTTTTTTTAAAATTTCATTTCTC
CTCTACTTTTAAAAAAAACATTTCTGCCTCTCTTCCTCTCTGCAGAGGTTCA
Found at i:8520241 original size:90 final size:89
Alignment explanation
Indices: 8520076--8520246 Score: 247
Period size: 90 Copynumber: 1.9 Consensus size: 89
8520066 AAGCAGATTT
8520076 TGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 TGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
*
8520141 AAATATAAATTGAAAAAACAAAAAC
66 AAATAGAAATT-AAAAAACAAAAAC
* * *
8520166 TGAAAATACCTC-AGCATGTGAGCGGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG-
1 TGAAAATACCTCGA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
**
8520229 ACGATCAGAAATTAAAAA
65 AAAAT-AGAAATTAAAAA
8520247 TACCTTGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
89 9 0.12
90 64 0.88
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (89 bp):
TGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AAATAGAAATTAAAAAACAAAAAC
Found at i:8520337 original size:165 final size:163
Alignment explanation
Indices: 8519934--8520633 Score: 720
Period size: 165 Copynumber: 4.2 Consensus size: 163
8519924 GTGATCTTGA
** * * *
8519934 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAGACATT-AAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATA-A-ATTGAAAAACAGAAATTG
* * * * * * *
8519997 AAAATAGCTCAACACGTGAGCCAAAGTTTAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAC
63 AAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----
** * * *
8520062 TGAAAAGCAGATTTTGAAAATACCTCGACATGTGACCCGAG
123 TGAAAAGCAGAAATTGAAAATACCTCGACGTGTGAGCCAAG
* *
8520103 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAAAAACTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ATAAATTG-AAAAACAGAAATTG
* * * **
8520168 AAAATACCTCAGCATGTGAGCGGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGACG
63 AAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
* * * *
8520232 ATCAGAAATTAAAAATACCTTGGCGTGTGAGCCAAG
128 AGCAGAAATTGAAAATACCTCGACGTGTGAGCCAAG
* * *
8520268 GCTCAACTCACCTCTCGCAATATGGGTTGATTTTTTGACAAACATAAAGTGAAAAGCAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA-AAA-ATAAATTGAAAAACAGAAATTG
*
8520333 AAAATACCTCAG--CGTGAGACCTGAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
63 AAAATACCTCAGCACGTGAG-CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
* * * * *
8520396 AAAAACAGGAATTGAGAATACCTTGGCGTGTGAGCCAAG
125 AAAAGCAGAAATTGAAAATACCTCGACGTGTGAGCCAAG
*
8520435 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAATAGAATTTGAAAAACA-AAATTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA-AA-TTGAAAAACAGAAA-TTG
*
8520499 AAAATAGCTC-G-ACGTGAGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
63 AAAATACCTCAGCACGTGAG--CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
* **
8520562 AAAAGCAGAAATTGAAAATACCTCAACGTGT---CTTGAG
125 AAAAGCAGAAATTGAAAATACCTCGACGTGTGAGC-CAAG
*
8520599 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
8520634 TGAAGACAGA
Statistics
Matches: 453, Mismatches: 61, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
163 6 0.01
164 39 0.09
165 123 0.27
166 114 0.25
167 69 0.15
168 4 0.01
169 30 0.07
170 9 0.02
171 59 0.13
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (163 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAAAACAGAAATTGAAA
ATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGC
AGAAATTGAAAATACCTCGACGTGTGAGCCAAG
Found at i:8520387 original size:90 final size:91
Alignment explanation
Indices: 8520234--8520402 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 91
8520224 TTTTGACGAT
** * * *
8520234 CAGAAATTAAAAATACCTTGGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGGGTTGA-
1 CAGAAATTAAAAATACCTCAGCGTGAGAGCCAAGCCTCAACTCACCTCTCGCAATATGAGTTGAT
*
8520298 TTTTTTGACAAACATAAAGTGAAAAG
66 TTTTTTGAAAAACATAAAGTGAAAAG
* *
8520324 CAGAAATTGAAAATACCTCAGCGTGAGA-CCTGAGCCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTAAAAATACCTCAGCGTGAGAGCC-AAGCCTCAACTCACCTCTCGCAATATGAGTTGA
8520388 TTTTTTTGAAAAACA
65 TTTTTTTGAAAAACA
8520403 GGAATTGAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 2 0.03
90 54 0.78
91 13 0.19
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (91 bp):
CAGAAATTAAAAATACCTCAGCGTGAGAGCCAAGCCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAAAACATAAAGTGAAAAG
Found at i:8520486 original size:14 final size:14
Alignment explanation
Indices: 8520467--8520502 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8520457 TGAGTTGATT
* *
8520467 TTTGAAAAATAGAA
1 TTTGAAAAACAAAA
8520481 TTTGAAAAACAAAA
1 TTTGAAAAACAAAA
8520495 TTTGAAAA
1 TTTGAAAA
8520503 TAGCTCGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (14 bp):
TTTGAAAAACAAAA
Found at i:8532845 original size:20 final size:20
Alignment explanation
Indices: 8532822--8532881 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
8532812 AATACTACAT
8532822 AAATATGTACATATATATTA
1 AAATATGTACATATATATTA
** *
8532842 AAATAAATACATAATGATAGTA
1 AAATATGTACAT-AT-ATATTA
8532864 AAAGTATGTACATA-ATAT
1 AAA-TATGTACATATATAT
8532882 AGTGTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 9 0.29
23 7 0.23
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATATGTACATATATATTA
Found at i:8532876 original size:23 final size:21
Alignment explanation
Indices: 8532822--8532884 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
8532812 AATACTACAT
*
8532822 AAATATGTACAT-ATATATTA
1 AAATATGTACATAATATAGTA
**
8532842 AAATAAATACATAATGATAGTA
1 AAATATGTACATAAT-ATAGTA
8532864 AAAGTATGTACATAATATAGT
1 AAA-TATGTACATAATATAGT
8532885 GTTGAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 13 0.37
23 10 0.29
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
AAATATGTACATAATATAGTA
Found at i:8532917 original size:25 final size:24
Alignment explanation
Indices: 8532832--8532919 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
8532822 AAATATGTAC
8532832 ATATA-TATTAAAATAAATACATA
1 ATATAGTATTAAAATAAATACATA
* **
8532855 ATGATAGTA--AAAGTATGTACATA
1 AT-ATAGTATTAAAATAAATACATA
* *
8532878 ATATAGTGTTGAAAATACATACATA
1 ATATAGTATT-AAAATAAATACATA
8532903 ATATAGCTATTAAAATA
1 ATATAG-TATTAAAATA
8532920 TATATATACG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 5 0.10
23 15 0.29
24 3 0.06
25 25 0.49
26 3 0.06
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (24 bp):
ATATAGTATTAAAATAAATACATA
Found at i:8533010 original size:37 final size:39
Alignment explanation
Indices: 8532959--8533037 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 39
8532949 TGTAATATAG
* *
8532959 TATTAGAAATATATACATGACAT-ATAT-AAAAATACA-A
1 TATTAAAAAGATATACAT-ACATAATATAAAAAATACATA
* *
8532996 TATTAAAAAGATATATATACGTAATATAAAAAATACATA
1 TATTAAAAAGATATACATACATAATATAAAAAATACATA
8533035 TAT
1 TAT
8533038 AATATAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 3 0.09
37 19 0.54
38 9 0.26
39 4 0.11
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (39 bp):
TATTAAAAAGATATACATACATAATATAAAAAATACATA
Found at i:8533021 original size:24 final size:25
Alignment explanation
Indices: 8532994--8533052 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
8532984 ATAAAAATAC
* *
8532994 AATATTAAAAAGATATATAT-ACGT
1 AATATTAAAAAGACATATATAACAT
* * *
8533018 AATATAAAAAATACATATATAATAT
1 AATATTAAAAAGACATATATAACAT
8533043 AATATTAAAA
1 AATATTAAAA
8533053 TATTTACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (25 bp):
AATATTAAAAAGACATATATAACAT
Found at i:8533026 original size:22 final size:20
Alignment explanation
Indices: 8532980--8533044 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 20
8532970 TATACATGAC
8532980 ATATATAAAAATACA-ATAT-
1 ATATA-AAAAATACATATATA
* *
8532999 -TA-AAAAGATATATATACGTA
1 ATATAAAAAATACATATA--TA
8533019 ATATAAAAAATACATATATA
1 ATATAAAAAATACATATATA
8533039 ATATAA
1 ATATAA
8533045 TATTAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
16 7 0.19
17 4 0.11
18 2 0.06
19 1 0.03
20 8 0.22
21 2 0.06
22 12 0.33
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATAAAAAATACATATATA
Found at i:8533053 original size:24 final size:24
Alignment explanation
Indices: 8532989--8533054 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
8532979 CATATATAAA
* *
8532989 AATACAATATTAAAA-AGATATAT
1 AATATAATATTAAAATACATATAT
*
8533012 -ATACGTAATATAAAAAATACATATAT
1 AATA--TAATAT-TAAAATACATATAT
8533038 AATATAATATTAAAATA
1 AATATAATATTAAAATA
8533055 TTTACATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
22 3 0.09
24 11 0.32
25 10 0.29
26 7 0.21
27 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (24 bp):
AATATAATATTAAAATACATATAT
Found at i:8533145 original size:23 final size:23
Alignment explanation
Indices: 8533119--8533184 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
8533109 CAATATTACA
*
8533119 TAAACATATACCTATATATAT-AT
1 TAAACATATA-CTACATATATAAT
*
8533142 TAAAGATATA-TACATATATAAT
1 TAAACATATACTACATATATAAT
*
8533164 AAAACATATACTA-ATAT-TAAT
1 TAAACATATACTACATATATAAT
8533185 AATAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 12 0.32
22 14 0.38
23 11 0.30
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAACATATACTACATATATAAT
Found at i:8533160 original size:21 final size:20
Alignment explanation
Indices: 8533134--8533183 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8533124 ATATACCTAT
*
8533134 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
8533155 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
8533175 -TA-ATATTAA
1 ATATATATTAA
8533184 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:8533186 original size:21 final size:23
Alignment explanation
Indices: 8533110--8533180 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
8533100 ACCTATTAAC
8533110 AATAT-TACAT-AAACATATACCT
1 AATATATACATAAAACATATA-CT
* * *
8533132 -ATATATATATTAAAGATATA-T
1 AATATATACATAAAACATATACT
8533153 ACATATATA-ATAAAACATATACT
1 A-ATATATACATAAAACATATACT
8533176 AATAT
1 AATAT
8533181 TAATAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 5 0.12
22 18 0.45
23 17 0.43
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (23 bp):
AATATATACATAAAACATATACT
Found at i:8533284 original size:13 final size:13
Alignment explanation
Indices: 8533266--8533290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8533256 AAATGTAGAT
8533266 GATATATATATAC
1 GATATATATATAC
8533279 GATATATATATA
1 GATATATATATA
8533291 TATATATTAG
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:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
GATATATATATAC
Found at i:8533359 original size:34 final size:34
Alignment explanation
Indices: 8533311--8533389 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
8533301 AAATGATAAT
*
8533311 AATAAAATGATATTATAATAATAGTATTATAAAA
1 AATAGAATGATATTATAATAATAGTATTATAAAA
8533345 AATAGAATGATATTATAATAATAGTATTATAAAA
1 AATAGAATGATATTATAATAATAGTATTATAAAA
8533379 AATAGACATGA
1 AATAGA-ATGA
8533390 AAGAAACAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (34 bp):
AATAGAATGATATTATAATAATAGTATTATAAAA
Found at i:8533591 original size:12 final size:12
Alignment explanation
Indices: 8533576--8533602 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8533566 TAACCATTTA
8533576 AATAACAATGAT
1 AATAACAATGAT
8533588 AATAACAATGAT
1 AATAACAATGAT
8533600 AAT
1 AAT
8533603 GAATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
AATAACAATGAT
Found at i:8535987 original size:25 final size:27
Alignment explanation
Indices: 8535959--8536015 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
8535949 CACACACCCC
8535959 TAAAAAA-A-TCACTACATGCATATTA
1 TAAAAAATACTCACTACATGCATATTA
*
8535984 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAATACTCACTACATGCATATTA
8536011 -AAAAA
1 TAAAAA
8536016 TAGGCAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 16 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (27 bp):
TAAAAAATACTCACTACATGCATATTA
Found at i:8536049 original size:40 final size:40
Alignment explanation
Indices: 8535994--8536095 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
8535984 TAAAAAATAC
* *
8535994 TCACTGCATGCATATTAAAAAATAGGCAACACACCATCAA
1 TCACTGCATGCATATTAAAAAATAGGCAACACACAAACAA
* *
8536034 TCACTGTATGCATATTAAAAAATAGTCAACACACAAACAA
1 TCACTGCATGCATATTAAAAAATAGGCAACACACAAACAA
*
8536074 TCAGTGCATGCATATTAAAAAA
1 TCACTGCATGCATATTAAAAAA
8536096 CATTCACTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.23
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATAGGCAACACACAAACAA
Found at i:8537743 original size:20 final size:20
Alignment explanation
Indices: 8537718--8537756 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8537708 TTCTATACCA
8537718 TCCATGTTTAAACCATCTAC
1 TCCATGTTTAAACCATCTAC
8537738 TCCATGTTTAAACCATCTA
1 TCCATGTTTAAACCATCTA
8537757 AATTAACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (20 bp):
TCCATGTTTAAACCATCTAC
Found at i:8538002 original size:68 final size:64
Alignment explanation
Indices: 8537922--8538062 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 64
8537912 GTCAGGCAAT
*
8537922 AACCAATACAAAATACCCAATAATTTAATACAAACA-AACCAATTTCTGTCATGTACATGGCAGA
1 AACCAATACAAAA-A---AATAATTTAATACAAACACAACC-ATTTCTGTCATGCACATGGCAGA
8537986 CAAC
61 CAAC
* * *
8537990 AACCAATAC--AAAAATAATTTAATACAAACACAACCATTTTTGTCATGCGCATGGCAGACAAT
1 AACCAATACAAAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAAC
*
8538052 AACCAGTACAA
1 AACCAATACAA
8538063 TAAAGAAGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
62 49 0.75
63 4 0.06
65 1 0.02
66 2 0.03
68 9 0.14
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.22
Consensus pattern (64 bp):
AACCAATACAAAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAAC
Found at i:8538011 original size:62 final size:62
Alignment explanation
Indices: 8537940--8538062 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
8537930 CAAAATACCC
*
8537940 AATAATTTAATACAAACA-AACCAATTTCTGTCATGTACATGGCAGACAACAACCAATACAAA
1 AATAATTTAATACAAACACAACC-ATTTCTGTCATGCACATGGCAGACAACAACCAATACAAA
* * * *
8538002 AATAATTTAATACAAACACAACCATTTTTGTCATGCGCATGGCAGACAATAACCAGTACAA
1 AATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACAACCAATACAA
8538063 TAAAGAAGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 51 0.93
63 4 0.07
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (62 bp):
AATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACAACCAATACAAA
Found at i:8538250 original size:16 final size:16
Alignment explanation
Indices: 8538231--8538272 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8538221 TATGTCATAC
*
8538231 AAATCGAAATAACTCT
1 AAATCGAAATAACCCT
*
8538247 AAATCGAAATTACCCT
1 AAATCGAAATAACCCT
8538263 AAATCGAAAT
1 AAATCGAAAT
8538273 CCAAATCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (16 bp):
AAATCGAAATAACCCT
Found at i:8538308 original size:24 final size:23
Alignment explanation
Indices: 8538262--8538321 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
8538252 GAAATTACCC
* *
8538262 TAAATCGAAATCCAAATCTAAAT
1 TAAATCAAAATCCAAATCAAAAT
* * *
8538285 ATAAATCTAAATCGAGATCAAAAT
1 -TAAATCAAAATCCAAATCAAAAT
8538309 TGAAATCAAAATC
1 T-AAATCAAAATC
8538322 AGAATCAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (23 bp):
TAAATCAAAATCCAAATCAAAAT
Found at i:8538931 original size:30 final size:31
Alignment explanation
Indices: 8538874--8538934 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
8538864 ACTTGCTACA
* *
8538874 TTTTGTCACTTTTTTATAACGTTAGTGACTG
1 TTTTGTAACTTTTTGATAACGTTAGTGACTG
8538905 TTTTGTAACTTTTTGA-AA-GTTGAGTGACTG
1 TTTTGTAACTTTTTGATAACGTT-AGTGACTG
8538935 AAATAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (31 bp):
TTTTGTAACTTTTTGATAACGTTAGTGACTG
Found at i:8538949 original size:20 final size:20
Alignment explanation
Indices: 8538924--8538962 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8538914 TTTTTGAAAG
8538924 TTGAGTGACTGAAATAAAAT
1 TTGAGTGACTGAAATAAAAT
*
8538944 TTGAGTGATTGAAATAAAA
1 TTGAGTGACTGAAATAAAA
8538963 ACTAGGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (20 bp):
TTGAGTGACTGAAATAAAAT
Found at i:8540654 original size:17 final size:17
Alignment explanation
Indices: 8540632--8540664 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8540622 TTTAACATAA
8540632 TTTAATCGTTAT-AATTT
1 TTTAAT-GTTATCAATTT
8540649 TTTAATGTTATCAATT
1 TTTAATGTTATCAATT
8540665 AGTTCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTAATGTTATCAATTT
Found at i:8542900 original size:24 final size:23
Alignment explanation
Indices: 8542889--8542964 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 23
8542879 TATCAAATAA
8542889 TTAAATAAAATTAATATAAAAAT
1 TTAAATAAAATTAATATAAAAAT
*
8542912 TTAAATAAAATTAATAAATAATAAT
1 TTAAATAAAATTAAT--ATAAAAAT
*
8542937 TATAAATTTAAAATTAATAT-TAAAT
1 T-TAAA--TAAAATTAATATAAAAAT
8542962 TTA
1 TTA
8542965 TTCTGTCAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 15 0.33
24 2 0.04
25 12 0.27
26 6 0.13
28 10 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAAATAAAATTAATATAAAAAT
Found at i:8542902 original size:10 final size:10
Alignment explanation
Indices: 8542887--8542929 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
8542877 AGTATCAAAT
8542887 AATTAAATAA
1 AATTAAATAA
8542897 AATTAATATAAA
1 AATTAA-AT-AA
8542909 AATTTAAATAA
1 AA-TTAAATAA
8542920 AATT-AATAA
1 AATTAAATAA
8542929 A
1 A
8542930 TAATAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.20
10 8 0.27
11 6 0.20
12 6 0.20
13 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AATTAAATAA
Found at i:8547491 original size:20 final size:21
Alignment explanation
Indices: 8547466--8547511 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
8547456 CTAAATGTGC
8547466 ATATTTACATTTT-ATTCTTT
1 ATATTTACATTTTCATTCTTT
*
8547486 ATATTT-CGTTTTCATTCTTT
1 ATATTTACATTTTCATTCTTT
8547506 AT-TTTA
1 ATATTTA
8547512 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (21 bp):
ATATTTACATTTTCATTCTTT
Found at i:8552982 original size:2 final size:2
Alignment explanation
Indices: 8552975--8553000 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8552965 CAACAAGAAG
8552975 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8553001 GTTTAAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8563557 original size:27 final size:27
Alignment explanation
Indices: 8563526--8563582 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
8563516 TATGGGGGTA
* **
8563526 GGTGGCGCCTATCTGGTAGGCGCGACT
1 GGTGGAGCCTATCTGACAGGCGCGACT
8563553 GGTGGAGCCTATCTGACAGGCGCGACT
1 GGTGGAGCCTATCTGACAGGCGCGACT
8563580 GGT
1 GGT
8563583 TGAACAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.40, T:0.21
Consensus pattern (27 bp):
GGTGGAGCCTATCTGACAGGCGCGACT
Found at i:8563732 original size:72 final size:72
Alignment explanation
Indices: 8563615--8563783 Score: 293
Period size: 72 Copynumber: 2.3 Consensus size: 72
8563605 TTTTTAAAAA
*
8563615 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACCAACAAAATATTTAACA
8563680 AAATAAT
66 AAATAAT
* * *
8563687 TTTACATTACTAAAAACTCACAAAGCAGAACAATTTATAATAAATTACCAACAAAATATTTAATA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACCAACAAAATATTTAACA
8563752 AAATAAT
66 AAATAAT
8563759 TTTACATTACTAAAAACTCATCAAA
1 TTTACATTACTAAAAACTCA-CAAA
8563784 TACTAAACTA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 88 0.96
73 4 0.04
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACCAACAAAATATTTAACA
AAATAAT
Found at i:8563858 original size:60 final size:60
Alignment explanation
Indices: 8563793--8563911 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
8563783 ATACTAAACT
* *
8563793 AAACACAACAATTTATAACATAATCCTAAATTATTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* * *
8563853 AAACACATCAATTTATAATATAATCTTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
8563912 TTAAAAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Done.