Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 57 of 77
Found at i:11281836 original size:18 final size:18
Alignment explanation
Indices: 11281805--11281846 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
11281795 ACATTAAAAA
11281805 TTAT-TAAAAATT-AATT
1 TTATATAAAAATTAAATT
11281821 TTATATAAAAATTTAAATT
1 TTATATAAAAA-TTAAATT
11281840 TTGATAT
1 TT-ATAT
11281847 TAAATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 2 0.09
19 6 0.27
20 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATATAAAAATTAAATT
Found at i:11282796 original size:24 final size:25
Alignment explanation
Indices: 11282754--11282815 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
11282744 TGACAGTAAA
*
11282754 AATTAA-ATTTAAATCTTAT-AAATT
1 AATTAATATTT-AATATTATCAAATT
*
11282778 AATTAATATTTAATATTATCAACTT
1 AATTAATATTTAATATTATCAAATT
*
11282803 AATCAAT-TTTAAT
1 AATTAATATTTAAT
11282816 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 19 0.58
25 14 0.42
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTAATATTTAATATTATCAAATT
Found at i:11283222 original size:25 final size:25
Alignment explanation
Indices: 11283194--11283243 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11283184 CCAAGGCCTT
11283194 ACTAAGGTTTCTTTTAATGCCTCTC
1 ACTAAGGTTTCTTTTAATGCCTCTC
11283219 ACTAAGGTTTCTTTTAATGCCTCTC
1 ACTAAGGTTTCTTTTAATGCCTCTC
11283244 TCTCTCCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (25 bp):
ACTAAGGTTTCTTTTAATGCCTCTC
Found at i:11289927 original size:13 final size:13
Alignment explanation
Indices: 11289906--11289940 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11289896 TATTCAAAAA
*
11289906 AAAAAAAAGAATG
1 AAAAAAAAGAAAG
*
11289919 AAGAAAAAGAAAG
1 AAAAAAAAGAAAG
11289932 AAAAAAAAG
1 AAAAAAAAG
11289941 TAGGAAACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:11290695 original size:43 final size:44
Alignment explanation
Indices: 11290626--11290713 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
11290616 CCATTGTTCC
* *
11290626 AAAATTATTTTTTAAAATATCTAAAATTTTTATATTTTATATTTT
1 AAAATTATTTTTTAAAATATCAAAAATTTTTAAATTTTA-ATTTT
*
11290671 AAAATTATTTTTTAACAT-T-AAAAATTTTTAAATTTTAATTTT
1 AAAATTATTTTTTAAAATATCAAAAATTTTTAAATTTTAATTTT
11290713 A
1 A
11290714 TAAAAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 6 0.15
43 16 0.40
44 1 0.03
45 17 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (44 bp):
AAAATTATTTTTTAAAATATCAAAAATTTTTAAATTTTAATTTT
Found at i:11290717 original size:25 final size:25
Alignment explanation
Indices: 11290689--11290743 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
11290679 TTTTTAACAT
* *
11290689 TAAAAATTTTTAAATTTTAATTTTA
1 TAAAAAATTTTAAATTTTAATATTA
11290714 TAAAAAATTTTAAATTTTAATATTA
1 TAAAAAATTTTAAATTTTAATATTA
11290739 -AAAAA
1 TAAAAA
11290744 CATTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAAAAATTTTAAATTTTAATATTA
Found at i:11312612 original size:20 final size:20
Alignment explanation
Indices: 11312565--11312615 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
11312555 AATAAGAAAA
11312565 AAGTTGTAAATATAAAATTTT
1 AAGTT-TAAATATAAAATTTT
*
11312586 AAATTTAAATATTAAAA-TTT
1 AAGTTTAAATA-TAAAATTTT
*
11312606 GAGTTTAAAT
1 AAGTTTAAAT
11312616 TTGTTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (20 bp):
AAGTTTAAATATAAAATTTT
Found at i:11315659 original size:3 final size:3
Alignment explanation
Indices: 11315651--11315679 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11315641 CAATTTTGGC
11315651 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11315680 AGTTAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11324328 original size:2 final size:2
Alignment explanation
Indices: 11324321--11324357 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11324311 AGCCAAAAGA
11324321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11324358 GAGTCCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11331861 original size:6 final size:6
Alignment explanation
Indices: 11331846--11331884 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
11331836 AATTATAAAT
11331846 AATT-A AATTAA AATTAA AATTAA AATTAATA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATT-A-A AATTAA AA
11331885 AAATTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 20 0.65
7 2 0.06
8 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:11333406 original size:15 final size:15
Alignment explanation
Indices: 11333386--11333416 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11333376 TCTGCACTTG
11333386 AGTTTAAATTAATTT
1 AGTTTAAATTAATTT
*
11333401 AGTTTAAATTATTTT
1 AGTTTAAATTAATTT
11333416 A
1 A
11333417 AATGAGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
AGTTTAAATTAATTT
Found at i:11333592 original size:2 final size:2
Alignment explanation
Indices: 11333575--11333610 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
11333565 CATAGAGAAT
*
11333575 TA TA TA GTA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11333611 GTAAACTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11341127 original size:13 final size:11
Alignment explanation
Indices: 11341098--11341123 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11341088 ATATTAAGTA
11341098 ATATGAATTAC
1 ATATGAATTAC
11341109 ATATGAATTAC
1 ATATGAATTAC
11341120 ATAT
1 ATAT
11341124 ATGATGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (11 bp):
ATATGAATTAC
Found at i:11342429 original size:353 final size:352
Alignment explanation
Indices: 11341783--11342487 Score: 1302
Period size: 353 Copynumber: 2.0 Consensus size: 352
11341773 AAGCAAAGAA
*
11341783 ATTGTTAAGTGTTGCTTGATTTTCAGTTAGTGTACAAGTCAATACTCAATAGATTATTATTATTT
1 ATTGTTAAGTGTTGCTTGATTTTCAGTTAGTGTACAAGTCAATACTCAACAGATTATTATTATTT
* *
11341848 TTTGTTGGATGAATCATATTTCATATTTATCTTTTCTTATCATTCGGGTTGAAATTTAATTAATT
66 TTCGTTGGATGAATCATATTTCATATTTATCTTTTCTTATCATTCGAGTTGAAATTTAATTAATT
* *
11341913 TGGAATGATTTCTTTCAAGAGTTCCCTGGAATGGAAACAAAATTATGGCAGATCTTAATGTAAAG
131 TGGAATGATTTCTTTCAAGAGTTCCCTGGAATGAAAACAAAATTATGGCAGATCTTAATATAAAG
*
11341978 ATTAATGGGATGGAATTTTTTTTCTTATAAATATAAGAAAGATATGATGGAGATATCATGTCCAT
196 ATTAATGGGATGGAATTTTTTTTCTTATAAATATAAGAAAAATATGATGGAGATATCATGTCCAT
* *
11342043 CCTTTATCATTCAACTAATACATGATTATTCTTAAGGGCTACAAAGACATATTTCTTGTGTTCTG
261 CCTTTATCATTCAACTAATACATGATTATTCTTAAGGGCTACAAAGACATATTTCTTGCGCTCTG
*
11342108 GAAAATAGCCATTTGCACATTGCTAAGT
326 G-AAATAACCATTTGCACATTGCTAAGT
11342136 ATTGTTAAGTGTTGCTTGATTTTCAGTTAGTGTACAAGTCAATACTCAACAGATTATTATTATTT
1 ATTGTTAAGTGTTGCTTGATTTTCAGTTAGTGTACAAGTCAATACTCAACAGATTATTATTATTT
*
11342201 TTCGTTGGATGAATCATATTTCATATTTATCTTTTCTTATCATTTGAGTTGAAATTTAATTAATT
66 TTCGTTGGATGAATCATATTTCATATTTATCTTTTCTTATCATTCGAGTTGAAATTTAATTAATT
*
11342266 TGGAATGATTTCTTTCAAGAGTTCCCTGGAATGAAAATAAAATTATGGCAGATCTTAATATAAAG
131 TGGAATGATTTCTTTCAAGAGTTCCCTGGAATGAAAACAAAATTATGGCAGATCTTAATATAAAG
11342331 ATTAATGGGATGGAATTTTTTTTCTTATAAATATAAGAAAAATATGATGGAGATATCATGTCCAT
196 ATTAATGGGATGGAATTTTTTTTCTTATAAATATAAGAAAAATATGATGGAGATATCATGTCCAT
11342396 CCTTTATCATTCAACTAATACATGATTATTCTTAAGGGCTACAAAGACATATTTCTTGCGCTCTG
261 CCTTTATCATTCAACTAATACATGATTATTCTTAAGGGCTACAAAGACATATTTCTTGCGCTCTG
11342461 GAAATAACCATTTGCACATTGCTAAGT
326 GAAATAACCATTTGCACATTGCTAAGT
11342488 CGAAAGTTTG
Statistics
Matches: 341, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
352 25 0.07
353 316 0.93
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (352 bp):
ATTGTTAAGTGTTGCTTGATTTTCAGTTAGTGTACAAGTCAATACTCAACAGATTATTATTATTT
TTCGTTGGATGAATCATATTTCATATTTATCTTTTCTTATCATTCGAGTTGAAATTTAATTAATT
TGGAATGATTTCTTTCAAGAGTTCCCTGGAATGAAAACAAAATTATGGCAGATCTTAATATAAAG
ATTAATGGGATGGAATTTTTTTTCTTATAAATATAAGAAAAATATGATGGAGATATCATGTCCAT
CCTTTATCATTCAACTAATACATGATTATTCTTAAGGGCTACAAAGACATATTTCTTGCGCTCTG
GAAATAACCATTTGCACATTGCTAAGT
Found at i:11343240 original size:2 final size:2
Alignment explanation
Indices: 11343225--11343259 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11343215 GTATAGGATT
* *
11343225 TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11343260 GTATGTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11343264 original size:4 final size:4
Alignment explanation
Indices: 11343257--11343284 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
11343247 TATATATATA
11343257 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
11343285 ACATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:11346255 original size:246 final size:246
Alignment explanation
Indices: 11345769--11346260 Score: 747
Period size: 247 Copynumber: 2.0 Consensus size: 246
11345759 GAAATTTTAC
* * * *
11345769 ATGCTCTACCTTCATTCTAACACGTTTTTCTTCAATTTTGGCACGCTTCTCTTCTCTTTCTTCTT
1 ATGCTCTACCTCCATTCTAACACATTTTTCTTCAATTTTGGCACGCTCCCCTTCTCTTTCTTCTT
* * **
11345834 TCATTTGCTTAAAATATTGTTGCATAGTTTGCAACTTCCCTTCAATATTGAAATGTCTTGCGAAG
66 TCATTTGCTTAAAACATTGTTGCATAGTTTGCAACTTCCCTTCAATATTGAAATATCTCACGAAG
* *
11345899 ACTGACTTGCTGAGAGTGTAAATTATGAAAAGTTATGTCTATAGTAGGCAGATGGTTTTGGACCC
131 ACTGACTTGCTGAGAGTGTAAATTATGAAAAGTTATGTCCATAGTAGGCAGATGGTGTTGGACCC
* *
11345964 AATCCAAGGCCTCGGACCTGTCCATGCCTTTTTTTTTTCAGCAACTTCTAT
196 AATCCAAGGCCTCGGACCTGTCCATGCCTTTCTTTTCTCAGCAACTTCTAT
* * *
11346015 ATGCTTTACCTCCATTCTAACACATTTTTCTTCCATTTTGGCATGCTCCCCTTCTCTTTCTTCTT
1 ATGCTCTACCTCCATTCTAACACATTTTTCTTCAATTTTGGCACGCTCCCCTTCTCTTTCTTCTT
* * * *
11346080 TTATTTGCTTAAAACGTTGTTGCATAGTTTGTAAC-TCTCTTCTCAATATTGAAATATCTCACGA
66 TCATTTGCTTAAAACATTGTTGCATAGTTTGCAACTTC-CCT-TCAATATTGAAATATCTCACGA
* *
11346144 AGACTGACTTGCTGATAGTGTTAATTATGAAAAGTTATGTCCATAGTAGGCAGATGGTGTTGGAC
129 AGACTGACTTGCTGAGAGTGTAAATTATGAAAAGTTATGTCCATAGTAGGCAGATGGTGTTGGAC
11346209 CCAATCCAAGGCCTCGGATCC-GTCCATGCCTTTCTTTTCT-AGCAACTTCTAT
194 CCAATCCAAGGCCTCGGA-CCTGTCCATGCCTTTCTTTTCTCAGCAACTTCTAT
11346261 GAATATAAGA
Statistics
Matches: 222, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
245 2 0.01
246 103 0.46
247 115 0.52
248 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (246 bp):
ATGCTCTACCTCCATTCTAACACATTTTTCTTCAATTTTGGCACGCTCCCCTTCTCTTTCTTCTT
TCATTTGCTTAAAACATTGTTGCATAGTTTGCAACTTCCCTTCAATATTGAAATATCTCACGAAG
ACTGACTTGCTGAGAGTGTAAATTATGAAAAGTTATGTCCATAGTAGGCAGATGGTGTTGGACCC
AATCCAAGGCCTCGGACCTGTCCATGCCTTTCTTTTCTCAGCAACTTCTAT
Found at i:11354104 original size:801 final size:799
Alignment explanation
Indices: 11352866--11354389 Score: 2008
Period size: 801 Copynumber: 1.9 Consensus size: 799
11352856 ATTCTAACAC
* * * * *
11352866 TGTTATTGAAGGCATATATCTAAGAAAGACGCCTTTAATAATTTCTATCACAATGGTAGTTAACT
1 TGTTATTGAAGGCAAACATCCAAGAAAGACGCCTTTAATAATTTCTATCACAATGGCAGATAACT
* * * * * *
11352931 ATTGAAGGTGGTTGCAGAAAATAACACCTTTACTAATTTTCCTCAAAAAAAATTTTTGAATTATT
66 ACTGAAGGTAGTTGCAAAAAACAACACCTTCAATAATTTTCCTC--AAAAAATTTTTGAATTATT
* * * * * *
11352996 AAAGGCGTCTTTTATTATGACACGCTTTTAATATATCACGATGGTAATAGAAGGCTTTTATTAGA
129 AAAGGCATCTTTTATTATGAAACGCCTTCAATATACCACGATGGTAATAGAAGGCGTTTATTAGA
* * *
11353061 AAAGACGCCTTCAATATACCTTTAAACTTAGTAATCTATTAGTGAAGGCATTTGTTAATAACAGA
194 AAAGACACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAATAACAGA
* * * * *
11353126 CGCCTTCGAAATTTTTTCACTAAATATTTTGAGAATTATTAAAGGCGTCTTCTACTATCAAAAGC
259 CGCCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAAGCATCTTCTACTATCAAAAAC
* * * * * ** * * *
11353191 TTTTTATATATCATTACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCT
324 CTTATATATATCATCACACAAATTCTAACACTATTATTGAAGGCGTACATCCAAGAAAGACGCAT
* * * * * * * *
11353256 TTAATAATTTCCATCACAGTTTGTATATAATTACTAAAGGTAGTTGCAGATAATAATGCCTTCAA
389 TTAATAATTTCCATCACAGTTTATAGATAATAACTAAAGGCAGTTGCAAAAAATAACGCCGTCAA
* *
11353321 TAA-TTTAAAAAAAAATTTTT-TGGATTATTAAAGGCATCTTTAATTATAAAACGCCTTCAATAA
454 TAATTTTAAAAAAAAATTTTTACGGATTATTAAAGGCATATTTAATTATAAAACGCCTTCAATAA
* * * * *
11353384 TTTGTTATAAAC-TTTGAAAATCCATAATAATTGAAGGTAATTTTTTAGTGAAAATGCATTTTCT
519 ATTGTTATAAACATTAG-AAATCCATAATAATTGAAGGTAAATTTTTACTGAAAATGCATTTTAT
* * *
11353448 AATTTTTTAGAATTAGAAAAGGTTTTTTTTTTTTTTATAAAATATGCATTGAATAAGTTGGTTGG
583 AATTTTTAAGAATTAGAAAAGG--TGTTTTTTTTTTATAAAAAATGCATTGAATAAGTTGGTTGG
* * * *
11353513 ACAATTTTAAAGGCTTATAATTAAATGCATC-TTTTTTGTAAAAAACGCTTTCAATAATCTCCAA
646 ACAATTTTAAAAGCTTATAATTAAAGGCATCTTTTTTTGTAAAAAACACCTTCAATAATCTCCAA
11353577 TAAAATTTTTCCACTAAAAATTTTAGAAATTATTAAAGGCGTCTTTTGCTGTAAAATGCCTTCTA
711 T-AAATTTTTCCACTAAAAATTTTAGAAATTATTAAAGGCGTCTTTTGCTGTAAAATGCCTTCTA
11353642 TATACCGTCATACAAATTTTAATGA
775 TATACCGTCATACAAATTTTAATGA
* *
11353667 TGTTATTGAAGGCAAACATCCAAGAAAGATGCCTTTAATAATTTCTATCACAATTTGCAGATAA-
1 TGTTATTGAAGGCAAACATCCAAGAAAGACGCCTTTAATAATTTCTATCACAA-TGGCAGATAAC
** * *
11353731 TAACTGAAGGTAGTTGCAAAAAACAATGCCTTCAATAATTTTTCTC-AAAAATTTTTACGGATTA
65 T-ACTGAAGGTAGTTGCAAAAAACAACACCTTCAATAATTTTCCTCAAAAAATTTTT--GAATTA
* * *
11353795 TTAAATGCATTTTTTATTAT-AAATCGCCTTCAATATACCACGATGGTAATGGAAGGCGTTTATT
127 TTAAAGGCATCTTTTATTATGAAA-CGCCTTCAATATACCACGATGGTAATAGAAGGCGTTTATT
* * **
11353859 AGAAAAGGCACCTTCAATATACCTTTAACCTTAGTAATCCATTACTGAAGGTGTTTGTTAATAAC
191 AGAAAAGACACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAATAAC
*
11353924 AGATGCCTTCAAAATTTTCTCACGT-AATATTTTG-GAAATTATTAAAAGCATCTTCTACTAT-A
256 AGACGCCTTCAAAATTTTCTCAC-TAAATATTTTGAG-AATTATTAAAAGCATCTTCTACTATCA
** * *
11353986 AAATACCTTATATATATTGTCATATAAATTCTAACACTATTATTGAAGGCGTACATCCAAGAAAG
319 AAA-ACCTTATATATATCATCACACAAATTCTAACACTATTATTGAAGGCGTACATCCAAGAAAG
** *
11354051 ACGCATTTAATAATTTTTATCATAGTTTATAGATAATAACTGAAA-GCAGTTGCAAAAAATAACG
383 ACGCATTTAATAATTTCCATCACAGTTTATAGATAATAACT-AAAGGCAGTTGCAAAAAATAACG
*** * *
11354115 CCGTCAATAATTTTTCTCAAAAAATTTTTACGGATTATTAAAGGCATATTTTATTATAAATCGCC
447 CCGTCAATAA-TTTTAAAAAAAAATTTTTACGGATTATTAAAGGCATATTTAATTATAAAACGCC
*
11354180 TTCAATAAATTGTTATAAACATTAGAAATCCATAATTATTGAAGGTAAATTTTTACTGAAAATGC
511 TTCAATAAATTGTTATAAACATTAGAAATCCATAATAATTGAAGGTAAATTTTTACTGAAAATGC
* * * *
11354245 CTTTTATAATTTTTAAGAATTATAAAAGGTGTTTTTTTTTTATAAAAAATGCCTTTAATAAGTTG
576 ATTTTATAATTTTTAAGAATTAGAAAAGGTGTTTTTTTTTTATAAAAAATGCATTGAATAAGTTG
*
11354310 GTTGGATAATTTTAAAAGCTTATAATTAAAGGCATCTTTTTTTGTAAAAAACACCTTCAATAATC
641 GTTGGACAATTTTAAAAGCTTATAATTAAAGGCATCTTTTTTTGTAAAAAACACCTTCAATAATC
**
11354375 TTTAATAAATTTTTC
706 TCCAATAAATTTTTC
11354390 AGGTGATTAT
Statistics
Matches: 618, Mismatches: 91, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
799 10 0.02
800 7 0.01
801 322 0.52
802 120 0.19
803 44 0.07
804 112 0.18
805 3 0.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (799 bp):
TGTTATTGAAGGCAAACATCCAAGAAAGACGCCTTTAATAATTTCTATCACAATGGCAGATAACT
ACTGAAGGTAGTTGCAAAAAACAACACCTTCAATAATTTTCCTCAAAAAATTTTTGAATTATTAA
AGGCATCTTTTATTATGAAACGCCTTCAATATACCACGATGGTAATAGAAGGCGTTTATTAGAAA
AGACACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAATAACAGACG
CCTTCAAAATTTTCTCACTAAATATTTTGAGAATTATTAAAAGCATCTTCTACTATCAAAAACCT
TATATATATCATCACACAAATTCTAACACTATTATTGAAGGCGTACATCCAAGAAAGACGCATTT
AATAATTTCCATCACAGTTTATAGATAATAACTAAAGGCAGTTGCAAAAAATAACGCCGTCAATA
ATTTTAAAAAAAAATTTTTACGGATTATTAAAGGCATATTTAATTATAAAACGCCTTCAATAAAT
TGTTATAAACATTAGAAATCCATAATAATTGAAGGTAAATTTTTACTGAAAATGCATTTTATAAT
TTTTAAGAATTAGAAAAGGTGTTTTTTTTTTATAAAAAATGCATTGAATAAGTTGGTTGGACAAT
TTTAAAAGCTTATAATTAAAGGCATCTTTTTTTGTAAAAAACACCTTCAATAATCTCCAATAAAT
TTTTCCACTAAAAATTTTAGAAATTATTAAAGGCGTCTTTTGCTGTAAAATGCCTTCTATATACC
GTCATACAAATTTTAATGA
Found at i:11358650 original size:65 final size:65
Alignment explanation
Indices: 11358546--11358674 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 65
11358536 GTTTATGAAG
** * *
11358546 GCGTTTTTTTATATAGCCGCCTTCAATAATCTGACAATTAAAATTTATCGTTGGGAATATTAAAT
1 GCGTTTTTGGATATAACCGCCTTCAATAATCTGACAATTAAAATTTATCGCTGGGAATATTAAAT
* *
11358611 GCGTTTTTGGATATAACTGCCTTCAATAAT-TCGACAATTAAAATTTATTGCTGGGAATATTAAA
1 GCGTTTTTGGATATAACCGCCTTCAATAATCT-GACAATTAAAATTTATCGCTGGGAATATTAAA
11358675 GGTGTTTGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 1 0.02
65 56 0.98
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (65 bp):
GCGTTTTTGGATATAACCGCCTTCAATAATCTGACAATTAAAATTTATCGCTGGGAATATTAAAT
Found at i:11358699 original size:65 final size:65
Alignment explanation
Indices: 11358565--11358701 Score: 156
Period size: 65 Copynumber: 2.1 Consensus size: 65
11358555 TATATAGCCG
* * * * *
11358565 CCTTCAATAATCTGACAATTAAAATTTATCGTTGGGAATATTAAATGCGTTTTTGGATATAACTG
1 CCTTCAATAATCTGACAATTAAAATTTATCGCTGGGAATATTAAATGCGTTTTGGGAAAAAACTA
*
11358630 CCTTCAATAAT-TCGACAATTAAAATTTATTGCTGGGAATATTAAA-G-GTGTTTGGAGCAAAAA
1 CCTTCAATAATCT-GACAATTAAAATTTATCGCTGGGAATATTAAATGCGT-TTTGG-G-AAAAA
11358692 AC-A
62 ACTA
11358695 CCTTCAA
1 CCTTCAA
11358702 CCATCCCATT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
63 2 0.03
64 6 0.10
65 49 0.79
66 5 0.08
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (65 bp):
CCTTCAATAATCTGACAATTAAAATTTATCGCTGGGAATATTAAATGCGTTTTGGGAAAAAACTA
Found at i:11365364 original size:14 final size:15
Alignment explanation
Indices: 11365337--11365365 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11365327 AATATTTGTG
11365337 AATTTATAAACAAAA
1 AATTTATAAACAAAA
11365352 AATTTAT-AACAAAA
1 AATTTATAAACAAAA
11365366 TAAAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AATTTATAAACAAAA
Found at i:11382303 original size:2 final size:2
Alignment explanation
Indices: 11382296--11382333 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11382286 AAGCTTTAAA
11382296 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11382334 GGCAACATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11382665 original size:357 final size:357
Alignment explanation
Indices: 11381996--11382670 Score: 1163
Period size: 361 Copynumber: 1.9 Consensus size: 357
11381986 GGTAAATGAG
11381996 CATTCTAAATTTGTATTGTTCAATTTAAATTTCCATTTTTTTGGCACACAAATATCTTTAATAAA
1 CATTCTAAATTTGTATTGTTCAATTTAAATTTCCATTTTTTTGGCACACAAATATCTTTAATAAA
* *
11382061 GGTGAAAAAACCTTTAAGAAAAAAGGAATAGACAGGGCAACATTTCACATTTACTGCTTTGTAGA
66 GGTGAAAAAACCTTTAAGAAAAAAGGAATAGACAGGGCAACATTTCACATTCACTGCTCTGTAGA
* * * * * *
11382126 GTTATAATGTTTAAAAGGAAATTAAAAAAAAAAATCAAAAGCCGAAAGGAATACTAAACCCATGT
131 GCTATAAAGTTTAAAAGGAAATTAAAAAAAAAAATAAAAAACCAAAAGGAATACTAAACCAATGT
* * *
11382191 GAGCAAAAGGCGCACACACACTAAAAAAGTCTGGCAACAAAATAAAAGTAATTAAAAATAATGAA
196 GAGCAAAAGGCGCACACACACTAAAAAAGACTCGCAACAAAATAAAAGTAAGTAAAAATAATGAA
11382256 TATTTGAAAGTAAAACAAAGAAAACAACTAAAGCTTTAAAAGAGAGAGAGAGAGAGAGAGAGAGA
261 TATTTGAAAGTAAAACAAAGAAAACAACTAAAGCTTTAAAAGAGAGAGAGAGAGAGAGAGAGAGA
11382321 GAGAGAGAGAGAGGGCAACATTTCACATTTCA
326 GAGAGAGAGAGAGGGCAACATTTCACATTTCA
11382353 CATTCTAAATTTGTATTGTTCAATTTAAATTTCCATTTTTTTGGCACACAAATATCTTTAATAAA
1 CATTCTAAATTTGTATTGTTCAATTTAAATTTCCATTTTTTTGGCACACAAATATCTTTAATAAA
*
11382418 GGTGAAAAAATCTTTAAGAAAAAAGGAATAGACAGGGCAACATTTCACATTCACTGCTCTGTAGA
66 GGTGAAAAAACCTTTAAGAAAAAAGGAATAGACAGGGCAACATTTCACATTCACTGCTCTGTAGA
*
11382483 GCTATAAAGTTTAAAAGG-AATTAAAAATAAATCAAAAATAAAAAACCAAAAGGAATGCTAAACC
131 GCTATAAAGTTTAAAAGGAAATT--AAA-AAA--AAAAATAAAAAACCAAAAGGAATACTAAACC
11382547 AATGTGAGCAAAAGGCGCACACACACTAAAAAAGACTCGCAACAAAATAAAAGTAAGTAAAAATA
191 AATGTGAGCAAAAGGCGCACACACACTAAAAAAGACTCGCAACAAAATAAAAGTAAGTAAAAATA
* *
11382612 ATGAATATTTGACAGTAAAACAAAGAAAACAACTAAAGCTTTAAAAAAGAGAGAGAGAG
256 ATGAATATTTGAAAGTAAAACAAAGAAAACAACTAAAGCTTTAAAAGAGAGAGAGAGAG
11382671 TAAACTATTT
Statistics
Matches: 298, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
356 4 0.01
357 143 0.48
358 3 0.01
359 3 0.01
361 145 0.49
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.24
Consensus pattern (357 bp):
CATTCTAAATTTGTATTGTTCAATTTAAATTTCCATTTTTTTGGCACACAAATATCTTTAATAAA
GGTGAAAAAACCTTTAAGAAAAAAGGAATAGACAGGGCAACATTTCACATTCACTGCTCTGTAGA
GCTATAAAGTTTAAAAGGAAATTAAAAAAAAAAATAAAAAACCAAAAGGAATACTAAACCAATGT
GAGCAAAAGGCGCACACACACTAAAAAAGACTCGCAACAAAATAAAAGTAAGTAAAAATAATGAA
TATTTGAAAGTAAAACAAAGAAAACAACTAAAGCTTTAAAAGAGAGAGAGAGAGAGAGAGAGAGA
GAGAGAGAGAGAGGGCAACATTTCACATTTCA
Found at i:11383573 original size:13 final size:14
Alignment explanation
Indices: 11383555--11383585 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11383545 GGCATTCTAC
11383555 TTATAATTTT-TAA
1 TTATAATTTTATAA
11383568 TTATAATTTTATAA
1 TTATAATTTTATAA
11383582 TTAT
1 TTAT
11383586 TTATGCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATAATTTTATAA
Found at i:11383618 original size:17 final size:19
Alignment explanation
Indices: 11383593--11383629 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11383583 TATTTATGCT
11383593 AATAAAAA-TT-ATATAAA
1 AATAAAAATTTCATATAAA
*
11383610 AATATAAATTTCATATAAA
1 AATAAAAATTTCATATAAA
11383629 A
1 A
11383630 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAAAAATTTCATATAAA
Found at i:11385010 original size:13 final size:13
Alignment explanation
Indices: 11384992--11385031 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
11384982 GATTTCTTTC
11384992 CAATTTTCATCTT
1 CAATTTTCATCTT
11385005 CAA-TTTC-TC-T
1 CAATTTTCATCTT
11385015 CTAATTTTCATCTT
1 C-AATTTTCATCTT
11385029 CAA
1 CAA
11385032 AGTCCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 2 0.09
11 4 0.17
12 8 0.35
13 7 0.30
14 2 0.09
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
CAATTTTCATCTT
Found at i:11385010 original size:24 final size:24
Alignment explanation
Indices: 11384983--11385031 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11384973 GATATCTCAG
*
11384983 ATTTCTTTCCAATTTTCATCTTCA
1 ATTTCTCTCCAATTTTCATCTTCA
*
11385007 ATTTCTCTCTAATTTTCATCTTCA
1 ATTTCTCTCCAATTTTCATCTTCA
11385031 A
1 A
11385032 AGTCCCATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTCTCTCCAATTTTCATCTTCA
Found at i:11385143 original size:2 final size:2
Alignment explanation
Indices: 11385136--11385163 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11385126 TCACCAGTTC
11385136 AT 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 AT
11385164 GTTTTTAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11392698 original size:25 final size:26
Alignment explanation
Indices: 11392643--11392707 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
11392633 AGCAACCCAA
11392643 TTATTTTCTTTCATTTCCCTATTTTC
1 TTATTTTCTTTCATTTCCCTATTTTC
* * *
11392669 ATATTTTCTTT-TTTTCCTCTCTTTT-
1 TTATTTTCTTTCATTTCC-CTATTTTC
11392694 TTATTTT-TTT-ATTT
1 TTATTTTCTTTCATTT
11392708 AAGTGTCGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 6 0.18
25 11 0.33
26 16 0.48
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (26 bp):
TTATTTTCTTTCATTTCCCTATTTTC
Found at i:11394229 original size:2 final size:2
Alignment explanation
Indices: 11394222--11394246 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11394212 GAGTTTTCTT
11394222 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11394247 TACAAAGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11396688 original size:6 final size:6
Alignment explanation
Indices: 11396677--11396707 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
11396667 TGGAAGCAAC
11396677 TTCATA TTCATA TTCATA TTCATA TTCATA T
1 TTCATA TTCATA TTCATA TTCATA TTCATA T
11396708 AATCAATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATA
Found at i:11404475 original size:105 final size:105
Alignment explanation
Indices: 11404293--11404499 Score: 387
Period size: 105 Copynumber: 2.0 Consensus size: 105
11404283 GGAACAGCTG
*
11404293 CAATGACCAGACTTGTAAACGCCACAGAAGTCTGCATTTATCCAAGAGATTGGTATTAATCAATC
1 CAATGACCAGACTTGTAAACGCCACAGAAGTCTGCATGTATCCAAGAGATTGGTATTAATCAATC
11404358 AGAAAATACAAAATCTCAACACCAAACATATTCTTTACTA
66 AGAAAATACAAAATCTCAACACCAAACATATTCTTTACTA
* *
11404398 CAATGACCAGACTTGTAAATGCCACAGAAGTCTGCATGTATCCAGGAGATTGGTATTAATCAATC
1 CAATGACCAGACTTGTAAACGCCACAGAAGTCTGCATGTATCCAAGAGATTGGTATTAATCAATC
11404463 AGAAAATACAAAATCTCAACACCAAACATATTCTTTA
66 AGAAAATACAAAATCTCAACACCAAACATATTCTTTA
11404500 GTACCAAAGC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (105 bp):
CAATGACCAGACTTGTAAACGCCACAGAAGTCTGCATGTATCCAAGAGATTGGTATTAATCAATC
AGAAAATACAAAATCTCAACACCAAACATATTCTTTACTA
Found at i:11411159 original size:20 final size:21
Alignment explanation
Indices: 11411109--11411160 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
11411099 ATAAATTTGT
11411109 AATAAA-A-TTTATTTTATTA
1 AATAAATATTTTATTTTATTA
**
11411128 AATTTATATTTTATTTT-TTA
1 AATAAATATTTTATTTTATTA
*
11411148 AATAAATTTTTTA
1 AATAAATATTTTA
11411161 AACAAACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATAAATATTTTATTTTATTA
Found at i:11413222 original size:15 final size:15
Alignment explanation
Indices: 11413198--11413235 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11413188 TCAAGTGTTA
11413198 TTTATCTTTTTATTT
1 TTTATCTTTTTATTT
*
11413213 TTTATTTTTTTATTT
1 TTTATCTTTTTATTT
11413228 TTATATCT
1 TT-TATCT
11413236 GATTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATCTTTTTATTT
Found at i:11414180 original size:23 final size:24
Alignment explanation
Indices: 11414127--11414180 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
11414117 AAATAAAATT
11414127 TTTAAATTTTATCAGTTTATTTAA
1 TTTAAATTTTATCAGTTTATTTAA
* * *
11414151 ATAAAATTTTAT-A-TTTGTATTAA
1 TTTAAATTTTATCAGTTTAT-TTAA
11414174 TTTAAAT
1 TTTAAAT
11414181 AAATTTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 4 0.17
23 10 0.42
24 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTAAATTTTATCAGTTTATTTAA
Found at i:11414184 original size:32 final size:32
Alignment explanation
Indices: 11414114--11414184 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
11414104 TGGCTAAAAT
*
11414114 AATAAATAAAATTTTTAAATTTTATCAGTTTA
1 AATAAATAAAATTTTTAAATTTTATCAATTTA
** * *
11414146 TTTAAATAAAA-TTTTATATTTGTATTAATTTA
1 AATAAATAAAATTTTTAAATTT-TATCAATTTA
11414178 AATAAAT
1 AATAAAT
11414185 TTTGAATCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (32 bp):
AATAAATAAAATTTTTAAATTTTATCAATTTA
Found at i:11414209 original size:30 final size:29
Alignment explanation
Indices: 11414144--11414274 Score: 142
Period size: 30 Copynumber: 4.4 Consensus size: 29
11414134 TTTATCAGTT
*
11414144 TATTTAAATAAAATTTTATATTTGT-A-TTA
1 TATTTAAAT-AAATTTTA-ATTTTTAATTTA
* *
11414173 -ATTTAAATAAATTTTGAATCTTTAATTTG
1 TATTTAAATAAATTTT-AATTTTTAATTTA
*
11414202 TATTTAAATAAATTCTTAATTTTTAATATA
1 TATTTAAATAAATT-TTAATTTTTAATTTA
*
11414232 TCTTTAAATATAATTTTTAATTTTTAATTTA
1 TATTTAAATA-AA-TTTTAATTTTTAATTTA
11414263 TATTTAAATAAA
1 TATTTAAATAAA
11414275 CTACTAAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
27 11 0.13
28 10 0.12
29 2 0.02
30 34 0.40
31 27 0.31
32 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TATTTAAATAAATTTTAATTTTTAATTTA
Found at i:11414255 original size:31 final size:30
Alignment explanation
Indices: 11414116--11414274 Score: 155
Period size: 31 Copynumber: 5.3 Consensus size: 30
11414106 GCTAAAATAA
* *
11414116 TAAATAAAATTTTTAAATTTTATCAGTT-TATT
1 TAAAT-AAATTTTT-AATTTT-TAATTTATATT
* *
11414148 TAAATAAAATTTTATATTTGT-A-TTA-ATT
1 TAAATAAATTTTTA-ATTTTTAATTTATATT
* * *
11414176 TAAATAAATTTTGAATCTTTAATTTGTATT
1 TAAATAAATTTTTAATTTTTAATTTATATT
* * *
11414206 TAAATAAATTCTTAATTTTTAATATATCTT
1 TAAATAAATTTTTAATTTTTAATTTATATT
11414236 TAAATATAATTTTTAATTTTTAATTTATATT
1 TAAATA-AATTTTTAATTTTTAATTTATATT
11414267 TAAATAAA
1 TAAATAAA
11414275 CTACTAAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.04
28 18 0.17
29 3 0.03
30 37 0.35
31 38 0.36
32 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
TAAATAAATTTTTAATTTTTAATTTATATT
Found at i:11414259 original size:61 final size:56
Alignment explanation
Indices: 11414116--11414274 Score: 158
Period size: 61 Copynumber: 2.7 Consensus size: 56
11414106 GCTAAAATAA
* *
11414116 TAAATAAAATTTTTAAATTTTATCAGTTTATTTAAATAAAATTTTATATTTGTATTAATT
1 TAAAT-AAATTTTT-AATTTT-TAATTTTATTTAAAT-AAATTTTATATTTGTATTAATT
* * * *
11414176 TAAATAAATTTTGAATCTTTAATTTGTATTTAAATAAATTCTTA-ATTTTTAATATATCTT
1 TAAATAAATTTTTAATTTTTAATTT-TATTTAAATAAATT-TTATATTTGT-AT-TA-ATT
11414236 TAAATATAATTTTTAATTTTTAATTTATATTTAAATAAA
1 TAAATA-AATTTTTAATTTTTAATTT-TATTTAAATAAA
11414275 CTACTAAATA
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
57 14 0.17
58 19 0.23
59 9 0.11
60 13 0.15
61 29 0.35
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (56 bp):
TAAATAAATTTTTAATTTTTAATTTTATTTAAATAAATTTTATATTTGTATTAATT
Found at i:11414424 original size:30 final size:29
Alignment explanation
Indices: 11414388--11414457 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
11414378 TTAGTTTGAA
* *
11414388 ATAAAATTTTAATTGGATATAAATTAAAAT
1 ATAAAATTTTAATTGAATAT-AATAAAAAT
* * *
11414418 ATAAAATTTTATTTGAATGTTATAAAAAT
1 ATAAAATTTTAATTGAATATAATAAAAAT
11414447 ATAAAATTTTA
1 ATAAAATTTTA
11414458 TCTAAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (29 bp):
ATAAAATTTTAATTGAATATAATAAAAAT
Found at i:11417722 original size:11 final size:11
Alignment explanation
Indices: 11417706--11417730 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11417696 GTGAAGATAG
11417706 TCATGAGTAAT
1 TCATGAGTAAT
11417717 TCATGAGTAAT
1 TCATGAGTAAT
11417728 TCA
1 TCA
11417731 CCTTTACACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (11 bp):
TCATGAGTAAT
Found at i:11417877 original size:17 final size:18
Alignment explanation
Indices: 11417842--11417876 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11417832 TGAAAATTCA
11417842 ATAACTTTTATTTTTTTT
1 ATAACTTTTATTTTTTTT
*
11417860 ATAATTTTTATTTTTTT
1 ATAACTTTTATTTTTTT
11417877 AATACTCTAA
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:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
ATAACTTTTATTTTTTTT
Found at i:11426812 original size:53 final size:52
Alignment explanation
Indices: 11426707--11426816 Score: 134
Period size: 53 Copynumber: 2.1 Consensus size: 52
11426697 TGGACAAGAA
* *
11426707 GACTTGCAAAAAAAGAATTCCAAGAGAAAGAGGATTCTTAAAAGGTAAGTTT
1 GACTTGCAAAAAAAGAATTCCAAAAGAAAGAGGATTCTTAAAAGGCAAGTTT
* * *
11426759 GACTTGCAAGAGAAGAATTCTAAAAGGAAA-ATGGATTCTTAATAA-GCAAGTTT
1 GACTTGCAAAAAAAGAATTCCAAAA-GAAAGA-GGATTCTTAA-AAGGCAAGTTT
11426812 GACTT
1 GACTT
11426817 TTCTAAGAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
52 22 0.44
53 26 0.52
54 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (52 bp):
GACTTGCAAAAAAAGAATTCCAAAAGAAAGAGGATTCTTAAAAGGCAAGTTT
Found at i:11435173 original size:12 final size:11
Alignment explanation
Indices: 11435138--11435173 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
11435128 TTATTTAAAA
11435138 AATTATTTTTT
1 AATTATTTTTT
11435149 AATTAATTTTTT
1 AATT-ATTTTTT
11435161 AATTATTTATTT
1 AATTATTT-TTT
11435173 A
1 A
11435174 TATATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:11435212 original size:30 final size:30
Alignment explanation
Indices: 11435173--11435231 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11435163 TTATTTATTT
* * *
11435173 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
11435203 ATATTTATATTTAAAAAATAATATTTTTA
1 ATATATATATTTAAAAAATAATATTTTTA
11435232 TTAATTTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:11439529 original size:16 final size:16
Alignment explanation
Indices: 11439505--11439548 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
11439495 TTTCCCTTTT
11439505 AATAATTTTATATAA-A
1 AATAATTTT-TATAACA
*
11439521 AATATTTTTTATAACA
1 AATAATTTTTATAACA
*
11439537 AATAATTATTAT
1 AATAATTTTTAT
11439549 TATTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAATTTTTATAACA
Found at i:11439592 original size:30 final size:30
Alignment explanation
Indices: 11439556--11439613 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11439546 TATTATTTAT
* *
11439556 TAATAAATCATATTTATATT-TTAATAAATA
1 TAATAAATAATAATTAT-TTATTAATAAATA
11439586 TAATAAATAATAATTATTTATTAATAAA
1 TAATAAATAATAATTATTTATTAATAAA
11439614 AATATCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
TAATAAATAATAATTATTTATTAATAAATA
Found at i:11439834 original size:16 final size:16
Alignment explanation
Indices: 11439815--11439860 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
11439805 AAATTTAGAC
* *
11439815 ATTTTATTTTTTATTA
1 ATTTTATATATTATTA
11439831 ATTTTATATATTATTA
1 ATTTTATATATTATTA
*
11439847 CTTTTATA-ATTATT
1 ATTTTATATATTATT
11439861 TGTAATTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATATATTATTA
Found at i:11443065 original size:54 final size:55
Alignment explanation
Indices: 11442974--11443079 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
11442964 CATTAGATTT
* *
11442974 TTATGTTAATATATTAAACATTTAAATAACAAAATTATTATT-ATTATTAACATA
1 TTATGTTAATATATAAAACATTAAAATAACAAAATTATTATTAATTATTAACATA
* * *
11443028 TTAT-TTAATAATATAAAATATTAAAATAATAATATTATTATTAAATTATTAA
1 TTATGTTAAT-ATATAAAACATTAAAATAACAAAATTATTATT-AATTATTAA
11443080 AAAGATCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 5 0.11
54 31 0.70
56 8 0.18
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (55 bp):
TTATGTTAATATATAAAACATTAAAATAACAAAATTATTATTAATTATTAACATA
Found at i:11443143 original size:41 final size:42
Alignment explanation
Indices: 11443051--11443143 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
11443041 TAAAATATTA
*
11443051 AAATAATAATATTATTATTAAATTATTAAAAAGATCTATAGT
1 AAATAATAATAATATTATTAAATTATTAAAAAGATCTATAGT
* * * *
11443093 AATAAAATAATAATATT-TTATATTA-TAAAAATATTTATTAGT
1 AA-ATAATAATAATATTATTAAATTATTAAAAAGATCTA-TAGT
11443135 AAATAATAA
1 AAATAATAA
11443144 AAGGTATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 16 0.37
42 15 0.35
43 12 0.28
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (42 bp):
AAATAATAATAATATTATTAAATTATTAAAAAGATCTATAGT
Found at i:11451425 original size:2 final size:2
Alignment explanation
Indices: 11451418--11451453 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11451408 AAGAATGTCA
*
11451418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11451454 TTTGTGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11460671 original size:53 final size:53
Alignment explanation
Indices: 11460608--11460712 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
11460598 AATAATATAT
11460608 TTGTATGAGTTTAATGAGATCTACTAATTATTCATATATGGAGTAATGCTTTC
1 TTGTATGAGTTTAATGAGATCTACTAATTATTCATATATGGAGTAATGCTTTC
* *
11460661 TTGTATGAGTTTAATGAGATCTACTAATTTTTCATGTATGGAGTAATGCTTT
1 TTGTATGAGTTTAATGAGATCTACTAATTATTCATATATGGAGTAATGCTTT
11460713 TTGGAGCAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.45
Consensus pattern (53 bp):
TTGTATGAGTTTAATGAGATCTACTAATTATTCATATATGGAGTAATGCTTTC
Found at i:11460914 original size:16 final size:16
Alignment explanation
Indices: 11460893--11460923 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11460883 TTTAAAAGAT
11460893 AAAAAATTGTTCATTA
1 AAAAAATTGTTCATTA
11460909 AAAAAATTGTTCATT
1 AAAAAATTGTTCATT
11460924 CTCGAGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
AAAAAATTGTTCATTA
Found at i:11465831 original size:26 final size:26
Alignment explanation
Indices: 11465757--11465832 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
11465747 TTATTTGAAA
* *
11465757 AAAAGATTTTTTTTCTTTTTTA-TTG
1 AAAAGATTTTTTTTCATTATTATTTG
* **
11465782 AAAGGATTTTTTTTCAAAACTTATTTG
1 AAAAGATTTTTTTTCATTA-TTATTTG
*
11465809 AAAAGTTTTTTTTTCATTATTATT
1 AAAAGATTTTTTTTCATTATTATT
11465833 GTTTTTTCTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
25 14 0.35
26 8 0.20
27 18 0.45
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (26 bp):
AAAAGATTTTTTTTCATTATTATTTG
Found at i:11465978 original size:13 final size:12
Alignment explanation
Indices: 11465913--11465978 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 12
11465903 AAATTTTCTC
11465913 AAAAATAAAATCGA
1 AAAAATAAAAT--A
11465927 AAAAATAAAA-A
1 AAAAATAAAATA
* * **
11465938 TAAAATGAGCTA
1 AAAAATAAAATA
11465950 AAAAATAAAATCA
1 AAAAATAAAAT-A
11465963 AAAAATAAAAATA
1 AAAAAT-AAAATA
11465976 AAA
1 AAA
11465979 TGAAAAAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
11 7 0.17
12 8 0.20
13 11 0.27
14 15 0.37
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:11466894 original size:3 final size:3
Alignment explanation
Indices: 11466874--11466970 Score: 80
Period size: 3 Copynumber: 34.3 Consensus size: 3
11466864 AAAAGAGAAA
* * * *
11466874 AAT AAA AAT AA- AAA AAT AAT AAT AAT AGT AA- AGT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * **
11466919 GAT AAT AAT -AT AAT AA- AAT AAT AAT AGT AAT AAT GGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11466965 -AT AAT A
1 AAT AAT A
11466971 CACTATATCA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
2 10 0.14
3 63 0.86
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11466916 original size:22 final size:21
Alignment explanation
Indices: 11466888--11466965 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
11466878 AAAATAAAAA
11466888 AATAATAATAATAGTAAAGTAT
1 AATAATAATAATAGTAAA-TAT
* *
11466910 AATAATAATGATAAT-AATAT
1 AATAATAATAATAGTAAATAT
11466930 AATAAAATAATAATAGT-AATAAT
1 AAT--AATAATAATAGTAAAT-AT
**
11466953 GGTAATAATAATA
1 AATAATAATAATA
11466966 TAATACACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.13
21 12 0.26
22 26 0.55
23 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (21 bp):
AATAATAATAATAGTAAATAT
Found at i:11466923 original size:25 final size:25
Alignment explanation
Indices: 11466880--11466970 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
11466870 GAAAAATAAA
* *
11466880 AATAAAAAAATAATAATAATAGTA-
1 AATAAAATAATAATAATAATAATAT
* *
11466904 AAGTATAATAATAATGATAATAATAT
1 AA-TAAAATAATAATAATAATAATAT
* *
11466930 AATAAAATAATAATAGTAATAATGGT
1 AATAAAATAATAATAATAATAAT-AT
11466956 AATAATAAT-ATAATA
1 AATAA-AATAATAATA
11466971 CACTATATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
24 2 0.04
25 36 0.65
26 14 0.25
27 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.31
Consensus pattern (25 bp):
AATAAAATAATAATAATAATAATAT
Found at i:11466970 original size:5 final size:5
Alignment explanation
Indices: 11466923--11467046 Score: 65
Period size: 5 Copynumber: 23.2 Consensus size: 5
11466913 AATAATGATA
* *
11466923 ATAAT ATAAT A-AA- ATAAT AATAGT AATAAT GGTAAT AATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT -ATAAT -ATAAT ATAAT
* * * * *
11466970 ACACTAT ATCAT ATAATT ATTAAT ATACT ATACT ATAAT AGTAAG ATAAT
1 ATA--AT ATAAT ATAA-T A-TAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
11467020 ATAAT ATCAA- ATAAT ATAAT AATAAT A
1 ATAAT AT-AAT ATAAT ATAAT -ATAAT A
11467047 ATACACAAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
3 1 0.01
4 6 0.06
5 49 0.52
6 32 0.34
7 6 0.06
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:11467044 original size:26 final size:26
Alignment explanation
Indices: 11466922--11467046 Score: 80
Period size: 26 Copynumber: 4.7 Consensus size: 26
11466912 TAATAATGAT
11466922 AATAATATAATAA-AATAATAATAGT--
1 AATAATATAATAATAAT-ATAATA-TAC
* *
11466947 AATAATGGTAATAATAATATAATACAC
1 AATAAT-ATAATAATAATATAATATAC
* * *
11466974 TATATCATATAATTATTAATATACTATAC
1 -A-ATAATATAA-TAATAATATAATATAC
* *
11467003 TATAATAGTAA-GATAATATAATAT-C
1 AATAATA-TAATAATAATATAATATAC
11467028 AAATAATATAATAATAATA
1 -AATAATATAATAATAATA
11467047 ATACACAAAC
Statistics
Matches: 76, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
25 10 0.13
26 34 0.45
27 8 0.11
28 7 0.09
29 17 0.22
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (26 bp):
AATAATATAATAATAATATAATATAC
Found at i:11470009 original size:14 final size:15
Alignment explanation
Indices: 11469990--11470018 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11469980 TCTACCTCAG
11469990 ATTTCTCT-TTCCCC
1 ATTTCTCTCTTCCCC
11470004 ATTTCTCTCTTCCCC
1 ATTTCTCTCTTCCCC
11470019 TTTTTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.45, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTCTCTCTTCCCC
Found at i:11470559 original size:24 final size:24
Alignment explanation
Indices: 11470523--11470573 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
11470513 TCTTTCTTTT
* *
11470523 TTTTTAAAATTTATTTATTA-TTC
1 TTTTTAAAATTTAATCATTATTTC
11470546 TTTTTAAAATTTTAATCATTATTTC
1 TTTTTAAAA-TTTAATCATTATTTC
11470571 TTT
1 TTT
11470574 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 9 0.38
25 6 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTAAAATTTAATCATTATTTC
Found at i:11470603 original size:13 final size:12
Alignment explanation
Indices: 11470571--11470604 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11470561 TCATTATTTC
11470571 TTTAAATAAAAA
1 TTTAAATAAAAA
*
11470583 TTAAAATAAAAA
1 TTTAAATAAAAA
11470595 TTTAGAATAA
1 TTTA-AATAA
11470605 CCAGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
TTTAAATAAAAA
Found at i:11471405 original size:21 final size:21
Alignment explanation
Indices: 11471376--11471419 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11471366 AATTGGATGG
11471376 AATTTTTTTA-TCCAATTCTA
1 AATTTTTTTATTCCAATTCTA
*
11471396 AATTTATTTTATTCCATTTCTA
1 AATTT-TTTTATTCCAATTCTA
11471418 AA
1 AA
11471420 AGTTTTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTTTTATTCCAATTCTA
Found at i:11472368 original size:23 final size:23
Alignment explanation
Indices: 11472334--11472380 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11472324 TAACTGATTA
*
11472334 ATTACATGAAGAATTTGAA-TAGT
1 ATTACATAAAGAATTT-AAGTAGT
11472357 ATTACATAAAGAATTTAAGTAGT
1 ATTACATAAAGAATTTAAGTAGT
11472380 A
1 A
11472381 CAAATTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (23 bp):
ATTACATAAAGAATTTAAGTAGT
Found at i:11474874 original size:52 final size:52
Alignment explanation
Indices: 11474796--11474906 Score: 186
Period size: 52 Copynumber: 2.1 Consensus size: 52
11474786 ATAATCATAT
* *
11474796 AAACTTGCCTATTAAGAATCCCTTTCCTCTTATAATTCTTCTCTTGCAAGTC
1 AAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTC
**
11474848 AAACTTACCTATTAAGAATCTTTTTCCTCTTAGAATTCTTCTCTTGCAAGTC
1 AAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTC
11474900 AAACTTA
1 AAACTTA
11474907 TCCATCAAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (52 bp):
AAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTC
Found at i:11477037 original size:19 final size:17
Alignment explanation
Indices: 11476998--11477062 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
11476988 TGTGAATTTT
* * *
11476998 TTTTTAATTTGAAGAAA
1 TTTTTATTTTTAAAAAA
*
11477015 TTTTTATTTTTAGTAAAA
1 TTTTTATTTTTA-AAAAA
*
11477033 GTTTTATCTTTTAAAAAA
1 TTTTTAT-TTTTAAAAAA
11477051 TTTTATATTTTT
1 TTTT-TATTTTT
11477063 TTGGACGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 10 0.26
18 20 0.53
19 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTTATTTTTAAAAAA
Found at i:11477062 original size:18 final size:19
Alignment explanation
Indices: 11477012--11477062 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
11477002 TAATTTGAAG
11477012 AAATTTT-TATTTTTAGTAA
1 AAATTTTATATTTTTAG-AA
* *
11477031 AAGTTTTAT-CTTTTA-AA
1 AAATTTTATATTTTTAGAA
11477048 AAATTTTATATTTTT
1 AAATTTTATATTTTT
11477063 TTGGACGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
19 11 0.42
20 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
AAATTTTATATTTTTAGAA
Found at i:11477236 original size:19 final size:19
Alignment explanation
Indices: 11477200--11477235 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11477190 TTTTTTTCAA
*
11477200 AATTTTTTTTAGATTTTTG
1 AATTTTTTTGAGATTTTTG
11477219 AATTTTTTTGA-ATTTTT
1 AATTTTTTTGAGATTTTT
11477236 TATTCATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (19 bp):
AATTTTTTTGAGATTTTTG
Found at i:11478416 original size:110 final size:111
Alignment explanation
Indices: 11478302--11478527 Score: 418
Period size: 110 Copynumber: 2.0 Consensus size: 111
11478292 TTGTGTTTTG
11478302 GGTTTAGATAATTAAGATTTTCTTTTGAGAGTTATGTGTTAGAGAAAGGAGTTGAGAAGAAACAC
1 GGTTTAGATAATTAAGATTTTCTTTTGAGAGTTATGTGTTAGAGAAAGGAGTTGAGAAGAAACAC
* *
11478367 AAAAAGGAGATATTCAATAAAAAGTTTTGAGAACAAAA-TTTTAAA
66 AAAAAAGAGATATTCAACAAAAAGTTTTGAGAACAAAATTTTTAAA
*
11478412 GGTTTAGATAATTAAGATTTTCTTTTGAGAGTTATGTGTTAGAGAAATGAGTTGAGAAGAAACAC
1 GGTTTAGATAATTAAGATTTTCTTTTGAGAGTTATGTGTTAGAGAAAGGAGTTGAGAAGAAACAC
11478477 AAAAAAGAGATATTCAACAAAAAGTTTTGAGAACAAAATTTTTAAA
66 AAAAAAGAGATATTCAACAAAAAGTTTTGAGAACAAAATTTTTAAA
11478523 GGTTT
1 GGTTT
11478528 GAGAAAAATA
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
110 100 0.89
111 12 0.11
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (111 bp):
GGTTTAGATAATTAAGATTTTCTTTTGAGAGTTATGTGTTAGAGAAAGGAGTTGAGAAGAAACAC
AAAAAAGAGATATTCAACAAAAAGTTTTGAGAACAAAATTTTTAAA
Found at i:11478989 original size:38 final size:37
Alignment explanation
Indices: 11478946--11479022 Score: 109
Period size: 38 Copynumber: 2.1 Consensus size: 37
11478936 AAAGAAATAA
* *
11478946 TTACCATAAAATCCTACCAACATATTAGAGGATAATTT
1 TTACCAAAAAATCCTACCAACATATTAGAAGAT-ATTT
* *
11478984 TTACCAAAAAATCTTACCAACATATTGGAAGATATTT
1 TTACCAAAAAATCCTACCAACATATTAGAAGATATTT
11479021 TT
1 TT
11479023 GAAAATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 6 0.17
38 29 0.83
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (37 bp):
TTACCAAAAAATCCTACCAACATATTAGAAGATATTT
Found at i:11481505 original size:3 final size:3
Alignment explanation
Indices: 11481497--11481527 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11481487 CCAATTAGAT
11481497 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11481528 CCTTACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11481586 original size:3 final size:3
Alignment explanation
Indices: 11481578--11481614 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11481568 TATATCATAT
11481578 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11481615 ATTTTCGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11482089 original size:12 final size:10
Alignment explanation
Indices: 11482063--11482113 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
11482053 TGACCTAGGA
*
11482063 ATTTTTTTGA
1 ATTTTTTTGG
*
11482073 ATTTTTTAGG
1 ATTTTTTTGG
11482083 ATCTTTTTTGG
1 AT-TTTTTTGG
11482094 ATTTTTTTTGG
1 A-TTTTTTTGG
*
11482105 GTTTTTTTG
1 ATTTTTTTG
11482114 AGTTTGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 18 0.51
11 16 0.46
12 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.18, T:0.69
Consensus pattern (10 bp):
ATTTTTTTGG
Found at i:11482101 original size:11 final size:11
Alignment explanation
Indices: 11482064--11482112 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
11482054 GACCTAGGAA
*
11482064 TTTTTTT-GAA
1 TTTTTTTGGAT
*
11482074 TTTTTTAGGAT
1 TTTTTTTGGAT
*
11482085 CTTTTTTGGAT
1 TTTTTTTGGAT
*
11482096 TTTTTTTGGGT
1 TTTTTTTGGAT
11482107 TTTTTT
1 TTTTTT
11482113 GAGTTTGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 6 0.19
11 26 0.81
ACGTcount: A:0.10, C:0.02, G:0.16, T:0.71
Consensus pattern (11 bp):
TTTTTTTGGAT
Found at i:11482110 original size:21 final size:21
Alignment explanation
Indices: 11482058--11482113 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
11482048 TAGGATGACC
11482058 TAGGAATTTTTTT-GAATTTTT
1 TAGG-ATTTTTTTGGAATTTTT
*
11482079 TAGGATCTTTTTTGGATTTTTT
1 TAGGAT-TTTTTTGGAATTTTT
* *
11482101 TTGGGTTTTTTTG
1 TAGGATTTTTTTG
11482114 AGTTTGGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 17 0.57
22 11 0.37
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.64
Consensus pattern (21 bp):
TAGGATTTTTTTGGAATTTTT
Found at i:11482160 original size:13 final size:13
Alignment explanation
Indices: 11482142--11482166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11482132 CGACGAAGGA
11482142 TGAATTTTTTGGT
1 TGAATTTTTTGGT
11482155 TGAATTTTTTGG
1 TGAATTTTTTGG
11482167 CAGGGTTTGA
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:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (13 bp):
TGAATTTTTTGGT
Found at i:11482354 original size:11 final size:10
Alignment explanation
Indices: 11482306--11482355 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
11482296 TGACCTAGGA
*
11482306 ATTTTTTTGA
1 ATTTTTTTGG
*
11482316 ATTTTTTAGG
1 ATTTTTTTGG
11482326 ATCTTTTTTGG
1 AT-TTTTTTGG
11482337 ATTTTTTTGG
1 ATTTTTTTGG
*
11482347 GTTTTTTTG
1 ATTTTTTTG
11482356 AGTTTGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.12, C:0.02, G:0.18, T:0.68
Consensus pattern (10 bp):
ATTTTTTTGG
Found at i:11482402 original size:13 final size:13
Alignment explanation
Indices: 11482384--11482408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11482374 CAACGAAGGA
11482384 TGAATTTTTTGGT
1 TGAATTTTTTGGT
11482397 TGAATTTTTTGG
1 TGAATTTTTTGG
11482409 CAGGGTTTGA
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:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (13 bp):
TGAATTTTTTGGT
Found at i:11494176 original size:118 final size:118
Alignment explanation
Indices: 11494017--11494492 Score: 468
Period size: 118 Copynumber: 4.1 Consensus size: 118
11494007 TTCTTGATCT
* * * * * * *
11494017 ATGGTTTCGTC-CCGATTACCTAATCTTGGCTTAGTCTAGATCATTTTTCTTGATTTGTGGTTTC
1 ATGGTTTCGTCTCAG-TCACCTGATCTTGGCTCAGTCCAGATCATTCTTCTTGATTCGTGGTTTC
* * * * * *
11494081 ATCT-TGATCATCTATTTTAATCTCAACTCAATCCTGATCATTTTATTTTAACTC
65 ATCTCTGATCATCTATTTTGACCTCAACTCCATCCTGGTCACTTCA-TTTAACTC
* * * *
11494135 ATGGTTTCGTTTCAGTCACCTGATCTTGGCTCAATCCAGATCATTTCTT-ATGATTCGTGGTTCC
1 ATGGTTTCGTCTCAGTCACCTGATCTTGGCTCAGTCCAGATCA-TTCTTCTTGATTCGTGGTTTC
* * * * *
11494199 ATCTCT-ATCATTTATTTATGACCTTAACTCGATCTTGGTCACTTCATTTGACT-
65 ATCTCTGATCATCTATTT-TGACCTCAACTCCATCCTGGTCACTTCATTTAACTC
* *
11494252 AGTGGTTTCGTCTC-GATCACCTGATCTTGGCTCAGTCCAAATCATTCTTCTTGATTCATGGTTT
1 A-TGGTTTCGTCTCAG-TCACCTGATCTTGGCTCAGTCCAGATCATTCTTCTTGATTCGTGGTTT
** ** * *
11494316 CATC-CTGATCATCTATTTTGACCTTGACTCCATCCTGGTTGCTTTATTTGACTC
64 CATCTCTGATCATCTATTTTGACCTCAACTCCATCCTGGTCACTTCATTTAACTC
* * * * *
11494370 ATGGTTTCATCTCAGTCA--TTAGTCTTAGCTTAGTCCAGATCATTCTTCTTGATTCGTGGTTTT
1 ATGGTTTCGTCTCAGTCACCTGA-TCTTGGCTCAGTCCAGATCATTCTTCTTGATTCGTGGTTTC
* * *
11494433 AT-TCTGATCATCTATTTTGACCTCGACTCCATCTTGGTCATTTCATTTAACTC
65 ATCTCTGATCATCTATTTTGACCTCAACTCCATCCTGGTCACTTCATTTAACTC
*
11494486 GTGGTTT
1 ATGGTTT
11494493 ATTCCTGGTC
Statistics
Matches: 297, Mismatches: 49, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
115 2 0.01
116 87 0.29
117 52 0.18
118 129 0.43
119 27 0.09
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (118 bp):
ATGGTTTCGTCTCAGTCACCTGATCTTGGCTCAGTCCAGATCATTCTTCTTGATTCGTGGTTTCA
TCTCTGATCATCTATTTTGACCTCAACTCCATCCTGGTCACTTCATTTAACTC
Found at i:11494329 original size:236 final size:233
Alignment explanation
Indices: 11494010--11494492 Score: 551
Period size: 236 Copynumber: 2.1 Consensus size: 233
11494000 ATTATTCTTC
* * * * * **
11494010 TTGATCTA-TGGTTTCGTCCCGATTACCTAATCTTGGCTTAGTCTAGATCATTTTTCTTGATTTG
1 TTGA-CTAGTGGTTTCGTCCCGATCACCTAATCTTGGCTCAGTCCAAATCATTCTTCTTGATTCA
* * *
11494074 TGGTTTCATCTTGATCATCTATTTTAATCTCAACTCAATCCTGATCATTTTATTTTAACTCATGG
65 TGGTTTCATCCTGATCATCTATTTTAACCTCAACTCAATCCTGATCACTTTA-TTTAACTCATGG
* * *
11494139 TTTCGTTTCAGTCACCTGA-TCTTGGCTCAATCCAGATCATTTCTT-ATGATTCGTGGTTCCATC
129 TTTCATCTCAGTCA--TGAGTCTTAGCTCAATCCAGATCA-TTCTTCATGATTCGTGGTTCCAT-
* * *
11494202 TCT-ATCATTTATTTATGACCTTAACTCGATCTTGGTCACTTCAT
190 TCTGATCATCTATTT-TGACCTCAACTCCATCTTGGTCACTTCAT
* *
11494246 TTGACTAGTGGTTTCGTCTCGATCACCTGATCTTGGCTCAGTCCAAATCATTCTTCTTGATTCAT
1 TTGACTAGTGGTTTCGTCCCGATCACCTAATCTTGGCTCAGTCCAAATCATTCTTCTTGATTCAT
* ** * * ** *
11494311 GGTTTCATCCTGATCATCTATTTTGACCTTGACTCCATCCTGGTTGCTTTATTTGACTCATGGTT
66 GGTTTCATCCTGATCATCTATTTTAACCTCAACTCAATCCTGATCACTTTATTTAACTCATGGTT
* * * * **
11494376 TCATCTCAGTCATTAGTCTTAGCTTAGTCCAGATCATTCTTCTTGATTCGTGGTTTTATTCTGAT
131 TCATCTCAGTCATGAGTCTTAGCTCAATCCAGATCATTCTTCATGATTCGTGGTTCCATTCTGAT
* *
11494441 CATCTATTTTGACCTCGACTCCATCTTGGTCATTTCAT
196 CATCTATTTTGACCTCAACTCCATCTTGGTCACTTCAT
* *
11494479 TTAACTCGTGGTTT
1 TTGACTAGTGGTTT
11494493 ATTCCTGGTC
Statistics
Matches: 207, Mismatches: 36, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
233 47 0.23
234 41 0.20
235 26 0.13
236 93 0.45
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (233 bp):
TTGACTAGTGGTTTCGTCCCGATCACCTAATCTTGGCTCAGTCCAAATCATTCTTCTTGATTCAT
GGTTTCATCCTGATCATCTATTTTAACCTCAACTCAATCCTGATCACTTTATTTAACTCATGGTT
TCATCTCAGTCATGAGTCTTAGCTCAATCCAGATCATTCTTCATGATTCGTGGTTCCATTCTGAT
CATCTATTTTGACCTCAACTCCATCTTGGTCACTTCAT
Found at i:11494991 original size:16 final size:16
Alignment explanation
Indices: 11494970--11495012 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
11494960 ATTATTATAT
11494970 TTTTATTTTTTCTTTC
1 TTTTATTTTTTCTTTC
*
11494986 TTTTA-TTTTTCCTTC
1 TTTTATTTTTTCTTTC
11495001 TTTT-TTTTTTCT
1 TTTTATTTTTTCT
11495013 GATTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTCTTTC
Found at i:11495840 original size:20 final size:20
Alignment explanation
Indices: 11495812--11495849 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11495802 CCGTAGGTAT
*
11495812 TTTTTATTT-TTTGATTTTGA
1 TTTTAATTTATTT-ATTTTGA
11495832 TTTTAATTTATTTATTTT
1 TTTTAATTTATTTATTTT
11495850 TACCCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTAATTTATTTATTTTGA
Found at i:11498225 original size:3 final size:3
Alignment explanation
Indices: 11498217--11498291 Score: 91
Period size: 3 Copynumber: 25.0 Consensus size: 3
11498207 TTATGAAAAT
*
11498217 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
11498266 TT- TTA CTA TTG TT- TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA
11498292 CTTTTTTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
2 4 0.06
3 53 0.84
4 6 0.10
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11498440 original size:3 final size:3
Alignment explanation
Indices: 11498432--11498466 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11498422 TTTTATATAT
11498432 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11498467 TATTTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11498474 original size:9 final size:10
Alignment explanation
Indices: 11498432--11498474 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
11498422 TTTTATATAT
11498432 TTATTA-TTA
1 TTATTATTTA
11498441 TTATTA-TTA
1 TTATTATTTA
11498450 TTATTA-TTA
1 TTATTATTTA
11498459 TTATTATTTA
1 TTATTATTTA
11498469 TT-TTAT
1 TTATTAT
11498475 AAGGTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 28 0.85
10 5 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATTATTTA
Found at i:11498662 original size:11 final size:10
Alignment explanation
Indices: 11498637--11498661 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11498627 TTAAAATAAG
11498637 AAAAATATTT
1 AAAAATATTT
11498647 AAAAATATTT
1 AAAAATATTT
11498657 AAAAA
1 AAAAA
11498662 AAAAACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATATTT
Found at i:11505682 original size:26 final size:26
Alignment explanation
Indices: 11505643--11505709 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
11505633 AATTATTTTA
11505643 AAAAATTATAAAAAAT-TAAAAAGCTG
1 AAAAATTATAAAAAATATAAAAA-CTG
* * * *
11505669 AAAAATTTTTAAAAATATGAAAACTT
1 AAAAATTATAAAAAATATAAAAACTG
*
11505695 AAAAATT-CAAAAAAT
1 AAAAATTATAAAAAAT
11505710 CTAGAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 6 0.18
26 23 0.68
27 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAAATTATAAAAAATATAAAAACTG
Found at i:11506006 original size:21 final size:21
Alignment explanation
Indices: 11505952--11506029 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
11505942 ATTTAAAATT
* *
11505952 ATTTTAA-AATGTTTATTAAA
1 ATTTTAAGAATTTTTTTTAAA
* **
11505972 ATTTT-AGGATTTTTATTTTTA
1 ATTTTAAGAATTTTT-TTTAAA
11505993 ATTTTACA-AATTTTTTTTAAA
1 ATTTTA-AGAATTTTTTTTAAA
11506014 ATTTTAAGAATTTTTT
1 ATTTTAAGAATTTTTT
11506030 AATAAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 1 0.02
20 11 0.24
21 26 0.58
22 6 0.13
23 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTAAGAATTTTTTTTAAA
Found at i:11506038 original size:42 final size:40
Alignment explanation
Indices: 11505922--11506039 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 40
11505912 ACAATTTTAA
* *
11505922 TTTTTATATATTTTAGAATTATTTAA-AATTATTTTAAAATGT
1 TTTTTA-AAATTTTAGAATTTTTTAATAA--ATTTTAAAATGT
* * ** * *
11505964 TTATTAAAATTTTAGGATTTTTATTTTTAATTTTACAAATTT
1 TTTTTAAAATTTTAGAATTTTT-TAATAAATTTTA-AAATGT
11506006 TTTTTAAAATTTTAAGAATTTTTTAATAAATTTT
1 TTTTTAAAATTTT-AGAATTTTTTAATAAATTTT
11506040 TTGATTTAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
41 19 0.32
42 31 0.53
43 9 0.15
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (40 bp):
TTTTTAAAATTTTAGAATTTTTTAATAAATTTTAAAATGT
Found at i:11506103 original size:18 final size:19
Alignment explanation
Indices: 11506071--11506114 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
11506061 TTTTATTTTC
* **
11506071 AATTTTTTATGTTTTTGTG
1 AATTTTTTATATTTTACTG
11506090 AATTTTTTA-ATTTTACTG
1 AATTTTTTATATTTTACTG
11506108 AATTTTT
1 AATTTTT
11506115 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (19 bp):
AATTTTTTATATTTTACTG
Found at i:11506217 original size:17 final size:18
Alignment explanation
Indices: 11506182--11506220 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11506172 GATTATTTTG
11506182 ATTTTGTTAAGTTTAATA
1 ATTTTGTTAAGTTTAATA
* *
11506200 ATTTT-TTAATTTTTATA
1 ATTTTGTTAAGTTTAATA
11506217 ATTT
1 ATTT
11506221 CTAAAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTGTTAAGTTTAATA
Found at i:11509258 original size:26 final size:27
Alignment explanation
Indices: 11509229--11509279 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
11509219 TGACGATTGG
11509229 AATTTCA-TTGAGATAAATGTTTCATT
1 AATTTCATTTGAGATAAATGTTTCATT
11509255 AATTTCATTTGAGATAAATGTTTCA
1 AATTTCATTTGAGATAAATGTTTCA
11509280 CTCTCTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (27 bp):
AATTTCATTTGAGATAAATGTTTCATT
Found at i:11509288 original size:26 final size:27
Alignment explanation
Indices: 11509236--11509289 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11509226 TGGAATTTCA
* *
11509236 TTGAGATAAATGTTTCATTAATTTCAT
1 TTGAGATAAATGTTTCACTAATCTCAT
*
11509263 TTGAGATAAATGTTTCACT-CTCTCAT
1 TTGAGATAAATGTTTCACTAATCTCAT
11509289 T
1 T
11509290 GCTACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (27 bp):
TTGAGATAAATGTTTCACTAATCTCAT
Found at i:11514722 original size:21 final size:21
Alignment explanation
Indices: 11514690--11514734 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11514680 ATAATTTGCC
11514690 AAATTTTTTTA-TCCAATTCT
1 AAATTTTTTTATTCCAATTCT
*
11514710 AAATTTATTTTATTCCATTTCT
1 AAATTT-TTTTATTCCAATTCT
11514732 AAA
1 AAA
11514735 AGTTTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 5 0.23
22 11 0.50
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTTTTTATTCCAATTCT
Found at i:11515708 original size:23 final size:23
Alignment explanation
Indices: 11515678--11515723 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
11515668 AATCGATTAC
*
11515678 TTACATGAAGAATTTGAATAGTA
1 TTACATGAAGAATTTAAATAGTA
11515701 TTACATGAAGAATTTAAATAGTA
1 TTACATGAAGAATTTAAATAGTA
11515724 CAAATTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (23 bp):
TTACATGAAGAATTTAAATAGTA
Found at i:11516027 original size:17 final size:17
Alignment explanation
Indices: 11516007--11516053 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
11515997 ATAATTTTTA
*
11516007 AAATATAAAAAATATAT
1 AAATATAAAAAATAAAT
*
11516024 AAATAT-AAAATTAAAT
1 AAATATAAAAAATAAAT
11516040 AAATAATAAAAAAT
1 AAAT-ATAAAAAAT
11516054 TATTATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 12 0.48
17 8 0.32
18 5 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATATAAAAAATAAAT
Found at i:11516810 original size:80 final size:80
Alignment explanation
Indices: 11516672--11516834 Score: 200
Period size: 80 Copynumber: 2.0 Consensus size: 80
11516662 ATGATCATAC
* * * ** *
11516672 ATGGCAAATGAAGGCAACTTATGTGGCAGTCCACATGTCACAATTCTAGGCAACAGGGGATGAAA
1 ATGGCAAATGAAGGCAACATATGTGACAATCCACATGTCACAATTCTAAACAACAGGGGATAAAA
* *
11516737 GTATATGTATGTTAG
66 ATATATGTATATTAG
** ** * *
11516752 ATGGCAAATGAAGGCTGCATATGTGACAATCCATTTGTCACAATTCTAAACTATAGGGGATAAAA
1 ATGGCAAATGAAGGCAACATATGTGACAATCCACATGTCACAATTCTAAACAACAGGGGATAAAA
11516817 ATATATGTATATTAG
66 ATATATGTATATTAG
11516832 ATG
1 ATG
11516835 TGGCAGTCCA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (80 bp):
ATGGCAAATGAAGGCAACATATGTGACAATCCACATGTCACAATTCTAAACAACAGGGGATAAAA
ATATATGTATATTAG
Found at i:11527203 original size:20 final size:19
Alignment explanation
Indices: 11527158--11527206 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 19
11527148 AAGAAATAAA
11527158 GTTTTAAGTTTTGGATTTTG
1 GTTTTAAGTTTTGGA-TTTG
11527178 GATTTTAGAGTTTTGG-TTTG
1 G-TTTTA-AGTTTTGGATTTG
11527198 CGTTTTAAG
1 -GTTTTAAG
11527207 GCTTTGAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 6 0.23
22 8 0.31
ACGTcount: A:0.16, C:0.02, G:0.27, T:0.55
Consensus pattern (19 bp):
GTTTTAAGTTTTGGATTTG
Found at i:11527362 original size:3 final size:3
Alignment explanation
Indices: 11527354--11527405 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
11527344 TTATGAAAAC
* *
11527354 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TT- TTA CTA TTG TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
11527398 TTA TTA TT
1 TTA TTA TT
11527406 TGTTACTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11528881 original size:14 final size:14
Alignment explanation
Indices: 11528856--11528907 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
11528846 ATTAAACCAA
*
11528856 TATTAATATTTTAT
1 TATTAATTTTTTAT
11528870 TATTAATTTTTTTCTAT
1 TATTAA--TTTTT-TAT
*
11528887 TATTAATTTTTTGT
1 TATTAATTTTTTAT
11528901 TA-TAATT
1 TATTAATT
11528908 ATTAATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 5 0.15
14 10 0.30
15 5 0.15
16 4 0.12
17 9 0.27
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTAATTTTTTAT
Found at i:11528908 original size:17 final size:16
Alignment explanation
Indices: 11528864--11528908 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
11528854 AATATTAATA
11528864 TTTTATTATTAATTTT
1 TTTTATTATTAATTTT
11528880 TTTCTATTATTAATTTT
1 TTT-TATTATTAATTTT
*
11528897 TTGTTATAATTA
1 TT-TTATTATTA
11528909 TTAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 3 0.12
17 22 0.85
18 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTATTATTAATTTT
Found at i:11528908 original size:20 final size:18
Alignment explanation
Indices: 11528867--11528913 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
11528857 ATTAATATTT
*
11528867 TATTATTAA-TTTTTTTC
1 TATTATTAATTTTTTTTA
11528884 TATTATTAATTTTTTGTTA
1 TATTATTAATTTTTT-TTA
11528903 TAATTATTAAT
1 T-ATTATTAAT
11528914 AATTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 5 0.19
19 3 0.12
20 9 0.35
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATTATTAATTTTTTTTA
Found at i:11536021 original size:20 final size:20
Alignment explanation
Indices: 11535941--11536026 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 20
11535931 TTAGCATTGA
11535941 AAAAAATTAT--AAAATTTT
1 AAAAAATTATAAAAAATTTT
*
11535959 CAAAAAAAATT-TAAAAAATAAATT
1 ---AAAAAATTATAAAAAAT--TTT
* * **
11535983 AAAAAAATATGAATTATTTT
1 AAAAAATTATAAAAAATTTT
11536003 AAAAAATTATAAAAAATTTT
1 AAAAAATTATAAAAAATTTT
11536023 AAAA
1 AAAA
11536027 CTGAAAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
20 23 0.46
21 15 0.30
22 10 0.20
24 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAAAATTATAAAAAATTTT
Found at i:11536231 original size:20 final size:20
Alignment explanation
Indices: 11536206--11536262 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
11536196 TGAAAATAAT
11536206 AAAAATC-TAAAATGTTTTGA
1 AAAAATCTTAAAAT-TTTTGA
11536226 AAAAATCTTAAAATTTTT-A
1 AAAAATCTTAAAATTTTTGA
*
11536245 CAAAAT-TGTAAAATTTTT
1 AAAAATCT-TAAAATTTTT
11536263 TTCTTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 11 0.32
21 6 0.18
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
AAAAATCTTAAAATTTTTGA
Found at i:11536237 original size:21 final size:19
Alignment explanation
Indices: 11536206--11536262 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
11536196 TGAAAATAAT
11536206 AAAAATCTAAAATGTTTTGA
1 AAAAATCTAAAAT-TTTTGA
11536226 AAAAATCTTAAAATTTTT-A
1 AAAAATC-TAAAATTTTTGA
* *
11536245 CAAAATTGTAAAATTTTT
1 -AAAAATCTAAAATTTTT
11536263 TTCTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 11 0.33
20 16 0.48
21 6 0.18
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
AAAAATCTAAAATTTTTGA
Found at i:11536572 original size:17 final size:17
Alignment explanation
Indices: 11536552--11536590 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11536542 GATTATTTTG
11536552 AATTTTTTAAATTTAAT
1 AATTTTTTAAATTTAAT
* *
11536569 AATTTTTTAATTTTTAT
1 AATTTTTTAAATTTAAT
11536586 AATTT
1 AATTT
11536591 GTAAAAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTTAAATTTAAT
Found at i:11541806 original size:50 final size:51
Alignment explanation
Indices: 11541715--11541813 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
11541705 GAACATCCCG
* * * *
11541715 ACTCTTCGGTGAGTTCTCAAAATTTATTAAATAAATTTTAAGATTATCTGA
1 ACTCTTCGGTGAATCCTCAAAAATTATTAAACAAATTTTAAGATTATCTGA
*
11541766 ACTCTTCGGTGAAATCCT-AAAAATT-TTAAACAAGTTTTAAGATTATCT
1 ACTCTTCGGTG-AATCCTCAAAAATTATTAAACAAATTTTAAGATTATCT
11541814 CAATTTTGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 21 0.50
51 17 0.40
52 4 0.10
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (51 bp):
ACTCTTCGGTGAATCCTCAAAAATTATTAAACAAATTTTAAGATTATCTGA
Found at i:11542380 original size:3 final size:3
Alignment explanation
Indices: 11542374--11542402 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11542364 CCTTAAATAG
11542374 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11542403 TGCATATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11542548 original size:12 final size:12
Alignment explanation
Indices: 11542527--11542585 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
11542517 GACATCATAA
11542527 AAAAAT-AACAT
1 AAAAATCAACAT
*
11542538 AAAAATCAACAAA
1 AAAAATCAAC-AT
*
11542551 AAAAATCAAAAT
1 AAAAATCAACAT
* *
11542563 CAAAATCAAAAT
1 AAAAATCAACAT
11542575 AGAAAAT-AACA
1 A-AAAATCAACA
11542586 AGAAAAGGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 6 0.15
12 18 0.46
13 15 0.38
ACGTcount: A:0.73, C:0.12, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAATCAACAT
Found at i:11542553 original size:25 final size:23
Alignment explanation
Indices: 11542525--11542585 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
11542515 ATGACATCAT
11542525 AAAAAAATAACATAAAAATCAACA
1 AAAAAAATAACATAAAAATCAA-A
* *
11542549 AAAAAAATCAAAATCAAAATCAAA
1 AAAAAAAT-AACATAAAAATCAAA
*
11542573 ATAGAAAATAACA
1 A-AAAAAATAACA
11542586 AGAAAAGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAAAAATAACATAAAAATCAAA
Found at i:11546677 original size:122 final size:120
Alignment explanation
Indices: 11546420--11546765 Score: 531
Period size: 118 Copynumber: 2.9 Consensus size: 120
11546410 GCTTTTGTAC
11546420 AGGAAAAATTGATACTTTCAACTTTTCCTT-AAATAAAAA-TATTTTTTTGAAAATTTATTTTTA
1 AGGAAAAATTGATACTTTCAACTTTT-CTTCAAA-AAAAACT-TTTTTTTGAAAATTTATTTTTA
* *
11546483 AGGAAAATTGATACTTTTAACTTTTCCCAAAAAATATTTTTTTTAGAAACTTTAATTTCG
63 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTAGAAACTTTAATTTCG
11546543 A-GAAAAATTGATACTTTCAACTTTTCTTCAAAAACAAACTTTTTTTTTGAAAATTTATTTTTAA
1 AGGAAAAATTGATACTTTCAACTTTTCTTCAAAAA-AAAC-TTTTTTTTGAAAATTTATTTTTAA
*
11546607 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCG
64 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCG
* * * *
11546664 AGGAAAAATTGATACTTTTAACTTTTCCTC-AAAAAAAC-CTTTTTTGAAAATTTATTTTTAAGA
1 AGGAAAAATTGATACTTTCAACTTTTCTTCAAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGG
11546727 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
66 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
11546766 TTTTAGAAAG
Statistics
Matches: 211, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
118 62 0.29
120 4 0.02
121 31 0.15
122 56 0.27
123 57 0.27
124 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (120 bp):
AGGAAAAATTGATACTTTCAACTTTTCTTCAAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGG
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACTTTAATTTCG
Found at i:11546767 original size:59 final size:59
Alignment explanation
Indices: 11546422--11546767 Score: 390
Period size: 59 Copynumber: 5.7 Consensus size: 59
11546412 TTTTGTACAG
*
11546422 GAAAAATTGATACTTTCAACTTTTCCTTAAATAAAAATATTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAA-AAAAAT-TTTTTTTGAAAATTTATTTTTAA
* * * * * **
11546484 GGAAAATTGATACTTTTAACTTTTCCCAAAAAATATTTTTTTTAGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAAAAATTTTTTTT-GAAAATTTATTTTTAA
*
11546544 GAAAAATTGATACTTTCAACTTTTCTTCAAAAACAAACTTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTC-CCAAAAA-AAA--TTTTTTTTGAAAATTTATTTTTAA
* * * * * ** *
11546607 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAACTTTAATTTCGAG
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAAAAATTTTTTTTGAAAATTT-ATTTTTAA
* **
11546666 GAAAAATTGATACTTTTAACTTTTCCTC-AAAAAAACCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAAAAATTTTTTTTGAAAATTTATTTTTAA
* *
11546725 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAAAAATTTTTTTT
11546768 TTAGAAAGCT
Statistics
Matches: 237, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
58 14 0.06
59 84 0.35
60 53 0.22
61 11 0.05
62 31 0.13
63 36 0.15
64 8 0.03
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAAAAATTTTTTTTGAAAATTTATTTTTAA
Found at i:11546834 original size:17 final size:16
Alignment explanation
Indices: 11546814--11546847 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11546804 AATGCAATAA
*
11546814 AAATGAAAATAAACAAT
1 AAATAAAAATAAA-AAT
11546831 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
11546847 A
1 A
11546848 TTAAACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:11547194 original size:19 final size:19
Alignment explanation
Indices: 11547166--11547202 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11547156 TTTTAGCTTC
*
11547166 CCTTTCTTCTTTGTGTCTA
1 CCTTTCTTCTGTGTGTCTA
*
11547185 CCTTTTTTCTGTGTGTCT
1 CCTTTCTTCTGTGTGTCT
11547203 TTTTCTATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.24, G:0.14, T:0.59
Consensus pattern (19 bp):
CCTTTCTTCTGTGTGTCTA
Found at i:11547444 original size:27 final size:28
Alignment explanation
Indices: 11547408--11547472 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
11547398 ATAACAAAAA
11547408 AATAGATAAATAAA-AGAAA-TAGATAAAT
1 AATA-ATAAATAAATA-AAAGTAGATAAAT
11547436 AATAATAAA-AAATAAAAGTAGATAAAT
1 AATAATAAATAAATAAAAGTAGATAAAT
11547463 AATAA-AAATA
1 AATAATAAATA
11547473 TTAATAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 9 0.26
27 21 0.62
28 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (28 bp):
AATAATAAATAAATAAAAGTAGATAAAT
Found at i:11547489 original size:27 final size:27
Alignment explanation
Indices: 11547382--11547503 Score: 74
Period size: 27 Copynumber: 4.5 Consensus size: 27
11547372 AAATAAAAAG
*
11547382 ATAAATATATTAATAGATAACAAAAAAATA
1 ATAAAAATATTAATAGAT---AAAAAAATA
* ** *
11547412 GATAAATAAAAGAAATAGAT-AAATAATA
1 -ATAAA-AATATTAATAGATAAAAAAATA
* * *
11547440 ATAAAAA-A-TAAAAG-TAGATAAATA
1 ATAAAAATATTAATAGATAAAAAAATA
11547464 ATAAAAATATTAATAGATAAAAAAAT-
1 ATAAAAATATTAATAGATAAAAAAATA
*
11547490 ATAATATATATTAA
1 ATAA-AAATATTAA
11547504 ATAATGAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.01
24 16 0.23
25 2 0.03
26 11 0.15
27 20 0.28
28 7 0.10
31 5 0.07
32 9 0.13
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (27 bp):
ATAAAAATATTAATAGATAAAAAAATA
Found at i:11547490 original size:24 final size:24
Alignment explanation
Indices: 11547424--11547490 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 24
11547414 TAAATAAAAG
11547424 AAATAGATAAATAATAATAAAAAATA
1 AAATAGATAAA-AA-AATAAAAAATA
*
11547450 AAAGTAGAT-AAATAAT-AAAAATA
1 AAA-TAGATAAAAAAATAAAAAATA
*
11547473 TTAATAGATAAAAAAATA
1 -AAATAGATAAAAAAATA
11547491 TAATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 12 0.35
24 11 0.32
25 1 0.03
26 5 0.15
27 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATAGATAAAAAAATAAAAAATA
Found at i:11547494 original size:17 final size:16
Alignment explanation
Indices: 11547371--11547495 Score: 85
Period size: 17 Copynumber: 7.6 Consensus size: 16
11547361 AAAATTAATC
*
11547371 AAAATAAAAAGATAAA
1 AAAATAAATAGATAAA
* * * *
11547387 TATATTAATAGATAAC
1 AAAATAAATAGATAAA
11547403 AAAA-AAATAGATAAA
1 AAAATAAATAGATAAA
*
11547418 TAAAAGAAATAGATAAA
1 -AAAATAAATAGATAAA
*
11547435 TAATAATAAA-AAATAAA
1 -AA-AATAAATAGATAAA
*
11547452 AGTAGATAAATA-ATAAA
1 A--AAATAAATAGATAAA
* *
11547469 AATATTAATAGATAAA
1 AAAATAAATAGATAAA
11547485 AAAATATAATA
1 AAAATA-AATA
11547496 TATATTAAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
15 16 0.19
16 27 0.32
17 35 0.41
18 7 0.08
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATAAATAGATAAA
Found at i:11547952 original size:83 final size:82
Alignment explanation
Indices: 11547799--11548334 Score: 540
Period size: 83 Copynumber: 6.5 Consensus size: 82
11547789 CATTAACAAA
* * * * *
11547799 GCTCTTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACGGCTCCTCTAATCAAAGGCTCAAT
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATGGCTCATCTAATCAGAGGCTCAAC
* **
11547864 GACTTTGAAAAAATAAACA
65 AACTTTG-AAAAATAAATG
* * * *
11547883 GCTCCTCTAATCAGAGGCTCAGCAACTTTGAAAAGTAAATGACTCATCTAATCAGAGGCTCAACA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGCTCATCTAATCAGAGGCTCAACA
*
11547948 ACTTTGAAAAGTAAATG
66 ACTTTGAAAAATAAATG
* * *
11547965 GCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAAATAAATGGCTCCTTTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAATAAATGGCTCATCTAATCAGAGGCTCAAC
* *
11548030 ATCTTTGAAAAGTAAATG
65 AACTTTGAAAAATAAATG
* *
11548048 GCTCATCTAATTAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCATCTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAATAAATGGCTCATCTAATCAGAGGCTCAAC
11548113 AACTTTGAAAAAATAAATG
65 AACTTTG-AAAAATAAATG
* * * * *
11548132 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTC-TCCTAATCAAAAGCTTAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGCTCAT-CTAATCAGAGGCTCAAC
* * *
11548196 --TTTTGAAAAGTAAATT
65 AACTTTGAAAAATAAATG
* * * **** * * * * * *
11548212 GCTTCTCTAAACAGAGGCACCTTAACTTTTGGAAAGTAAATTGCTCCTCTAAAT-AGAGGCACCA
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATGGCTCATCT-AATCAGAGGCTCAA
* *
11548276 CAACTTTGGAAAATAAATT
64 CAACTTTGAAAAATAAATG
* * * * *
11548295 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
11548335 TACTCCTTGA
Statistics
Matches: 384, Mismatches: 60, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
80 29 0.08
81 29 0.08
82 53 0.14
83 213 0.55
84 60 0.16
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (82 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGCTCATCTAATCAGAGGCTCAACA
ACTTTGAAAAATAAATG
Done.